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Lucila Ohno-Machado

MD, MBA, PhD

Waldemar von Zedtwitz Professor of Medicine and Biomedical Informatics and Data Science; Deputy Dean for Biomedical Informatics; Chair, Section of Biomedical Informatics and Data Science

Research & Publications
Biography
News

Coauthors

Selected Publications

Patient and researcher stakeholder preferences for use of electronic health record data: a qualitative study to guide the design and development of a platform to honor patient preferences.Morse B, Kim K, Xu Z, Matsumoto C, Schilling L, Ohno-Machado L, Mak S, Keller M. Patient and researcher stakeholder preferences for use of electronic health record data: a qualitative study to guide the design and development of a platform to honor patient preferences. Journal Of The American Medical Informatics Association 2023, 30: 1137-1149. PMID: 37141581, PMCID: PMC10198527, DOI: 10.1093/jamia/ocad058.
Simulating complex patient populations with hierarchical learning effects to support methods development for post-market surveillanceDavis S, Ssemaganda H, Koola J, Mao J, Westerman D, Speroff T, Govindarajulu U, Ramsay C, Sedrakyan A, Ohno-Machado L, Resnic F, Matheny M. Simulating complex patient populations with hierarchical learning effects to support methods development for post-market surveillance. BMC Medical Research Methodology 2023, 23: 89. PMID: 37041457, PMCID: PMC10088292, DOI: 10.1186/s12874-023-01913-9.
Blockchain-enabled immutable, distributed, and highly available clinical research activity logging system for federated COVID-19 data analysis from multiple institutionsKuo T, Pham A, Edelson M, Kim J, Chan J, Gupta Y, Ohno-Machado L, Anderson D, Balacha C, Bath T, Baxter S, Becker-Pennrich A, Bell D, Bernstam E, Ngan C, Day M, Doctor J, DuVall S, El-Kareh R, Florian R, Follett R, Geisler B, Ghigi A, Gottlieb A, Hinske L, Hu Z, Ir D, Jiang X, Kim K, Kim J, Knight T, Koola J, Kuo T, Lee N, Mansmann U, Matheny M, Meeker D, Mou Z, Neumann L, Nguyen N, Nick A, Ohno-Machado L, Park E, Paul P, Pletcher M, Post K, Rieder C, Scherer C, Schilling L, Soares A, SooHoo S, Soysal E, Steven C, Tep B, Toy B, Wang B, Wu Z, Xu H, Yong C, Zheng K, Zhou Y, Zucker R. Blockchain-enabled immutable, distributed, and highly available clinical research activity logging system for federated COVID-19 data analysis from multiple institutions. Journal Of The American Medical Informatics Association 2023, 30: 1167-1178. PMID: 36916740, PMCID: PMC10198529, DOI: 10.1093/jamia/ocad049.
A hierarchical strategy to minimize privacy risk when linking “De-identified” data in biomedical research consortiaOhno-Machado L, Jiang X, Kuo T, Tao S, Chen L, Ram P, Zhang G, Xu H. A hierarchical strategy to minimize privacy risk when linking “De-identified” data in biomedical research consortia. Journal Of Biomedical Informatics 2023, 139: 104322. PMID: 36806328, PMCID: PMC10975485, DOI: 10.1016/j.jbi.2023.104322.
Chapter 7 Data-driven approaches to generating knowledge: Machine learning, artificial intelligence, and predictive modelingMatheny M, Ohno-Machado L, Davis S, Nemati S. Chapter 7 Data-driven approaches to generating knowledge: Machine learning, artificial intelligence, and predictive modeling. 2023, 217-255. DOI: 10.1016/b978-0-323-91200-6.00031-0.
Evaluation of available risk scores to predict multiple cardiovascular complications for patients with type 2 diabetes mellitus using electronic health recordsHo J, Staimez L, Narayan K, Ohno-Machado L, Simpson R, Hertzberg V. Evaluation of available risk scores to predict multiple cardiovascular complications for patients with type 2 diabetes mellitus using electronic health records. Computer Methods And Programs In Biomedicine Update 2022, 3: 100087. PMID: 37332899, PMCID: PMC10274317, DOI: 10.1016/j.cmpbup.2022.100087.
Achieving a Representative Sample of Asian Americans in Biomedical Research Through Community-Based Approaches: Comparing Demographic Data in the All of Us Research Program With the American Community SurveyRandal F, Lozano P, Qi S, Maene C, Shah S, Mo Y, Ratsimbazafy F, Boerwinkle E, Cicek M, Clark C, Cohn E, Gebo K, Loperena R, Mayo K, Mockrin S, Ohno-Machado L, Schully S, Ramirez A, Aschebrook-Kilfoy B, Ahsan H, Lam H, Kim K. Achieving a Representative Sample of Asian Americans in Biomedical Research Through Community-Based Approaches: Comparing Demographic Data in the All of Us Research Program With the American Community Survey. Journal Of Transcultural Nursing 2022, 34: 59-67. PMID: 36398985, DOI: 10.1177/10436596221130796.
Investigation of hypertension and type 2 diabetes as risk factors for dementia in the All of Us cohortNagar S, Pemu P, Qian J, Boerwinkle E, Cicek M, Clark C, Cohn E, Gebo K, Loperena R, Mayo K, Mockrin S, Ohno-Machado L, Ramirez A, Schully S, Able A, Green A, Zuchner S, Jordan I, Meller R. Investigation of hypertension and type 2 diabetes as risk factors for dementia in the All of Us cohort. Scientific Reports 2022, 12: 19797. PMID: 36396674, PMCID: PMC9672061, DOI: 10.1038/s41598-022-23353-z.
Comparative Safety and Effectiveness of Biologic Therapy for Crohn’s Disease: A CA-IBD Cohort StudySingh S, Kim J, Luo J, Paul P, Rudrapatna V, Park S, Zheng K, Syal G, Ha C, Fleshner P, McGovern D, Sauk J, Limketkai B, Dulai P, Boland B, Eisenstein S, Ramamoorthy S, Melmed G, Mahadevan U, Sandborn W, Ohno-Machado L. Comparative Safety and Effectiveness of Biologic Therapy for Crohn’s Disease: A CA-IBD Cohort Study. Clinical Gastroenterology And Hepatology 2022, 21: 2359-2369.e5. PMID: 36343846, DOI: 10.1016/j.cgh.2022.10.029.
Concordance of SARS-CoV-2 Antibody Results during a Period of Low PrevalenceMiller C, Althoff K, Schlueter D, Anton-Culver H, Chen Q, Garbett S, Ratsimbazafy F, Thomsen I, Karlson E, Cicek M, Pinto L, Malin B, Ohno-Machado L, Williams C, Goldstein D, Kouame A, Ramirez A, Gebo K, Schully S. Concordance of SARS-CoV-2 Antibody Results during a Period of Low Prevalence. MSphere 2022, 7: e00257-22. PMID: 36173112, PMCID: PMC9599436, DOI: 10.1128/msphere.00257-22.
The evolving privacy and security concerns for genomic data analysis and sharing as observed from the iDASH competitionKuo T, Jiang X, Tang H, Wang X, Harmanci A, Kim M, Post K, Bu D, Bath T, Kim J, Liu W, Chen H, Ohno-Machado L. The evolving privacy and security concerns for genomic data analysis and sharing as observed from the iDASH competition. Journal Of The American Medical Informatics Association 2022, 29: 2182-2190. PMID: 36164820, PMCID: PMC9667175, DOI: 10.1093/jamia/ocac165.
An Overview of Cancer in the First 315,000 All of Us ParticipantsAschebrook-Kilfoy B, Zakin P, Craver A, Shah S, Kibriya M, Stepniak E, Ramirez A, Clark C, Cohn E, Ohno-Machado L, Cicek M, Boerwinkle E, Schully S, Mockrin S, Gebo K, Mayo K, Ratsimbazafy F, Sanders A, Shah R, Argos M, Ho J, Kim K, Daviglus M, Greenland P, Ahsan H, . An Overview of Cancer in the First 315,000 All of Us Participants. PLOS ONE 2022, 17: e0272522. PMID: 36048778, PMCID: PMC9436122, DOI: 10.1371/journal.pone.0272522.
Ethnic and Racial Inequities in Cancer Screening During the COVID-19 Pandemic: a multi-site observational study in the United StatesIdossa D, Borno H, Wang K, Pletcher M, Gresham G, Canchola A, Bell D, Matheny M, Schilling L, Perkins A, Zheng K, Ohno-Machado L, Kim J, Soohoo S, Meeker D, Gomez S. Ethnic and Racial Inequities in Cancer Screening During the COVID-19 Pandemic: a multi-site observational study in the United States. International Journal Of Cancer Care And Delivery 2022, 2 DOI: 10.53876/001c.37412.
The All of Us Research Program: Data quality, utility, and diversityRamirez A, Sulieman L, Schlueter D, Halvorson A, Qian J, Ratsimbazafy F, Loperena R, Mayo K, Basford M, Deflaux N, Muthuraman K, Natarajan K, Kho A, Xu H, Wilkins C, Anton-Culver H, Boerwinkle E, Cicek M, Clark C, Cohn E, Ohno-Machado L, Schully S, Ahmedani B, Argos M, Cronin R, O’Donnell C, Fouad M, Goldstein D, Greenland P, Hebbring S, Karlson E, Khatri P, Korf B, Smoller J, Sodeke S, Wilbanks J, Hentges J, Mockrin S, Lunt C, Devaney S, Gebo K, Denny J, Carroll R, Glazer D, Harris P, Hripcsak G, Philippakis A, Roden D, Program T, Ahmedani B, Johnson C, Ahsan H, Antoine-LaVigne D, Singleton G, Anton-Culver H, Topol E, Baca-Motes K, Steinhubl S, Wade J, Begale M, Jain P, Sutherland S, Lewis B, Korf B, Behringer M, Gharavi A, Goldstein D, Hripcsak G, Bier L, Boerwinkle E, Brilliant M, Murali N, Hebbring S, Farrar-Edwards D, Burnside E, Drezner M, Taylor A, Channamsetty V, Montalvo W, Sharma Y, Chinea C, Jenks N, Cicek M, Thibodeau S, Holmes B, Schlueter E, Collier E, Winkler J, Corcoran J, D’Addezio N, Daviglus M, Winn R, Wilkins C, Roden D, Denny J, Doheny K, Nickerson D, Eichler E, Jarvik G, Funk G, Philippakis A, Rehm H, Lennon N, Kathiresan S, Gabriel S, Gibbs R, Rico E, Glazer D, Grand J, Greenland P, Harris P, Shenkman E, Hogan W, Igho-Pemu P, Pollan C, Jorge M, Okun S, Karlson E, Smoller J, Murphy S, Ross M, Kaushal R, Winford E, Wallace F, Khatri P, Kheterpal V, Ojo A, Moreno F, Kron I, Peterson R, Menon U, Lattimore P, Leviner N, Obedin-Maliver J, Lunn M, Malik-Gagnon L, Mangravite L, Marallo A, Marroquin O, Visweswaran S, Reis S, Marshall G, McGovern P, Mignucci D, Moore J, Munoz F, Talavera G, O'Connor G, O'Donnell C, Ohno-Machado L, Orr G, Randal F, Theodorou A, Reiman E, Roxas-Murray M, Stark L, Tepp R, Zhou A, Topper S, Trousdale R, Tsao P, Weidman L, Weiss S, Wellis D, Whittle J, Wilson A, Zuchner S, Zwick M. The All of Us Research Program: Data quality, utility, and diversity. Patterns 2022, 3: 100570. PMID: 36033590, PMCID: PMC9403360, DOI: 10.1016/j.patter.2022.100570.
IMI-CDE: an interactive interface for collaborative mapping of study variables to common data elementsTao S, Chou W, Li J, Du J, Ram P, Abeysinghe R, Xu H, Jiang X, Rose P, Ohno-Machado L, Zhang G. IMI-CDE: an interactive interface for collaborative mapping of study variables to common data elements. 2022, 00: 465-468. DOI: 10.1109/ichi54592.2022.00070.
Effect of Obesity on Risk of Hospitalization, Surgery, and Serious Infection in Biologic-Treated Patients With Inflammatory Bowel Diseases: A CA-IBD Cohort StudyGu P, Luo J, Kim J, Paul P, Limketkai B, Sauk J, Park S, Parekh N, Zheng K, Rudrapatna V, Syal G, Ha C, McGovern D, Melmed G, Fleshner P, Eisenstein S, Ramamoorthy S, Dulai P, Boland B, Grunvald E, Mahadevan U, Ohno-Machado L, Sandborn W, Singh S. Effect of Obesity on Risk of Hospitalization, Surgery, and Serious Infection in Biologic-Treated Patients With Inflammatory Bowel Diseases: A CA-IBD Cohort Study. The American Journal Of Gastroenterology 2022, 117: 1639-1647. PMID: 35973139, DOI: 10.14309/ajg.0000000000001855.
Simplified Machine Learning Models Can Accurately Identify High-Need High-Cost Patients With Inflammatory Bowel DiseaseNguyen N, Patel S, Gabunilas J, Qian A, Cecil A, Jairath V, Sandborn W, Ohno-Machado L, Chen P, Singh S. Simplified Machine Learning Models Can Accurately Identify High-Need High-Cost Patients With Inflammatory Bowel Disease. Clinical And Translational Gastroenterology 2022, 13: e00507. PMID: 35905414, PMCID: PMC10476830, DOI: 10.14309/ctg.0000000000000507.
Effectiveness and Safety of Biologic Therapy in Hispanic Vs Non-Hispanic Patients With Inflammatory Bowel Diseases: A CA-IBD Cohort StudyNguyen N, Luo J, Paul P, Kim J, Syal G, Ha C, Rudrapatna V, Park S, Parekh N, Zheng K, Sauk J, Limketkai B, Fleshner P, Eisenstein S, Ramamoorthy S, Melmed G, Dulai P, Boland B, Mahadevan U, Sandborn W, Ohno-Machado L, McGovern D, Singh S. Effectiveness and Safety of Biologic Therapy in Hispanic Vs Non-Hispanic Patients With Inflammatory Bowel Diseases: A CA-IBD Cohort Study. Clinical Gastroenterology And Hepatology 2022, 21: 173-181.e5. PMID: 35644340, PMCID: PMC9701245, DOI: 10.1016/j.cgh.2022.05.008.
NLM’s sponsorship of research in biomedical informatics (1985–2016)Kuo T, Ohno-Machado L. NLM’s sponsorship of research in biomedical informatics (1985–2016). Information Services & Use 2022, 42: 61-70. PMID: 35600120, PMCID: PMC9108565, DOI: 10.3233/isu-210137.
Inclusion of social determinants of health improves sepsis readmission prediction modelsAmrollahi F, Shashikumar S, Meier A, Ohno-Machado L, Nemati S, Wardi G. Inclusion of social determinants of health improves sepsis readmission prediction models. Journal Of The American Medical Informatics Association 2022, 29: 1263-1270. PMID: 35511233, PMCID: PMC9196687, DOI: 10.1093/jamia/ocac060.
Su1018: UNPLANNED HEALTHCARE UTILIZATION AND SAFETY OF BIOLOGIC THERAPY IN HISPANIC VS. NON-HISPANIC PATIENTS WITH IBDNguyen N, Luo J, Paul P, Kim J, Syal G, Ha C, Rudrapatna V, Park S, Parekh N, Zheng K, Sauk J, Limketkai B, Fleshner P, Eisenstein S, Ramamoorthy S, Melmed G, Boland B, Mahadevan U, Sandborn W, Ohno-Machado L, Mcgovern D, Singh S. Su1018: UNPLANNED HEALTHCARE UTILIZATION AND SAFETY OF BIOLOGIC THERAPY IN HISPANIC VS. NON-HISPANIC PATIENTS WITH IBD. Gastroenterology 2022, 162: s-482-s-483. DOI: 10.1016/s0016-5085(22)61145-4.
454: OBESITY IS NOT ASSOCIATED WITH INCREASED RISK OF ADVERSE TREATMENT OUTCOMES OR SERIOUS INFECTION IN INFLAMMATORY BOWEL DISEASES PATIENTS (IBD) STARTING NEW BIOLOGIC THERAPYGu P, Luo J, Paul P, Limketkai B, Sauk J, Park S, Parekh N, Zheng K, Rudrapatna V, Syal G, Ha C, Mcgovern D, Melmed G, Fleshner P, Eisenstein S, Ramamoorthy S, Dulai P, Boland B, Mahadevan U, Ohno-Machado L, Sandborn W, Singh S. 454: OBESITY IS NOT ASSOCIATED WITH INCREASED RISK OF ADVERSE TREATMENT OUTCOMES OR SERIOUS INFECTION IN INFLAMMATORY BOWEL DISEASES PATIENTS (IBD) STARTING NEW BIOLOGIC THERAPY. Gastroenterology 2022, 162: s-101-s-102. DOI: 10.1016/s0016-5085(22)60253-1.
A research agenda to support the development and implementation of genomics-based clinical informatics tools and resourcesWiley K, Findley L, Goldrich M, Rakhra-Burris T, Stevens A, Williams P, Bult C, Chisholm R, Deverka P, Ginsburg G, Green E, Jarvik G, Mensah G, Ramos E, Relling M, Roden D, Rowley R, Alterovitz G, Aronson S, Bastarache L, Cimino J, Crowgey E, Del Fiol G, Freimuth R, Hoffman M, Jeff J, Johnson K, Kawamoto K, Madhavan S, Mendonca E, Ohno-Machado L, Pratap S, Taylor C, Ritchie M, Walton N, Weng C, Zayas-Cabán T, Manolio T, Williams M. A research agenda to support the development and implementation of genomics-based clinical informatics tools and resources. Journal Of The American Medical Informatics Association 2022, 29: 1342-1349. PMID: 35485600, PMCID: PMC9277642, DOI: 10.1093/jamia/ocac057.
Codesigning a community-based participatory research project to assess tribal perspectives on privacy and health data sharing: A report from the Strong Heart StudyTriplett C, Fletcher B, Taitingfong R, Zhang Y, Ali T, Ohno-Machado L, Bloss C. Codesigning a community-based participatory research project to assess tribal perspectives on privacy and health data sharing: A report from the Strong Heart Study. Journal Of The American Medical Informatics Association 2022, 29: 1120-1127. PMID: 35349678, PMCID: PMC9093024, DOI: 10.1093/jamia/ocac038.
A tribute to Karen Greenwood and her contributions to the American Medical Informatics AssociationLehmann C, Brennan P, Detmer D, Jackson G, Ohno-Machado L, Safran C, Williamson J, Shortliffe E. A tribute to Karen Greenwood and her contributions to the American Medical Informatics Association. Journal Of The American Medical Informatics Association 2022, 29: 1011-1013. PMID: 35303086, PMCID: PMC9006698, DOI: 10.1093/jamia/ocac039.
Epidemiology of atrial fibrillation in the All of Us Research ProgramAlonso A, Alam A, Kamel H, Subbian V, Qian J, Boerwinkle E, Cicek M, Clark C, Cohn E, Gebo K, Loperena-Cortes R, Mayo K, Mockrin S, Ohno-Machado L, Schully S, Ramirez A, Greenland P. Epidemiology of atrial fibrillation in the All of Us Research Program. PLOS ONE 2022, 17: e0265498. PMID: 35294480, PMCID: PMC8926244, DOI: 10.1371/journal.pone.0265498.
Protein and miRNA profile of circulating extracellular vesicles in patients with primary sclerosing cholangitisPovero D, Tameda M, Eguchi A, Ren W, Kim J, Myers R, Goodman Z, Harrison S, Sanyal A, Bosch J, Ohno-Machado L, Feldstein A. Protein and miRNA profile of circulating extracellular vesicles in patients with primary sclerosing cholangitis. Scientific Reports 2022, 12: 3027. PMID: 35194091, PMCID: PMC8863778, DOI: 10.1038/s41598-022-06809-0.
NLM's Sponsorship of Research in Biomedical Informatics (1985-2016).Kuo T, Ohno-Machado L. NLM's Sponsorship of Research in Biomedical Informatics (1985-2016). 2022, 288: 64-73. PMID: 35102829, DOI: 10.3233/shti210982.
Geographic Variation in Obesity at the State Level in the All of Us Research ProgramClark C, Chandler P, Zhou G, Noel N, Achilike C, Mendez L, O’Connor G, Smoller J, Weiss S, Murphy S, Ommerborn M, Karnes J, Klimentidis Y, Jordan C, Hiatt R, Ramirez A, Loperena R, Mayo K, Cohn E, Ohno-Machado L, Boerwinkle E, Cicek M, Schully S, Mockrin S, Gebo K, Karlson E. Geographic Variation in Obesity at the State Level in the All of Us Research Program. Preventing Chronic Disease 2021, 18: e104. PMID: 34941480, PMCID: PMC8718125, DOI: 10.5888/pcd18.210094.
Digital Health Technologies for Remote Monitoring and Management of Inflammatory Bowel Disease: A Systematic ReviewNguyen N, Martinez I, Atreja A, Sitapati A, Sandborn W, Ohno-Machado L, Singh S. Digital Health Technologies for Remote Monitoring and Management of Inflammatory Bowel Disease: A Systematic Review. The American Journal Of Gastroenterology 2021, 117: 78-97. PMID: 34751673, PMCID: PMC8987011, DOI: 10.14309/ajg.0000000000001545.
Pediatric data from the All of Us research program: demonstration of pediatric obesity over timeGiangreco N, Lina S, Qian J, Kuoame A, Subbian V, Boerwinkle E, Cicek M, Clark C, Cohen E, Gebo K, Loperena-Cortes R, Mayo K, Mockrin S, Ohno-Machado L, Schully S, Tatonetti N, Ramirez A. Pediatric data from the All of Us research program: demonstration of pediatric obesity over time. JAMIA Open 2021, 4: ooab112. PMID: 35155998, PMCID: PMC8827025, DOI: 10.1093/jamiaopen/ooab112.
Machine Learning-based Prediction Models for Diagnosis and Prognosis in Inflammatory Bowel Diseases: A Systematic ReviewNguyen N, Picetti D, Dulai P, Jairath V, Sandborn W, Ohno-Machado L, Chen P, Singh S. Machine Learning-based Prediction Models for Diagnosis and Prognosis in Inflammatory Bowel Diseases: A Systematic Review. Journal Of Crohn's And Colitis 2021, 16: 398-413. PMID: 34492100, PMCID: PMC8919806, DOI: 10.1093/ecco-jcc/jjab155.
Ultrafast homomorphic encryption models enable secure outsourcing of genotype imputationKim M, Harmanci A, Bossuat J, Carpov S, Cheon J, Chillotti I, Cho W, Froelicher D, Gama N, Georgieva M, Hong S, Hubaux J, Kim D, Lauter K, Ma Y, Ohno-Machado L, Sofia H, Son Y, Song Y, Troncoso-Pastoriza J, Jiang X. Ultrafast homomorphic encryption models enable secure outsourcing of genotype imputation. Cell Systems 2021, 12: 1108-1120.e4. PMID: 34464590, PMCID: PMC9898842, DOI: 10.1016/j.cels.2021.07.010.
Benchmarking blockchain-based gene-drug interaction data sharing methods: A case study from the iDASH 2019 secure genome analysis competition blockchain trackKuo T, Bath T, Ma S, Pattengale N, Yang M, Cao Y, Hudson C, Kim J, Post K, Xiong L, Ohno-Machado L. Benchmarking blockchain-based gene-drug interaction data sharing methods: A case study from the iDASH 2019 secure genome analysis competition blockchain track. International Journal Of Medical Informatics 2021, 154: 104559. PMID: 34474309, PMCID: PMC9933142, DOI: 10.1016/j.ijmedinf.2021.104559.
Racial, ethnic, and gender differences in obesity and body fat distribution: An All of Us Research Program demonstration projectKarnes J, Arora A, Feng J, Steiner H, Sulieman L, Boerwinkle E, Clark C, Cicek M, Cohn E, Gebo K, Loperena-Cortes R, Ohno-Machado L, Mayo K, Mockrin S, Ramirez A, Schully S, Klimentidis Y. Racial, ethnic, and gender differences in obesity and body fat distribution: An All of Us Research Program demonstration project. PLOS ONE 2021, 16: e0255583. PMID: 34358277, PMCID: PMC8345840, DOI: 10.1371/journal.pone.0255583.
Hypertension prevalence in the All of Us Research Program among groups traditionally underrepresented in medical researchChandler P, Clark C, Zhou G, Noel N, Achilike C, Mendez L, Ramirez A, Loperena-Cortes R, Mayo K, Cohn E, Ohno-Machado L, Boerwinkle E, Cicek M, Qian J, Schully S, Ratsimbazafy F, Mockrin S, Gebo K, Dedier J, Murphy S, Smoller J, Karlson E. Hypertension prevalence in the All of Us Research Program among groups traditionally underrepresented in medical research. Scientific Reports 2021, 11: 12849. PMID: 34158555, PMCID: PMC8219813, DOI: 10.1038/s41598-021-92143-w.
Antibodies to SARS-CoV-2 in All of Us Research Program Participants, January 2-March 18, 2020Althoff K, Schlueter D, Anton-Culver H, Cherry J, Denny J, Thomsen I, Karlson E, Havers F, Cicek M, Thibodeau S, Pinto L, Lowy D, Malin B, Ohno-Machado L, Williams C, Goldstein D, Kouame A, Ramirez A, Roman A, Sharpless N, Gebo K, Schully S, Program O. Antibodies to SARS-CoV-2 in All of Us Research Program Participants, January 2-March 18, 2020. Clinical Infectious Diseases 2021, 74: ciab519. PMID: 34128970, PMCID: PMC8384413, DOI: 10.1093/cid/ciab519.
Privacy-protecting, reliable response data discovery using COVID-19 patient observationsKim J, Neumann L, Paul P, Day M, Aratow M, Bell D, Doctor J, Hinske L, Jiang X, Kim K, Matheny M, Meeker D, Pletcher M, Schilling L, SooHoo S, Xu H, Zheng K, Ohno-Machado L, Anderson D, Anderson N, Balacha C, Bath T, Baxter S, Becker-Pennrich A, Bernstam E, Carter W, Chau N, Choi Y, Covington S, DuVall S, El-Kareh R, Florian R, Follett R, Geisler B, Ghigi A, Gottlieb A, Hu Z, Ir D, Knight T, Koola J, Kuo T, Lee N, Mansmann U, Mou Z, Murphy R, Neumann L, Nguyen N, Niedermayer S, Park E, Perkins A, Post K, Rieder C, Scherer C, Soares A, Soysal E, Tep B, Toy B, Wang B, Wu Z, Zhou Y, Zucker R. Privacy-protecting, reliable response data discovery using COVID-19 patient observations. Journal Of The American Medical Informatics Association 2021, 28: 1765-1776. PMID: 34051088, PMCID: PMC8194878, DOI: 10.1093/jamia/ocab054.
VERTIcal Grid lOgistic regression with Confidence Intervals (VERTIGO-CI).Kim J, Li W, Bath T, Jiang X, Ohno-Machado L. VERTIcal Grid lOgistic regression with Confidence Intervals (VERTIGO-CI). AMIA Joint Summits On Translational Science Proceedings 2021, 2021: 355-364. PMID: 34457150, PMCID: PMC8378611.
Sa503 MACHINE LEARNING OUTPERFORMS TRADITIONAL RISK MODEL IN IDENTIFYING HIGH-NEED, HIGH-COST PATIENTS WITH INFLAMMATORY BOWEL DISEASES IN A NATIONALLY REPRESENTATIVE COHORTNguyen N, Patel S, Gabunilas J, Qian A, Cecil A, Ohno-Machado L, Sandborn W, Singh S, Chen P. Sa503 MACHINE LEARNING OUTPERFORMS TRADITIONAL RISK MODEL IN IDENTIFYING HIGH-NEED, HIGH-COST PATIENTS WITH INFLAMMATORY BOWEL DISEASES IN A NATIONALLY REPRESENTATIVE COHORT. Gastroenterology 2021, 160: s-525. PMCID: PMC8108304, DOI: 10.1016/s0016-5085(21)01959-4.
Calibrating predictive model estimates in a distributed network of patient dataHuang Y, Jiang X, Gabriel R, Ohno-Machado L. Calibrating predictive model estimates in a distributed network of patient data. Journal Of Biomedical Informatics 2021, 117: 103758. PMID: 33811986, DOI: 10.1016/j.jbi.2021.103758.
Predictive Analytics for Glaucoma Using Data From the All of Us Research ProgramBaxter S, Saseendrakumar B, Paul P, Kim J, Bonomi L, Kuo T, Loperena R, Ratsimbazafy F, Boerwinkle E, Cicek M, Clark C, Cohn E, Gebo K, Mayo K, Mockrin S, Schully S, Ramirez A, Ohno-Machado L, Investigators A. Predictive Analytics for Glaucoma Using Data From the All of Us Research Program. American Journal Of Ophthalmology 2021, 227: 74-86. PMID: 33497675, PMCID: PMC8184631, DOI: 10.1016/j.ajo.2021.01.008.
How do we share data in COVID-19 research? A systematic review of COVID-19 datasets in PubMed Central ArticlesZuo X, Chen Y, Ohno-Machado L, Xu H. How do we share data in COVID-19 research? A systematic review of COVID-19 datasets in PubMed Central Articles. Briefings In Bioinformatics 2020, 22: 800-811. PMID: 33757278, PMCID: PMC7799277, DOI: 10.1093/bib/bbaa331.
Use of electronic health records to support a public health response to the COVID-19 pandemic in the United States: a perspective from 15 academic medical centersMadhavan S, Bastarache L, Brown J, Butte A, Dorr D, Embi P, Friedman C, Johnson K, Moore J, Kohane I, Payne P, Tenenbaum J, Weiner M, Wilcox A, Ohno-Machado L. Use of electronic health records to support a public health response to the COVID-19 pandemic in the United States: a perspective from 15 academic medical centers. Journal Of The American Medical Informatics Association 2020, 28: 393-401. PMID: 33260207, PMCID: PMC7665546, DOI: 10.1093/jamia/ocaa287.
A systematic literature review of Native American and Pacific Islanders’ perspectives on health data privacy in the United StatesTaitingfong R, Bloss C, Triplett C, Cakici J, Garrison N, Cole S, Stoner J, Ohno-Machado L. A systematic literature review of Native American and Pacific Islanders’ perspectives on health data privacy in the United States. Journal Of The American Medical Informatics Association 2020, 27: 1987-1998. PMID: 33063114, PMCID: PMC7727344, DOI: 10.1093/jamia/ocaa235.
National Estimates of Financial Hardship From Medical Bills and Cost-related Medication Nonadherence in Patients With Inflammatory Bowel Diseases in the United StatesNguyen NH, Khera R, Dulai PS, Boland BS, Ohno-Machado L, Sandborn WJ, Singh S. National Estimates of Financial Hardship From Medical Bills and Cost-related Medication Nonadherence in Patients With Inflammatory Bowel Diseases in the United States. Inflammatory Bowel Diseases 2020, 27: 1068-1078. PMID: 33051681, PMCID: PMC8205631, DOI: 10.1093/ibd/izaa266.
Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samplesBailey MH, Meyerson WU, Dursi LJ, Wang LB, Dong G, Liang WW, Weerasinghe A, Li S, Li Y, Kelso S, Saksena G, Ellrott K, Wendl M, Wheeler D, Getz G, Simpson J, Gerstein M, Ding L. Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples. Nature Communications 2020, 11: 4748. PMID: 32958763, PMCID: PMC7505971, DOI: 10.1038/s41467-020-18151-y.
Burden and Outcomes of Fragmentation of Care in Hospitalized Patients With Inflammatory Bowel Diseases: A Nationally Representative CohortNguyen N, Luo J, Ohno-Machado L, Sandborn W, Singh S. Burden and Outcomes of Fragmentation of Care in Hospitalized Patients With Inflammatory Bowel Diseases: A Nationally Representative Cohort. Inflammatory Bowel Diseases 2020, 27: 1026-1034. PMID: 32944753, PMCID: PMC8205632, DOI: 10.1093/ibd/izaa238.
Abstract IA10: Finding, accessing, interoperating with, and reusing clinical data in artificial intelligence applicationsOhno-Machado L. Abstract IA10: Finding, accessing, interoperating with, and reusing clinical data in artificial intelligence applications. Cancer Epidemiology Biomarkers & Prevention 2020, 29: ia10-ia10. DOI: 10.1158/1538-7755.modpop19-ia10.
COVID-19 TestNorm: A tool to normalize COVID-19 testing names to LOINC codesDong X, Li J, Soysal E, Bian J, DuVall S, Hanchrow E, Liu H, Lynch K, Matheny M, Natarajan K, Ohno-Machado L, Pakhomov S, Reeves R, Sitapati A, Abhyankar S, Cullen T, Deckard J, Jiang X, Murphy R, Xu H. COVID-19 TestNorm: A tool to normalize COVID-19 testing names to LOINC codes. Journal Of The American Medical Informatics Association 2020, 27: 1437-1442. PMID: 32569358, PMCID: PMC7337837, DOI: 10.1093/jamia/ocaa145.
Frailty Is Independently Associated with Mortality and Readmission in Hospitalized Patients with Inflammatory Bowel DiseasesQian A, Nguyen N, Elia J, Ohno-Machado L, Sandborn W, Singh S. Frailty Is Independently Associated with Mortality and Readmission in Hospitalized Patients with Inflammatory Bowel Diseases. Clinical Gastroenterology And Hepatology 2020, 19: 2054-2063.e14. PMID: 32801013, PMCID: PMC7930013, DOI: 10.1016/j.cgh.2020.08.010.
Coronavirus: indexed data speed up solutionsOhno-Machado L, Xu H. Coronavirus: indexed data speed up solutions. Nature 2020, 584: 192-192. PMID: 32782375, DOI: 10.1038/d41586-020-02331-3.
iDASH secure genome analysis competition 2018: blockchain genomic data access logging, homomorphic encryption on GWAS, and DNA segment searchingKuo T, Jiang X, Tang H, Wang X, Bath T, Bu D, Wang L, Harmanci A, Zhang S, Zhi D, Sofia H, Ohno-Machado L. iDASH secure genome analysis competition 2018: blockchain genomic data access logging, homomorphic encryption on GWAS, and DNA segment searching. BMC Medical Genomics 2020, 13: 98. PMID: 32693816, PMCID: PMC7372776, DOI: 10.1186/s12920-020-0715-0.
Privacy challenges and research opportunities for genomic data sharingBonomi L, Huang Y, Ohno-Machado L. Privacy challenges and research opportunities for genomic data sharing. Nature Genetics 2020, 52: 646-654. PMID: 32601475, PMCID: PMC7761157, DOI: 10.1038/s41588-020-0651-0.
Comprehensive characterization of hepatocyte-derived extracellular vesicles identifies direct miRNA-based regulation of hepatic stellate cells and DAMP-based hepatic macrophage IL-1β and IL-17 upregulation in alcoholic hepatitis miceEguchi A, Yan R, Pan S, Wu R, Kim J, Chen Y, Ansong C, Smith R, Tempaku M, Ohno-Machado L, Takei Y, Feldstein A, Tsukamoto H. Comprehensive characterization of hepatocyte-derived extracellular vesicles identifies direct miRNA-based regulation of hepatic stellate cells and DAMP-based hepatic macrophage IL-1β and IL-17 upregulation in alcoholic hepatitis mice. Journal Of Molecular Medicine 2020, 98: 1021-1034. PMID: 32556367, PMCID: PMC7810220, DOI: 10.1007/s00109-020-01926-7.
Efficient determination of equivalence for encrypted dataDoctor J, Vaidya J, Jiang X, Wang S, Schilling L, Ong T, Matheny M, Ohno-Machado L, Meeker D. Efficient determination of equivalence for encrypted data. Computers & Security 2020, 97: 101939. PMID: 33223585, PMCID: PMC7676425, DOI: 10.1016/j.cose.2020.101939.
Prevalence and Effects of Food Insecurity and Social Support on Financial Toxicity in and Healthcare Use by Patients With Inflammatory Bowel DiseasesNguyen NH, Khera R, Ohno-Machado L, Sandborn WJ, Singh S. Prevalence and Effects of Food Insecurity and Social Support on Financial Toxicity in and Healthcare Use by Patients With Inflammatory Bowel Diseases. Clinical Gastroenterology And Hepatology 2020, 19: 1377-1386.e5. PMID: 32526341, PMCID: PMC7987215, DOI: 10.1016/j.cgh.2020.05.056.
EXpectation Propagation LOgistic REgRession on permissioned blockCHAIN (ExplorerChain): decentralized online healthcare/genomics predictive model learningKuo T, Gabriel R, Cidambi K, Ohno-Machado L. EXpectation Propagation LOgistic REgRession on permissioned blockCHAIN (ExplorerChain): decentralized online healthcare/genomics predictive model learning. Journal Of The American Medical Informatics Association 2020, 27: 747-756. PMID: 32364235, PMCID: PMC7309256, DOI: 10.1093/jamia/ocaa023.
VERTICOX: Vertically Distributed Cox Proportional Hazards Model Using the Alternating Direction Method of MultipliersDai W, Jiang X, Bonomi L, Li Y, Xiong H, Ohno-Machado L. VERTICOX: Vertically Distributed Cox Proportional Hazards Model Using the Alternating Direction Method of Multipliers. IEEE Transactions On Knowledge And Data Engineering 2020, 34: 996-1010. PMID: 36158636, PMCID: PMC9491599, DOI: 10.1109/tkde.2020.2989301.
Active Surveillance of the Implantable Cardioverter-Defibrillator Registry for Defibrillator Lead FailuresResnic F, Majithia A, Dhruva S, Ssemaganda H, Robbins S, Marinac-Dabic D, Hewitt K, Ohno-Machado L, Reynolds M, Matheny M. Active Surveillance of the Implantable Cardioverter-Defibrillator Registry for Defibrillator Lead Failures. Circulation Cardiovascular Quality And Outcomes 2020, 13: e006105. PMID: 32283971, PMCID: PMC7360169, DOI: 10.1161/circoutcomes.119.006105.
Engaging heart failure patients from a clinical data research network: A survey on willingness to participate in different types of research.Choi Y, López J, Meeker D, Ohno-Machado L, Kim K. Engaging heart failure patients from a clinical data research network: A survey on willingness to participate in different types of research. AMIA Annual Symposium Proceedings 2020, 2019: 305-312. PMID: 32308823, PMCID: PMC7153117.
A tutorial on calibration measurements and calibration models for clinical prediction modelsHuang Y, Li W, Macheret F, Gabriel R, Ohno-Machado L. A tutorial on calibration measurements and calibration models for clinical prediction models. Journal Of The American Medical Informatics Association 2020, 27: 621-633. PMID: 32106284, PMCID: PMC7075534, DOI: 10.1093/jamia/ocz228.
The Data Tags Suite (DATS) model for discovering data access and use requirementsAlter G, Gonzalez-Beltran A, Ohno-Machado L, Rocca-Serra P. The Data Tags Suite (DATS) model for discovering data access and use requirements. GigaScience 2020, 9: giz165. PMID: 32031623, PMCID: PMC7006671, DOI: 10.1093/gigascience/giz165.
Promoting Quality Face-to-Face Communication during Ophthalmology Encounters in the Electronic Health Record EraBaxter S, Gali H, Chiang M, Hribar M, Ohno-Machado L, El-Kareh R, Huang A, Chen H, Camp A, Kikkawa D, Korn B, Lee J, Longhurst C, Millen M. Promoting Quality Face-to-Face Communication during Ophthalmology Encounters in the Electronic Health Record Era. Applied Clinical Informatics 2020, 11: 130-141. PMID: 32074650, PMCID: PMC7030957, DOI: 10.1055/s-0040-1701255.
Protecting patient privacy in survival analysesBonomi L, Jiang X, Ohno-Machado L. Protecting patient privacy in survival analyses. Journal Of The American Medical Informatics Association 2019, 27: 366-375. PMID: 31750926, PMCID: PMC7025359, DOI: 10.1093/jamia/ocz195.
Patient Perspectives About Decisions to Share Medical Data and Biospecimens for ResearchKim J, Kim H, Bell E, Bath T, Paul P, Pham A, Jiang X, Zheng K, Ohno-Machado L. Patient Perspectives About Decisions to Share Medical Data and Biospecimens for Research. JAMA Network Open 2019, 2: e199550. PMID: 31433479, PMCID: PMC6707015, DOI: 10.1001/jamanetworkopen.2019.9550.
Machine Learning-Based Predictive Modeling of Surgical Intervention in Glaucoma Using Systemic Data From Electronic Health RecordsBaxter S, Marks C, Kuo T, Ohno-Machado L, Weinreb R. Machine Learning-Based Predictive Modeling of Surgical Intervention in Glaucoma Using Systemic Data From Electronic Health Records. American Journal Of Ophthalmology 2019, 208: 30-40. PMID: 31323204, PMCID: PMC6888922, DOI: 10.1016/j.ajo.2019.07.005.
Impact of Electronic Health Record Implementation on Ophthalmology Trainee Time ExpendituresGali H, Baxter S, Lander L, Huang A, Millen M, El-Kareh R, Nudleman E, Chao D, Robbins S, Heichel C, Camp A, Korn B, Lee J, Kikkawa D, Longhurst C, Chiang M, Hribar M, Ohno-Machado L. Impact of Electronic Health Record Implementation on Ophthalmology Trainee Time Expenditures. Journal Of Academic Ophthalmology 2019, 11: e65-e72. PMID: 33954272, PMCID: PMC8095731, DOI: 10.1055/s-0039-3401986.
Secure and Differentially Private Logistic Regression for Horizontally Distributed DataKim M, Lee J, Ohno-Machado L, Jiang X. Secure and Differentially Private Logistic Regression for Horizontally Distributed Data. IEEE Transactions On Information Forensics And Security 2019, 15: 695-710. DOI: 10.1109/tifs.2019.2925496.
Comparison of blockchain platforms: a systematic review and healthcare examplesKuo T, Rojas H, Ohno-Machado L. Comparison of blockchain platforms: a systematic review and healthcare examples. Journal Of The American Medical Informatics Association 2019, 26: 462-478. PMID: 30907419, PMCID: PMC7787359, DOI: 10.1093/jamia/ocy185.
Time Requirements of Paper-Based Clinical Workflows and After-Hours Documentation in a Multispecialty Academic Ophthalmology PracticeBaxter S, Gali H, Huang A, Millen M, El-Kareh R, Nudleman E, Robbins S, Heichel C, Camp A, Korn B, Lee J, Kikkawa D, Longhurst C, Chiang M, Hribar M, Ohno-Machado L. Time Requirements of Paper-Based Clinical Workflows and After-Hours Documentation in a Multispecialty Academic Ophthalmology Practice. American Journal Of Ophthalmology 2019, 206: 161-167. PMID: 30910517, PMCID: PMC6755078, DOI: 10.1016/j.ajo.2019.03.014.
Evaluating and sharing global genetic ancestry in biomedical datasetsHarismendy O, Kim J, Xu X, Ohno-Machado L. Evaluating and sharing global genetic ancestry in biomedical datasets. Journal Of The American Medical Informatics Association 2019, 26: 457-461. PMID: 30869786, PMCID: PMC6433181, DOI: 10.1093/jamia/ocy194.
A diversified informatics portfolio covering health sciences and healthcareOhno-Machado L. A diversified informatics portfolio covering health sciences and healthcare. Journal Of The American Medical Informatics Association 2018, 25: 1583-1583. PMCID: PMC7647167, DOI: 10.1093/jamia/ocy163.
Reflections on the journey of editing a scientific journalOhno-Machado L. Reflections on the journey of editing a scientific journal. Journal Of The American Medical Informatics Association 2018, 25: 1584-1585. PMID: 30541126, PMCID: PMC7647172, DOI: 10.1093/jamia/ocy167.
Clinical informatics applications of medication reconciliation, decision support systems, and online portal patient-provider communicationsOhno-Machado L. Clinical informatics applications of medication reconciliation, decision support systems, and online portal patient-provider communications. Journal Of The American Medical Informatics Association 2018, 25: 1431-1431. PMID: 30380084, PMCID: PMC7646928, DOI: 10.1093/jamia/ocy150.
Data science and artificial intelligence to improve clinical practice and researchOhno-Machado L. Data science and artificial intelligence to improve clinical practice and research. Journal Of The American Medical Informatics Association 2018, 25: 1273-1273. PMID: 30312446, PMCID: PMC7646927, DOI: 10.1093/jamia/ocy136.
Obesity Is Independently Associated With Higher Annual Burden and Costs of Hospitalization in Patients With Inflammatory Bowel DiseasesNguyen N, Ohno-Machado L, Sandborn W, Singh S. Obesity Is Independently Associated With Higher Annual Burden and Costs of Hospitalization in Patients With Inflammatory Bowel Diseases. Clinical Gastroenterology And Hepatology 2018, 17: 709-718.e7. PMID: 30012429, DOI: 10.1016/j.cgh.2018.07.004.
A Novel Stakeholder Engagement Approach for Patient-centered Outcomes ResearchKim K, Khodyakov D, Marie K, Taras H, Meeker D, Campos H, Ohno-Machado L. A Novel Stakeholder Engagement Approach for Patient-centered Outcomes Research. Medical Care 2018, 56: s41-s47. PMID: 30074950, PMCID: PMC6143220, DOI: 10.1097/mlr.0000000000000790.
Enhancing diversity to reduce health information disparities and build an evidence base for genomic medicineHindorff L, Bonham V, Ohno-Machado L. Enhancing diversity to reduce health information disparities and build an evidence base for genomic medicine. Personalized Medicine 2018, 15: 403-412. PMID: 30209973, PMCID: PMC6287493, DOI: 10.2217/pme-2018-0037.
Sharing data from electronic health records within, across, and beyond healthcare institutions: Current trends and perspectivesOhno-Machado L. Sharing data from electronic health records within, across, and beyond healthcare institutions: Current trends and perspectives. Journal Of The American Medical Informatics Association 2018, 25: 1113-1113. PMID: 30184157, PMCID: PMC7646901, DOI: 10.1093/jamia/ocy116.
Informatics for all: from provider- to patient-based applications that can include family and friendsOhno-Machado L. Informatics for all: from provider- to patient-based applications that can include family and friends. Journal Of The American Medical Informatics Association 2018, 25: 923-923. PMCID: PMC7646910, DOI: 10.1093/jamia/ocy078.
Privacy Policy and Technology in Biomedical Data ScienceArellano A, Dai W, Wang S, Jiang X, Ohno-Machado L. Privacy Policy and Technology in Biomedical Data Science. Annual Review Of Biomedical Data Science 2018, 1: 115-129. PMID: 31058261, PMCID: PMC6497413, DOI: 10.1146/annurev-biodatasci-080917-013416.
The role of informatics in promoting patient safetyOhno-Machado L. The role of informatics in promoting patient safety. Journal Of The American Medical Informatics Association 2018, 25: 773-773. PMCID: PMC7647039, DOI: 10.1093/jamia/ocy079.
Electronic health records and health information exchangeOhno-Machado L. Electronic health records and health information exchange. Journal Of The American Medical Informatics Association 2018, 25: 617-617. PMCID: PMC7647040, DOI: 10.1093/jamia/ocy057.
Su1886 - Burden of Hospitalization and Predictors of High Healthcare Utilization in Patients with Inflammatory Bowel Diseases in the United StatesNguyen N, Ohno-Machado L, Sandborn W, Singh S. Su1886 - Burden of Hospitalization and Predictors of High Healthcare Utilization in Patients with Inflammatory Bowel Diseases in the United States. Gastroenterology 2018, 154: s-620. DOI: 10.1016/s0016-5085(18)32232-7.
Genomics and electronic health record systems.Ohno-Machado L, Kim J, Gabriel R, Kuo G, Hogarth M. Genomics and electronic health record systems. Human Molecular Genetics 2018, 27: r48-r55. PMID: 29741693, PMCID: PMC5946823, DOI: 10.1093/hmg/ddy104.
Clinical decision support: informatics interventions for better patient careOhno-Machado L. Clinical decision support: informatics interventions for better patient care. Journal Of The American Medical Informatics Association 2018, 25: 457-457. PMCID: PMC7647043, DOI: 10.1093/jamia/ocy031.
A Scalable Privacy-preserving Data Generation Methodology for Exploratory Analysis.Vaidya J, Shafiq B, Asani M, Adam N, Jiang X, Ohno-Machado L. A Scalable Privacy-preserving Data Generation Methodology for Exploratory Analysis. AMIA Annual Symposium Proceedings 2018, 2017: 1695-1704. PMID: 29854240, PMCID: PMC5977652.
Enabling patients to be active participants in healthcare via informatics interventionsOhno-Machado L. Enabling patients to be active participants in healthcare via informatics interventions. Journal Of The American Medical Informatics Association 2018, 25: 369-369. PMCID: PMC7647003, DOI: 10.1093/jamia/ocy019.
Infections and Cardiovascular Complications are Common Causes for Hospitalization in Older Patients with Inflammatory Bowel DiseasesNguyen N, Ohno-Machado L, Sandborn W, Singh S. Infections and Cardiovascular Complications are Common Causes for Hospitalization in Older Patients with Inflammatory Bowel Diseases. Inflammatory Bowel Diseases 2018, 24: 916-923. PMID: 29562273, DOI: 10.1093/ibd/izx089.
Clinical research informatics: a growing subspecialization of biomedical informaticsOhno-Machado L. Clinical research informatics: a growing subspecialization of biomedical informatics. Journal Of The American Medical Informatics Association 2018, 25: 223-223. PMID: 31972028, PMCID: PMC7651919, DOI: 10.1093/jamia/ocy008.
Annual Burden and Costs of Hospitalization for High-Need, High-Cost Patients With Chronic Gastrointestinal and Liver DiseasesNguyen NH, Khera R, Ohno-Machado L, Sandborn WJ, Singh S. Annual Burden and Costs of Hospitalization for High-Need, High-Cost Patients With Chronic Gastrointestinal and Liver Diseases. Clinical Gastroenterology And Hepatology 2018, 16: 1284-1292.e30. PMID: 29474966, PMCID: PMC6056327, DOI: 10.1016/j.cgh.2018.02.015.
Informatics systems for health care providers, patients, and familiesOhno-Machado L. Informatics systems for health care providers, patients, and families. Journal Of The American Medical Informatics Association 2018, 25: 110-110. PMCID: PMC7647144, DOI: 10.1093/jamia/ocy001.
Perfectly Secure and Efficient Two-Party Electronic-Health-Record LinkageChen F, Jiang X, Wang S, Schilling L, Meeker D, Ong T, Matheny M, Doctor J, Ohno-Machado L, Vaidya J. Perfectly Secure and Efficient Two-Party Electronic-Health-Record Linkage. IEEE Internet Computing 2018, 22: 32-41. PMID: 29867290, PMCID: PMC5983039, DOI: 10.1109/mic.2018.112102542.
DataMed – an open source discovery index for finding biomedical datasetsChen X, Gururaj A, Ozyurt B, Liu R, Soysal E, Cohen T, Tiryaki F, Li Y, Zong N, Jiang M, Rogith D, Salimi M, Kim H, Rocca-Serra P, Gonzalez-Beltran A, Farcas C, Johnson T, Margolis R, Alter G, Sansone S, Fore I, Ohno-Machado L, Grethe J, Xu H. DataMed – an open source discovery index for finding biomedical datasets. Journal Of The American Medical Informatics Association 2018, 25: 300-308. PMID: 29346583, PMCID: PMC7378878, DOI: 10.1093/jamia/ocx121.
Finding relevant biomedical datasets: the UC San Diego solution for the bioCADDIE Retrieval ChallengeWei W, Ji Z, He Y, Zhang K, Ha Y, Li Q, Ohno-Machado L. Finding relevant biomedical datasets: the UC San Diego solution for the bioCADDIE Retrieval Challenge. Database 2018, 2018: bay017. PMID: 29688374, PMCID: PMC5861401, DOI: 10.1093/database/bay017.
Special Focus on Biomedical Data ScienceOhno-Machado L. Special Focus on Biomedical Data Science. Journal Of The American Medical Informatics Association 2017, 25: 1-1. PMCID: PMC7647138, DOI: 10.1093/jamia/ocx151.
Biomedical informatics and data science: evolving fields with significant overlapBrennan P, Chiang M, Ohno-Machado L. Biomedical informatics and data science: evolving fields with significant overlap. Journal Of The American Medical Informatics Association 2017, 25: 2-3. PMID: 29267964, PMCID: PMC7647135, DOI: 10.1093/jamia/ocx146.
User needs analysis and usability assessment of DataMed – a biomedical data discovery indexDixit R, Rogith D, Narayana V, Salimi M, Gururaj A, Ohno-Machado L, Xu H, Johnson T. User needs analysis and usability assessment of DataMed – a biomedical data discovery index. Journal Of The American Medical Informatics Association 2017, 25: 337-344. PMID: 29202203, PMCID: PMC7378884, DOI: 10.1093/jamia/ocx134.
A community effort to protect genomic data sharing, collaboration and outsourcingWang S, Jiang X, Tang H, Wang X, Bu D, Carey K, Dyke S, Fox D, Jiang C, Lauter K, Malin B, Sofia H, Telenti A, Wang L, Wang W, Ohno-Machado L. A community effort to protect genomic data sharing, collaboration and outsourcing. Npj Genomic Medicine 2017, 2: 33. PMID: 29263842, PMCID: PMC5677972, DOI: 10.1038/s41525-017-0036-1.
JAMIA is going greenOhno-Machado L. JAMIA is going green. Journal Of The American Medical Informatics Association 2017, 24: 1045-1045. PMID: 29016975, PMCID: PMC7651987, DOI: 10.1093/jamia/ocx103.
Burden, Costs and Causes for Hospitalization in Older Patients With Inflammatory Bowel Diseases: A Nationally Representative Cohort StudyNguyen N, Ohno-Machado L, Sandborn W, Singh S. Burden, Costs and Causes for Hospitalization in Older Patients With Inflammatory Bowel Diseases: A Nationally Representative Cohort Study. The American Journal Of Gastroenterology 2017, 112: s345. DOI: 10.14309/00000434-201710001-00628.
Obesity Is Associated With Higher Annual Burden and Costs of Hospitalization in Patients With Inflammatory Bowel Diseases: A Nationally Representative Cohort StudyNguyen N, Ohno-Machado L, Sandborn W, Singh S. Obesity Is Associated With Higher Annual Burden and Costs of Hospitalization in Patients With Inflammatory Bowel Diseases: A Nationally Representative Cohort Study. The American Journal Of Gastroenterology 2017, 112: s345. DOI: 10.14309/00000434-201710001-00629.
Burden and Costs of “High Consumers” of Hospitalization-Related Care in Patients With Chronic Gastrointestinal and Liver Diseases in the United StatesNguyen N, Khera R, Ohno-Machado L, Sandborn W, Singh S. Burden and Costs of “High Consumers” of Hospitalization-Related Care in Patients With Chronic Gastrointestinal and Liver Diseases in the United States. The American Journal Of Gastroenterology 2017, 112: s1501. DOI: 10.14309/00000434-201710001-02780.
Blockchain distributed ledger technologies for biomedical and health care applicationsKuo T, Kim H, Ohno-Machado L. Blockchain distributed ledger technologies for biomedical and health care applications. Journal Of The American Medical Informatics Association 2017, 24: 1211-1220. PMID: 29016974, PMCID: PMC6080687, DOI: 10.1093/jamia/ocx068.
Understanding and mitigating the digital divide in health careOhno-Machado L. Understanding and mitigating the digital divide in health care. Journal Of The American Medical Informatics Association 2017, 24: 881-881. PMCID: PMC7651986, DOI: 10.1093/jamia/ocx082.
Mechanisms to protect the privacy of families when using the transmission disequilibrium test in genome-wide association studies.Wang M, Ji Z, Wang S, Kim J, Yang H, Jiang X, Ohno-Machado L. Mechanisms to protect the privacy of families when using the transmission disequilibrium test in genome-wide association studies. Bioinformatics 2017, 33: 3716-3725. PMID: 29036461, PMCID: PMC5860319, DOI: 10.1093/bioinformatics/btx470.
Education of informatics professionals and development of electronic information resources for clinicians, patients, health scientists, and study participantsOhno-Machado L. Education of informatics professionals and development of electronic information resources for clinicians, patients, health scientists, and study participants. Journal Of The American Medical Informatics Association 2017, 24: 679-679. PMID: 28927160, PMCID: PMC7651983, DOI: 10.1093/jamia/ocx058.
DATS, the data tag suite to enable discoverability of datasetsSansone S, Gonzalez-Beltran A, Rocca-Serra P, Alter G, Grethe J, Xu H, Fore I, Lyle J, Gururaj A, Chen X, Kim H, Zong N, Li Y, Liu R, Ozyurt I, Ohno-Machado L. DATS, the data tag suite to enable discoverability of datasets. Scientific Data 2017, 4: 170059. PMID: 28585923, PMCID: PMC5460592, DOI: 10.1038/sdata.2017.59.
Finding useful data across multiple biomedical data repositories using DataMedOhno-Machado L, Sansone S, Alter G, Fore I, Grethe J, Xu H, Gonzalez-Beltran A, Rocca-Serra P, Gururaj A, Bell E, Soysal E, Zong N, Kim H. Finding useful data across multiple biomedical data repositories using DataMed. Nature Genetics 2017, 49: 816-819. PMID: 28546571, PMCID: PMC6460922, DOI: 10.1038/ng.3864.
Developing a framework for digital objects in the Big Data to Knowledge (BD2K) commons: Report from the Commons Framework Pilots workshopJagodnik K, Koplev S, Jenkins S, Ohno-Machado L, Paten B, Schurer S, Dumontier M, Verborgh R, Bui A, Ping P, McKenna N, Madduri R, Pillai A, Ma'ayan A. Developing a framework for digital objects in the Big Data to Knowledge (BD2K) commons: Report from the Commons Framework Pilots workshop. Journal Of Biomedical Informatics 2017, 71: 49-57. PMID: 28501646, PMCID: PMC5545976, DOI: 10.1016/j.jbi.2017.05.006.
A Predictive Model for Extended Postanesthesia Care Unit Length of Stay in Outpatient SurgeriesGabriel R, Waterman R, Kim J, Ohno-Machado L. A Predictive Model for Extended Postanesthesia Care Unit Length of Stay in Outpatient Surgeries. Anesthesia & Analgesia 2017, 124: 1529-1536. PMID: 28079580, DOI: 10.1213/ane.0000000000001827.
A risk prediction score for acute kidney injury in the intensive care unitMalhotra R, Kashani K, Macedo E, Kim J, Bouchard J, Wynn S, Li G, Ohno-Machado L, Mehta R. A risk prediction score for acute kidney injury in the intensive care unit. Nephrology Dialysis Transplantation 2017, 32: 814-822. PMID: 28402551, DOI: 10.1093/ndt/gfx026.
Advancing healthcare and biomedical research via new data-driven approachesOhno-Machado L. Advancing healthcare and biomedical research via new data-driven approaches. Journal Of The American Medical Informatics Association 2017, 24: 471-471. PMID: 28403381, PMCID: PMC7651977, DOI: 10.1093/jamia/ocx036.
Electronic health records: usability and utilization by health care providers and patientsOhno-Machado L. Electronic health records: usability and utilization by health care providers and patients. Journal Of The American Medical Informatics Association 2017, 24: e1-e1. PMID: 28395061, PMCID: PMC7651965, DOI: 10.1093/jamia/ocx013.
Addressing Beacon re-identification attacks: quantification and mitigation of privacy risksRaisaro J, Tramèr F, Ji Z, Bu D, Zhao Y, Carey K, Lloyd D, Sofia H, Baker D, Flicek P, Shringarpure S, Bustamante C, Wang S, Jiang X, Ohno-Machado L, Tang H, Wang X, Hubaux J. Addressing Beacon re-identification attacks: quantification and mitigation of privacy risks. Journal Of The American Medical Informatics Association 2017, 24: 799-805. PMID: 28339683, PMCID: PMC5881894, DOI: 10.1093/jamia/ocw167.
Integrated precision medicine: the role of electronic health records in delivering personalized treatmentSitapati A, Kim H, Berkovich B, Marmor R, Singh S, El‐Kareh R, Clay B, Ohno‐Machado L. Integrated precision medicine: the role of electronic health records in delivering personalized treatment. WIREs Mechanisms Of Disease 2017, 9 PMID: 28207198, PMCID: PMC5400726, DOI: 10.1002/wsbm.1378.
Health information technology and patient safetyOhno-Machado L. Health information technology and patient safety. Journal Of The American Medical Informatics Association 2017, 24: 243-243. PMID: 28204518, PMCID: PMC7651963, DOI: 10.1093/jamia/ocx008.
Feasibility of Representing Data from Published Nursing Research Using the OMOP Common Data Model.Kim H, Choi J, Jang I, Quach J, Ohno-Machado L. Feasibility of Representing Data from Published Nursing Research Using the OMOP Common Data Model. AMIA Annual Symposium Proceedings 2017, 2016: 715-723. PMID: 28269868, PMCID: PMC5333244.
Ensembles of NLP Tools for Data Element Extraction from Clinical Notes.Kuo T, Rao P, Maehara C, Doan S, Chaparro J, Day M, Farcas C, Ohno-Machado L, Hsu C. Ensembles of NLP Tools for Data Element Extraction from Clinical Notes. AMIA Annual Symposium Proceedings 2017, 2016: 1880-1889. PMID: 28269947, PMCID: PMC5333200.
Whole genome sequencing of an African American family highlights toll like receptor 6 variants in Kawasaki disease susceptibilityKim J, Shimizu C, Kingsmore S, Veeraraghavan N, Levy E, dos Santos A, Yang H, Flatley J, Hoang L, Hibberd M, Tremoulet A, Harismendy O, Ohno-Machado L, Burns J. Whole genome sequencing of an African American family highlights toll like receptor 6 variants in Kawasaki disease susceptibility. PLOS ONE 2017, 12: e0170977. PMID: 28151979, PMCID: PMC5289527, DOI: 10.1371/journal.pone.0170977.
Extracellular vesicles released by hepatocytes from gastric infusion model of alcoholic liver disease contain a MicroRNA barcode that can be detected in bloodEguchi A, Lazaro R, Wang J, Kim J, Povero D, Willliams B, Ho S, Stärkel P, Schnabl B, Ohno‐Machado L, Tsukamoto H, Feldstein A. Extracellular vesicles released by hepatocytes from gastric infusion model of alcoholic liver disease contain a MicroRNA barcode that can be detected in blood. Hepatology 2017, 65: 475-490. PMID: 27639178, PMCID: PMC5407075, DOI: 10.1002/hep.28838.
Information retrieval for biomedical datasets: the 2016 bioCADDIE dataset retrieval challengeRoberts K, Gururaj A, Chen X, Pournejati S, Hersh W, Demner-Fushman D, Ohno-Machado L, Cohen T, Xu H. Information retrieval for biomedical datasets: the 2016 bioCADDIE dataset retrieval challenge. Database 2017, 2017: bax068. DOI: 10.1093/database/bax068.
Prerequisites for International Exchanges of Health Information for Record Research: Comparison of Australian, Austrian, Finnish, Swiss, and US Policies.Suominen H, Müller H, Ohno-Machado L, Salanterä S, Schreier G, Hanlen L. Prerequisites for International Exchanges of Health Information for Record Research: Comparison of Australian, Austrian, Finnish, Swiss, and US Policies. 2017, 245: 1312. PMID: 29295395.
MiRIAD update: using alternative polyadenylation, protein interaction network analysis and additional species to enhance exploration of the role of intragenic miRNAs and their host genesHinske L, dos Santos F, Ohara D, Ohno-Machado L, Kreth S, Galante P. MiRIAD update: using alternative polyadenylation, protein interaction network analysis and additional species to enhance exploration of the role of intragenic miRNAs and their host genes. Database 2017, 2017: bax053. PMID: 29220447, PMCID: PMC5569676, DOI: 10.1093/database/bax053.
A publicly available benchmark for biomedical dataset retrieval: the reference standard for the 2016 bioCADDIE dataset retrieval challengeCohen T, Roberts K, Gururaj A, Chen X, Pournejati S, Alter G, Hersh W, Demner-Fushman D, Ohno-Machado L, Xu H. A publicly available benchmark for biomedical dataset retrieval: the reference standard for the 2016 bioCADDIE dataset retrieval challenge. Database 2017, 2017: bax061. PMID: 29220453, PMCID: PMC5737202, DOI: 10.1093/database/bax061.
Using health information technology for clinical decision support and predictive analyticsOhno-Machado L. Using health information technology for clinical decision support and predictive analytics. Journal Of The American Medical Informatics Association 2016, 24: 1-1. PMID: 28039394, PMCID: PMC7654091, DOI: 10.1093/jamia/ocw163.
PRINCESS: Privacy-protecting Rare disease International Network Collaboration via Encryption through Software guard extensionSChen F, Wang S, Jiang X, Ding S, Lu Y, Kim J, Sahinalp S, Shimizu C, Burns J, Wright V, Png E, Hibberd M, Lloyd D, Yang H, Telenti A, Bloss C, Fox D, Lauter K, Ohno-Machado L. PRINCESS: Privacy-protecting Rare disease International Network Collaboration via Encryption through Software guard extensionS. Bioinformatics 2016, 33: 871-878. PMID: 28065902, PMCID: PMC5860394, DOI: 10.1093/bioinformatics/btw758.
Data-driven informatics tools targeting patients and providersOhno-Machado L, Editor-in-Chief. Data-driven informatics tools targeting patients and providers. Journal Of The American Medical Informatics Association 2016, 23: 1039-1039. PMID: 27880716, DOI: 10.1093/jamia/ocw149.
Protecting genomic data analytics in the cloud: state of the art and opportunitiesTang H, Jiang X, Wang X, Wang S, Sofia H, Fox D, Lauter K, Malin B, Telenti A, Xiong L, Ohno-Machado L. Protecting genomic data analytics in the cloud: state of the art and opportunities. BMC Medical Genomics 2016, 9: 63. PMID: 27733153, PMCID: PMC5062944, DOI: 10.1186/s12920-016-0224-3.
Genome privacy: challenges, technical approaches to mitigate risk, and ethical considerations in the United StatesWang S, Jiang X, Singh S, Marmor R, Bonomi L, Fox D, Dow M, Ohno‐Machado L. Genome privacy: challenges, technical approaches to mitigate risk, and ethical considerations in the United States. Annals Of The New York Academy Of Sciences 2016, 1387: 73-83. PMID: 27681358, PMCID: PMC5266631, DOI: 10.1111/nyas.13259.
Biospecimen Sharing Among Hispanic Women in a Safety-Net Clinic: Implications for the Precision Medicine InitiativeNodora J, Komenaka I, Bouton M, Ohno-Machado L, Schwab R, Kim H, Farcas C, Perez G, Martinez M. Biospecimen Sharing Among Hispanic Women in a Safety-Net Clinic: Implications for the Precision Medicine Initiative. Journal Of The National Cancer Institute 2016, 109: 1-3. PMID: 27688295, PMCID: PMC5040829, DOI: 10.1093/jnci/djw201.
iCONCUR: informed consent for clinical data and bio-sample use for researchKim H, Bell E, Kim J, Sitapati A, Ramsdell J, Farcas C, Friedman D, Feupe S, Ohno-Machado L. iCONCUR: informed consent for clinical data and bio-sample use for research. Journal Of The American Medical Informatics Association 2016, 24: 380-387. PMID: 27589942, PMCID: PMC5391727, DOI: 10.1093/jamia/ocw115.
Building systems that change clinical practice and advance health sciences researchOhno-Machado L, Editor-in-Chief. Building systems that change clinical practice and advance health sciences research. Journal Of The American Medical Informatics Association 2016, 23: 857-857. PMID: 27562746, DOI: 10.1093/jamia/ocw129.
Secure Multi-pArty Computation Grid LOgistic REgression (SMAC-GLORE)Shi H, Jiang C, Dai W, Jiang X, Tang Y, Ohno-Machado L, Wang S. Secure Multi-pArty Computation Grid LOgistic REgression (SMAC-GLORE). BMC Medical Informatics And Decision Making 2016, 16: 89. PMID: 27454168, PMCID: PMC4959358, DOI: 10.1186/s12911-016-0316-1.
Finding Related Publications: Extending the Set of Terms Used to Assess Article Similarity.Wei W, Marmor R, Singh S, Wang S, Demner-Fushman D, Kuo T, Hsu C, Ohno-Machado L. Finding Related Publications: Extending the Set of Terms Used to Assess Article Similarity. AMIA Joint Summits On Translational Science Proceedings 2016, 2016: 225-34. PMID: 27570676, PMCID: PMC5001748.
- Bayesian ROC MethodsZou K, Liu A, Bandos A, Ohno-Machado L, Rockette H. - Bayesian ROC Methods. 2016, 102-121. DOI: 10.1201/b11031-8.
- Free-Response ROC AnalysisZou K, Liu A, Bandos A, Ohno-Machado L, Rockette H. - Free-Response ROC Analysis. 2016, 182-219. DOI: 10.1201/b11031-11.
- Multireader ROC AnalysisZou K, Liu A, Bandos A, Ohno-Machado L, Rockette H. - Multireader ROC Analysis. 2016, 148-181. DOI: 10.1201/b11031-10.
- Diagnostic Rating ScalesZou K, Liu A, Bandos A, Ohno-Machado L, Rockette H. - Diagnostic Rating Scales. 2016, 40-47. DOI: 10.1201/b11031-5.
- Machine Learning and Predictive ModelingZou K, Liu A, Bandos A, Ohno-Machado L, Rockette H. - Machine Learning and Predictive Modeling. 2016, 220-231. DOI: 10.1201/b11031-12.
- Summary and ChallengesZou K, Liu A, Bandos A, Ohno-Machado L, Rockette H. - Summary and Challenges. 2016, 232-237. DOI: 10.1201/b11031-13.
- Monotone Transformation ModelsZou K, Liu A, Bandos A, Ohno-Machado L, Rockette H. - Monotone Transformation Models. 2016, 48-83. DOI: 10.1201/b11031-6.
- Combination and Pooling of BiomarkersZou K, Liu A, Bandos A, Ohno-Machado L, Rockette H. - Combination and Pooling of Biomarkers. 2016, 84-101. DOI: 10.1201/b11031-7.
- Background and IntroductionZou K, Liu A, Bandos A, Ohno-Machado L, Rockette H. - Background and Introduction. 2016, 22-39. DOI: 10.1201/b11031-4.
- Sequential Designs of ROC ExperimentsZou K, Liu A, Bandos A, Ohno-Machado L, Rockette H. - Sequential Designs of ROC Experiments. 2016, 122-147. DOI: 10.1201/b11031-9.
Building a Natural Language Processing Tool to Identify Patients With High Clinical Suspicion for Kawasaki Disease from Emergency Department NotesDoan S, Maehara C, Chaparro J, Lu S, Liu R, Graham A, Berry E, Hsu C, Kanegaye J, Lloyd D, Ohno‐Machado L, Burns J, Tremoulet A, Group T. Building a Natural Language Processing Tool to Identify Patients With High Clinical Suspicion for Kawasaki Disease from Emergency Department Notes. Academic Emergency Medicine 2016, 23: 628-636. PMID: 26826020, PMCID: PMC5031359, DOI: 10.1111/acem.12925.
Data and the clinical decision support loopOhno-Machado L, Editor-in-Chief. Data and the clinical decision support loop. Journal Of The American Medical Informatics Association 2016, 23: e1-e1. PMID: 27071919, PMCID: PMC4954618, DOI: 10.1093/jamia/ocw060.
Consensus Statement on Electronic Health Predictive Analytics: A Guiding Framework to Address ChallengesAmarasingham R, Audet A, Bates D, Glenn Cohen I, Entwistle M, Escobar G, Liu V, Etheredge L, Lo B, Ohno-Machado L, Ram S, Saria S, Schilling L, Shahi A, Stewart W, Steyerberg E, Xie B. Consensus Statement on Electronic Health Predictive Analytics: A Guiding Framework to Address Challenges. Healthcare 2016, 4: 1163. PMID: 27141516, PMCID: PMC4837887, DOI: 10.13063/2327-9214.1163.
A message to the next generation of biomedical informatics professionalsOhno-Machado L, Editor-in-Chief. A message to the next generation of biomedical informatics professionals. Journal Of The American Medical Informatics Association 2016, 23: 241-241. PMID: 26961493, DOI: 10.1093/jamia/ocw043.
Using informatics to engage patients and healthcare providersOhno-Machado L, Editor-in-Chief. Using informatics to engage patients and healthcare providers. Journal Of The American Medical Informatics Association 2016, 23: 1-1. PMID: 26912536, PMCID: PMC7814919, DOI: 10.1093/jamia/ocv205.
Splicing Express: a software suite for alternative splicing analysis using next-generation sequencing dataKroll J, Kim J, Ohno-Machado L, de Souza S. Splicing Express: a software suite for alternative splicing analysis using next-generation sequencing data. PeerJ 2015, 3: e1419. PMID: 26618088, PMCID: PMC4655094, DOI: 10.7717/peerj.1419.
VERTIcal Grid lOgistic regression (VERTIGO)Li Y, Jiang X, Wang S, Xiong H, Ohno-Machado L. VERTIcal Grid lOgistic regression (VERTIGO). Journal Of The American Medical Informatics Association 2015, 23: 570-579. PMID: 26554428, PMCID: PMC4901373, DOI: 10.1093/jamia/ocv146.
Trends in informatics and journal peer-review processesOhno-Machado L. Trends in informatics and journal peer-review processes. Journal Of The American Medical Informatics Association 2015, 22: 1113-1113. DOI: 10.1093/jamia/ocv162.
Trends in biomedical informatics: automated topic analysis of JAMIA articlesHan D, Wang S, Jiang C, Jiang X, Kim H, Sun J, Ohno-Machado L. Trends in biomedical informatics: automated topic analysis of JAMIA articles. Journal Of The American Medical Informatics Association 2015, 22: 1153-1163. PMID: 26555018, PMCID: PMC5009912, DOI: 10.1093/jamia/ocv157.
The differential associations of preexisting conditions with trauma-related outcomes in the presence of competing risksCalvo R, Lindsay S, Edland S, Macera C, Wingard D, Ohno-Machado L, Sise M. The differential associations of preexisting conditions with trauma-related outcomes in the presence of competing risks. Injury 2015, 47: 677-684. PMID: 26684173, DOI: 10.1016/j.injury.2015.10.055.
Mining electronic health record data: finding the gold nuggetsOhno-Machado L, Editor-in-Chief. Mining electronic health record data: finding the gold nuggets. Journal Of The American Medical Informatics Association 2015, 22: 937-937. PMID: 26330468, DOI: 10.1093/jamia/ocv119.
WebDISCO: a web service for distributed cox model learning without patient-level data sharingLu C, Wang S, Ji Z, Wu Y, Xiong L, Jiang X, Ohno-Machado L. WebDISCO: a web service for distributed cox model learning without patient-level data sharing. Journal Of The American Medical Informatics Association 2015, 22: 1212-1219. PMID: 26159465, PMCID: PMC5009917, DOI: 10.1093/jamia/ocv083.
A system to build distributed multivariate models and manage disparate data sharing policies: implementation in the scalable national network for effectiveness researchMeeker D, Jiang X, Matheny M, Farcas C, D’Arcy M, Pearlman L, Nookala L, Day M, Kim K, Kim H, Boxwala A, El-Kareh R, Kuo G, Resnic F, Kesselman C, Ohno-Machado L. A system to build distributed multivariate models and manage disparate data sharing policies: implementation in the scalable national network for effectiveness research. Journal Of The American Medical Informatics Association 2015, 22: 1187-1195. PMID: 26142423, PMCID: PMC4639714, DOI: 10.1093/jamia/ocv017.
Tailoring informatics interventions to patients and healthcare providersOhno-Machado L. Tailoring informatics interventions to patients and healthcare providers. Journal Of The American Medical Informatics Association 2015, 22: 747-747. PMID: 26116707, DOI: 10.1093/jamia/ocv075.
A journal's role in resource sharing and reproducibilityOhno-Machado L. A journal's role in resource sharing and reproducibility. Journal Of The American Medical Informatics Association 2015, 22: 491-491. PMID: 26048962, DOI: 10.1093/jamia/ocv057.
Abstract O.17: Whole Genome Sequencing of a six-member African American family with two Kawasaki disease-affected siblings identifies novel susceptibility variantsKim J, Shimizu C, Yang H, Harismendy O, Truong Hoang L, Levy E, Cimaz R, Burgner D, Yeung R, Khor C, Davila S, Levin M, Kuijpers T, Hibberd M, Ohno-Machado L, Burns J. Abstract O.17: Whole Genome Sequencing of a six-member African American family with two Kawasaki disease-affected siblings identifies novel susceptibility variants. Circulation 2015, 131 DOI: 10.1161/circ.131.suppl_2.o17.
Special online issue focusing on patients and caregiversOhno-Machado L. Special online issue focusing on patients and caregivers. Journal Of The American Medical Informatics Association 2015, 22: e1-e1. PMCID: PMC7659215, DOI: 10.1093/jamia/ocv042.
Comparison of consumers’ views on electronic data sharing for healthcare and researchKim K, Joseph J, Ohno-Machado L. Comparison of consumers’ views on electronic data sharing for healthcare and research. Journal Of The American Medical Informatics Association 2015, 22: 821-830. PMID: 25829461, PMCID: PMC5009901, DOI: 10.1093/jamia/ocv014.
Ranking Medical Subject Headings using a factor graph model.Wei W, Demner-Fushman D, Wang S, Jiang X, Ohno-Machado L. Ranking Medical Subject Headings using a factor graph model. AMIA Joint Summits On Translational Science Proceedings 2015, 2015: 56-63. PMID: 26306236, PMCID: PMC4525219.
Alternative Polyadenylation Allows Differential Negative Feedback of Human miRNA miR-579 on Its Host Gene ZFRHinske L, Galante P, Limbeck E, Möhnle P, Parmigiani R, Ohno-Machado L, Camargo A, Kreth S. Alternative Polyadenylation Allows Differential Negative Feedback of Human miRNA miR-579 on Its Host Gene ZFR. PLOS ONE 2015, 10: e0121507. PMID: 25799583, PMCID: PMC4370670, DOI: 10.1371/journal.pone.0121507.
HighlightsOhno-Machado L. Highlights. Journal Of The American Medical Informatics Association 2015, 22: 259-259. DOI: 10.1093/jamia/ocv018.
Grid multi-category response logistic modelsWu Y, Jiang X, Wang S, Jiang W, Li P, Ohno-Machado L. Grid multi-category response logistic models. BMC Medical Informatics And Decision Making 2015, 15: 10. PMID: 25886151, PMCID: PMC4342889, DOI: 10.1186/s12911-015-0133-y.
Preserving Genome Privacy in Research StudiesWang S, Jiang X, Fox D, Ohno-Machado L. Preserving Genome Privacy in Research Studies. 2015, 425-441. DOI: 10.1007/978-3-319-23633-9_16.
HighlightsOhno-Machado L. Highlights. Journal Of The American Medical Informatics Association 2015, 22: 1-1. PMCID: PMC4433382, DOI: 10.1093/jamia/ocu024.
Creating a Common Data Model for Comparative Effectiveness with the Observational Medical Outcomes PartnershipFitzHenry F, Resnic F, Robbins S, Denton J, Nookala L, Meeker D, Ohno-Machado L, Matheny M. Creating a Common Data Model for Comparative Effectiveness with the Observational Medical Outcomes Partnership. Applied Clinical Informatics 2015, 06: 536-547. PMID: 26448797, PMCID: PMC4586341, DOI: 10.4338/aci-2014-12-cr-0121.
Development of a Web Service for Analysis in a Distributed NetworkJiang X, Wu Y, Marsolo K, Ohno-Machado L. Development of a Web Service for Analysis in a Distributed Network. Healthcare 2014, 2: 1053. PMID: 25848586, PMCID: PMC4371401, DOI: 10.13063/2327-9214.1053.
A community assessment of privacy preserving techniques for human genomesJiang X, Zhao Y, Wang X, Malin B, Wang S, Ohno-Machado L, Tang H. A community assessment of privacy preserving techniques for human genomes. BMC Medical Informatics And Decision Making 2014, 14: s1. PMID: 25521230, PMCID: PMC4290799, DOI: 10.1186/1472-6947-14-s1-s1.
Trends in publication of nursing informatics research.Kim H, Ohno-Machado L, Oh J, Jiang X. Trends in publication of nursing informatics research. AMIA Annual Symposium Proceedings 2014, 2014: 805-14. PMID: 25954387, PMCID: PMC4419947.
Sharing my health data: a survey of data sharing preferences of healthy individuals.Bell E, Ohno-Machado L, Grando M. Sharing my health data: a survey of data sharing preferences of healthy individuals. AMIA Annual Symposium Proceedings 2014, 2014: 1699-708. PMID: 25954442, PMCID: PMC4419941.
Disseminating informatics knowledge and training the next generation of leadersOhno-Machado L. Disseminating informatics knowledge and training the next generation of leaders. Journal Of The American Medical Informatics Association 2014, 21: 954-956. PMID: 25301807, PMCID: PMC4215064, DOI: 10.1136/amiajnl-2014-noveditorial.
Focusing on the patient: mHealth, social media, electronic health records, and decision support systemsOhno-Machado L. Focusing on the patient: mHealth, social media, electronic health records, and decision support systems. Journal Of The American Medical Informatics Association 2014, 21: 953-953. PMID: 25301806, PMCID: PMC4215063, DOI: 10.1136/amiajnl-2014-003341.
Choosing blindly but wisely: differentially private solicitation of DNA datasets for disease marker discoveryZhao Y, Wang X, Jiang X, Ohno-Machado L, Tang H. Choosing blindly but wisely: differentially private solicitation of DNA datasets for disease marker discovery. Journal Of The American Medical Informatics Association 2014, 22: 100-108. PMID: 25352565, PMCID: PMC4433380, DOI: 10.1136/amiajnl-2014-003043.
Health IT and clinical decision support systems: human factors and successful adoptionOhno-Machado L. Health IT and clinical decision support systems: human factors and successful adoption. Journal Of The American Medical Informatics Association 2014, 21: e180-e180. PMID: 25200586, PMCID: PMC4173189, DOI: 10.1136/amiajnl-2014-003279.
Structuring text and standardizing data for clinical and population health applicationsOhno-Machado L. Structuring text and standardizing data for clinical and population health applications. Journal Of The American Medical Informatics Association 2014, 21: 763-763. PMID: 25117592, PMCID: PMC4147604, DOI: 10.1136/amiajnl-2014-003171.
“Big Data” and the Electronic Health RecordRoss M, Wei W, Ohno-Machado L. “Big Data” and the Electronic Health Record. Yearbook Of Medical Informatics 2014, 23: 97-104. PMID: 25123728, PMCID: PMC4287068, DOI: 10.15265/iy-2014-0003.
Big Data In Health Care: Using Analytics To Identify And Manage High-Risk And High-Cost PatientsBates D, Saria S, Ohno-Machado L, Shah A, Escobar G. Big Data In Health Care: Using Analytics To Identify And Manage High-Risk And High-Cost Patients. Health Affairs 2014, 33: 1123-1131. PMID: 25006137, DOI: 10.1377/hlthaff.2014.0041.
Networking the country to promote health and scientific discoveryOhno-Machado L. Networking the country to promote health and scientific discovery. Journal Of The American Medical Informatics Association 2014, 21: 575-575. PMID: 24908676, PMCID: PMC4078300, DOI: 10.1136/amiajnl-2014-003005.
Privacy Preserving RBF Kernel Support Vector MachineLi H, Xiong L, Ohno-Machado L, Jiang X. Privacy Preserving RBF Kernel Support Vector Machine. BioMed Research International 2014, 2014: 827371. PMID: 25013805, PMCID: PMC4071990, DOI: 10.1155/2014/827371.
MAGI: a Node.js web service for fast microRNA-Seq analysis in a GPU infrastructureKim J, Levy E, Ferbrache A, Stepanowsky P, Farcas C, Wang S, Brunner S, Bath T, Wu Y, Ohno-Machado L. MAGI: a Node.js web service for fast microRNA-Seq analysis in a GPU infrastructure. Bioinformatics 2014, 30: 2826-2827. PMID: 24907367, PMCID: PMC4173015, DOI: 10.1093/bioinformatics/btu377.
Natural Language Processing in Biomedicine: A Unified System Architecture OverviewDoan S, Conway M, Phuong T, Ohno-Machado L. Natural Language Processing in Biomedicine: A Unified System Architecture Overview. 2014, 1168: 275-294. PMID: 24870142, DOI: 10.1007/978-1-4939-0847-9_16.
GAMUT: GPU accelerated microRNA analysis to uncover target genes through CUDA-miRandaWang S, Kim J, Jiang X, Brunner S, Ohno-Machado L. GAMUT: GPU accelerated microRNA analysis to uncover target genes through CUDA-miRanda. BMC Medical Genomics 2014, 7: s9. PMID: 25077821, PMCID: PMC4101446, DOI: 10.1186/1755-8794-7-s1-s9.
Differentially private distributed logistic regression using private and public dataJi Z, Jiang X, Wang S, Xiong L, Ohno-Machado L. Differentially private distributed logistic regression using private and public data. BMC Medical Genomics 2014, 7: s14. PMID: 25079786, PMCID: PMC4101668, DOI: 10.1186/1755-8794-7-s1-s14.
Informatics support for clinical decisionsOhno-Machado L. Informatics support for clinical decisions. Journal Of The American Medical Informatics Association 2014, 21: 385-385. PMCID: PMC3994872, DOI: 10.1136/amiajnl-2014-002815.
pSCANNER: patient-centered Scalable National Network for Effectiveness ResearchOhno-Machado L, Agha Z, Bell D, Dahm L, Day M, Doctor J, Gabriel D, Kahlon M, Kim K, Hogarth M, Matheny M, Meeker D, Nebeker J, team T, Resnic F, Khodyakov D, Armstead L, Nagler T, Morley S, Anderson N, Cooper D, Phillips D, Heber D, Li Z, Ong M, Patel A, Zachariah M, Burns J, Daniels L, Doan S, Farcas C, Germann-Kurtz R, Jiang X, Kim H, Paul P, Taras H, Tremoulet A, Wang S, Zhu W, Berman D, Rizk-Jackson A, D’Arcy M, Kesselman C, Knight T, Pearlman L, Heidenreich P, Rifkin D, Stepnowsky C, Zamora T, DuVall S, Frey L, Scehnet J, Sauer B, Facelli J, Gouripeddi R, Denton J, FitzHenry F, Fly J, Messina V, Minter F, Nookala L, Sullivan H, Speroff T, Westerman D. pSCANNER: patient-centered Scalable National Network for Effectiveness Research. Journal Of The American Medical Informatics Association 2014, 21: 621-626. PMID: 24780722, PMCID: PMC4078293, DOI: 10.1136/amiajnl-2014-002751.
NIH's Big Data to Knowledge initiative and the advancement of biomedical informaticsOhno-Machado L. NIH's Big Data to Knowledge initiative and the advancement of biomedical informatics. Journal Of The American Medical Informatics Association 2014, 21: 193-193. PMID: 24509598, PMCID: PMC3932475, DOI: 10.1136/amiajnl-2014-002666.
HUGO: Hierarchical mUlti-reference Genome cOmpression for aligned readsLi P, Jiang X, Wang S, Kim J, Xiong H, Ohno-Machado L. HUGO: Hierarchical mUlti-reference Genome cOmpression for aligned reads. Journal Of The American Medical Informatics Association 2014, 21: 363-373. PMID: 24368726, PMCID: PMC3932469, DOI: 10.1136/amiajnl-2013-002147.
Electronic health record systems: risks and benefitsOhno-Machado L. Electronic health record systems: risks and benefits. Journal Of The American Medical Informatics Association 2014, 21: e1-e1. PMID: 24453123, PMCID: PMC3957407, DOI: 10.1136/amiajnl-2014-002635.
The role of scientific publication in times of changeOhno-Machado L. The role of scientific publication in times of change. Journal Of The American Medical Informatics Association 2014, 21: 1-1. PMID: 24335250, PMCID: PMC3912704, DOI: 10.1136/amiajnl-2013-002533.
PhenDisco: phenotype discovery system for the database of genotypes and phenotypesDoan S, Lin K, Conway M, Ohno-Machado L, Hsieh A, Feupe S, Garland A, Ross M, Jiang X, Farzaneh S, Walker R, Alipanah N, Zhang J, Xu H, Kim H. PhenDisco: phenotype discovery system for the database of genotypes and phenotypes. Journal Of The American Medical Informatics Association 2014, 21: 31-36. PMID: 23989082, PMCID: PMC3912702, DOI: 10.1136/amiajnl-2013-001882.
miRIAD—integrating microRNA inter- and intragenic dataHinske L, França G, Torres H, Ohara D, Lopes-Ramos C, Heyn J, Reis L, Ohno-Machado L, Kreth S, Galante P. miRIAD—integrating microRNA inter- and intragenic data. Database 2014, 2014: bau099. PMID: 25288656, PMCID: PMC4186326, DOI: 10.1093/database/bau099.
Chapter 11 Generation of Knowledge for Clinical Decision Support Statistical and Machine Learning TechniquesMatheny M, Ohno-Machado L. Chapter 11 Generation of Knowledge for Clinical Decision Support Statistical and Machine Learning Techniques. 2014, 309-337. DOI: 10.1016/b978-0-12-398476-0.00011-7.
Prediction of MicroRNA Precursors Using Parsimonious Feature SetsStepanowsky P, Levy E, Kim J, Jiang X, Ohno-Machado L. Prediction of MicroRNA Precursors Using Parsimonious Feature Sets. Cancer Informatics 2014, 13s1: cin.s13877. PMID: 25392687, PMCID: PMC4216048, DOI: 10.4137/cin.s13877.
Data governance requirements for distributed clinical research networks: triangulating perspectives of diverse stakeholdersKim K, Browe D, Logan H, Holm R, Hack L, Ohno-Machado L. Data governance requirements for distributed clinical research networks: triangulating perspectives of diverse stakeholders. Journal Of The American Medical Informatics Association 2013, 21: 714-719. PMID: 24302285, PMCID: PMC4078279, DOI: 10.1136/amiajnl-2013-002308.
Recent trends in biomedical informatics: a study based on JAMIA articlesJiang X, Tse K, Wang S, Doan S, Kim H, Ohno-Machado L. Recent trends in biomedical informatics: a study based on JAMIA articles. Journal Of The American Medical Informatics Association 2013, 20: e198-e205. PMID: 24214018, PMCID: PMC3861936, DOI: 10.1136/amiajnl-2013-002429.
Game changer: how informatics moved from a supporting role to a central position in healthcareOhno-Machado L. Game changer: how informatics moved from a supporting role to a central position in healthcare. Journal Of The American Medical Informatics Association 2013, 20: e197-e197. PMID: 24302668, PMCID: PMC3861937, DOI: 10.1136/amiajnl-2013-002434.
DNA-COMPACT: DNA COMpression Based on a Pattern-Aware Contextual Modeling TechniqueLi P, Wang S, Kim J, Xiong H, Ohno-Machado L, Jiang X. DNA-COMPACT: DNA COMpression Based on a Pattern-Aware Contextual Modeling Technique. PLOS ONE 2013, 8: e80377. PMID: 24282536, PMCID: PMC3840021, DOI: 10.1371/journal.pone.0080377.
Data science and informatics: when it comes to biomedical data, is there a real distinction?Ohno-Machado L. Data science and informatics: when it comes to biomedical data, is there a real distinction? Journal Of The American Medical Informatics Association 2013, 20: 1009-1009. PMID: 24114329, PMCID: PMC3822125, DOI: 10.1136/amiajnl-2013-002368.
DELPHI: Data E-platform for Personalized Population HealthKatsis Y, Baru C, Chan T, Dasgupta S, Farcas C, Griswold W, Huang J, Ohno-Machado L, Papakonstantinou Y, Raab F, Patrick K. DELPHI: Data E-platform for Personalized Population Health. 2013, 115-119. DOI: 10.1109/healthcom.2013.6720650.
WebGLORE: a Web service for Grid LOgistic REgressionJiang W, Li P, Wang S, Wu Y, Xue M, Ohno-Machado L, Jiang X. WebGLORE: a Web service for Grid LOgistic REgression. Bioinformatics 2013, 29: 3238-3240. PMID: 24072732, PMCID: PMC3842761, DOI: 10.1093/bioinformatics/btt559.
Natural language processing: algorithms and tools to extract computable information from EHRs and from the biomedical literatureOhno-Machado L, Nadkarni P, Johnson K. Natural language processing: algorithms and tools to extract computable information from EHRs and from the biomedical literature. Journal Of The American Medical Informatics Association 2013, 20: 805-805. PMID: 23935077, PMCID: PMC3756279, DOI: 10.1136/amiajnl-2013-002214.
Development of a Privacy and Security Policy Framework for a Multistate Comparative Effectiveness Research NetworkKim K, McGraw D, Mamo L, Ohno-Machado L. Development of a Privacy and Security Policy Framework for a Multistate Comparative Effectiveness Research Network. Medical Care 2013, 51: s66-s72. PMID: 23774516, DOI: 10.1097/mlr.0b013e31829b1d9f.
Privacy Technology to Support Data Sharing for Comparative Effectiveness ResearchJiang X, Sarwate A, Ohno-Machado L. Privacy Technology to Support Data Sharing for Comparative Effectiveness Research. Medical Care 2013, 51: s58-s65. PMID: 23774511, PMCID: PMC3728160, DOI: 10.1097/mlr.0b013e31829b1d10.
Biomedical CyberInfrastructure challengesFarcas C, Balac N, Ohno-Machado L. Biomedical CyberInfrastructure challenges. 2013, 1-4. DOI: 10.1145/2484762.2484767.
Making it personal: translational bioinformaticsButte A, Ohno-Machado L. Making it personal: translational bioinformatics. Journal Of The American Medical Informatics Association 2013, 20: 595-596. PMID: 23757438, PMCID: PMC3721179, DOI: 10.1136/amiajnl-2013-002028.
Detecting inappropriate access to electronic health records using collaborative filteringMenon A, Jiang X, Kim J, Vaidya J, Ohno-Machado L. Detecting inappropriate access to electronic health records using collaborative filtering. Machine Learning 2013, 95: 87-101. PMID: 24683293, PMCID: PMC3967851, DOI: 10.1007/s10994-013-5376-1.
Electronic health records: monitoring the return on large investmentsOhno-Machado L. Electronic health records: monitoring the return on large investments. Journal Of The American Medical Informatics Association 2013, 20: e1-e1. PMID: 23687172, PMCID: PMC3715341, DOI: 10.1136/amiajnl-2013-001966.
Health surveillance using the internet and other sources of informationOhno-Machado L. Health surveillance using the internet and other sources of information. Journal Of The American Medical Informatics Association 2013, 20: 403-403. PMCID: PMC3628073, DOI: 10.1136/amiajnl-2013-001812.
EXpectation Propagation LOgistic REgRession (EXPLORER): Distributed privacy-preserving online model learningWang S, Jiang X, Wu Y, Cui L, Cheng S, Ohno-Machado L. EXpectation Propagation LOgistic REgRession (EXPLORER): Distributed privacy-preserving online model learning. Journal Of Biomedical Informatics 2013, 46: 480-496. PMID: 23562651, PMCID: PMC3676314, DOI: 10.1016/j.jbi.2013.03.008.
Differential-Private Data Publishing Through Component Analysis.Jiang X, Ji Z, Wang S, Mohammed N, Cheng S, Ohno-Machado L. Differential-Private Data Publishing Through Component Analysis. Transactions On Data Privacy 2013, 6: 19-34. PMID: 24409205, PMCID: PMC3883117.
An Adaptive Difference Distribution-based Coding with Hierarchical Tree Structure for DNA Sequence CompressionDai W, Xiong H, Jiang X, Ohno-Machado L. An Adaptive Difference Distribution-based Coding with Hierarchical Tree Structure for DNA Sequence Compression. Proceedings DCC '98 Data Compression Conference (Cat No98TB100225) 2013, 2013: 371-380. PMID: 26501129, PMCID: PMC4617277, DOI: 10.1109/dcc.2013.45.
Identifying inference attacks against healthcare data repositories.Vaidya J, Shafiq B, Jiang X, Ohno-Machado L. Identifying inference attacks against healthcare data repositories. AMIA Joint Summits On Translational Science Proceedings 2013, 2013: 262-6. PMID: 24303279, PMCID: PMC3845790.
Genomes in the cloud: balancing privacy rights and the public good.Ohno-Machado L, Farcas C, Kim J, Wang S, Jiang X. Genomes in the cloud: balancing privacy rights and the public good. AMIA Joint Summits On Translational Science Proceedings 2013, 2013: 128. PMID: 24303320.
Differential Expression of miR-145 in Children with Kawasaki DiseaseShimizu C, Kim J, Stepanowsky P, Trinh C, Lau H, Akers J, Chen C, Kanegaye J, Tremoulet A, Ohno-Machado L, Burns J. Differential Expression of miR-145 in Children with Kawasaki Disease. PLOS ONE 2013, 8: e58159. PMID: 23483985, PMCID: PMC3590129, DOI: 10.1371/journal.pone.0058159.
Genome Sequence Compression with Distributed Source CodingWang S, Jiang X, Cui L, Dai W, Deligiannis N, Li P, Xiong H, Cheng S, Ohno-Machado L. Genome Sequence Compression with Distributed Source Coding. 2013, 525-525. DOI: 10.1109/dcc.2013.104.
Comparison of four prediction models to discriminate benign from malignant vertebral compression fractures according to MRI feature analysis.Thawait S, Kim J, Klufas R, Morrison W, Flanders A, Carrino J, Ohno-Machado L. Comparison of four prediction models to discriminate benign from malignant vertebral compression fractures according to MRI feature analysis. American Journal Of Roentgenology 2013, 200: 493-502. PMID: 23436836, DOI: 10.2214/ajr.11.7192.
Informatics that works for youOhno-Machado L. Informatics that works for you. Journal Of The American Medical Informatics Association 2013, 20: 211-211. PMID: 23400397, PMCID: PMC3638197, DOI: 10.1136/amiajnl-2013-001667.
Nucleotide sequence alignment using sparse coding and belief propagationRoozgard A, Barzigar N, Wang S, Jiang X, Ohno-Machado L, Cheng S. Nucleotide sequence alignment using sparse coding and belief propagation. Annual International Conference Of The IEEE Engineering In Medicine And Biology Society (EMBC) 2013, 2013: 588-591. PMID: 24109755, PMCID: PMC3909563, DOI: 10.1109/embc.2013.6609568.
Sharing data for the public good and protecting individual privacy: informatics solutions to combine different goalsOhno-Machado L. Sharing data for the public good and protecting individual privacy: informatics solutions to combine different goals. Journal Of The American Medical Informatics Association 2013, 20: 1-1. PMID: 23243087, PMCID: PMC3555342, DOI: 10.1136/amiajnl-2012-001513.
Abstractions for genomicsBafna V, Deutsch A, Heiberg A, Kozanitis C, Ohno-Machado L, Varghese G. Abstractions for genomics. Communications Of The ACM 2013, 56: 83-93. PMID: 25284821, PMCID: PMC4183138, DOI: 10.1145/2398356.2398376.
SurfaceomeDB: a cancer-orientated database for genes encoding cell surface proteins.de Souza J, Galante P, de Almeida R, da Cunha J, Ohara D, Ohno-Machado L, Old L, de Souza S. SurfaceomeDB: a cancer-orientated database for genes encoding cell surface proteins. Cancer Immunology Research 2012, 12: 15. PMID: 23390370, PMCID: PMC3554024.
To Share or Not To Share: That Is Not the QuestionOhno-Machado L. To Share or Not To Share: That Is Not the Question. Science Translational Medicine 2012, 4: 165cm15. PMID: 23253606, DOI: 10.1126/scitranslmed.3004454.
Privacy-preserving heterogeneous health data sharingMohammed N, Jiang X, Chen R, Fung B, Ohno-Machado L. Privacy-preserving heterogeneous health data sharing. Journal Of The American Medical Informatics Association 2012, 20: 462-469. PMID: 23242630, PMCID: PMC3628047, DOI: 10.1136/amiajnl-2012-001027.
Doubly Optimized Calibrated Support Vector Machine (DOC-SVM): An Algorithm for Joint Optimization of Discrimination and CalibrationJiang X, Menon A, Wang S, Kim J, Ohno-Machado L. Doubly Optimized Calibrated Support Vector Machine (DOC-SVM): An Algorithm for Joint Optimization of Discrimination and Calibration. PLOS ONE 2012, 7: e48823. PMID: 23139819, PMCID: PMC3490990, DOI: 10.1371/journal.pone.0048823.
Selecting cases for whom additional tests can improve prognostication.Jiang X, Kim J, Wu Y, Wang S, Ohno-Machado L. Selecting cases for whom additional tests can improve prognostication. AMIA Annual Symposium Proceedings 2012, 2012: 1260-8. PMID: 23304404, PMCID: PMC3540468.
A collaborative framework for Distributed Privacy-Preserving Support Vector Machine learning.Que J, Jiang X, Ohno-Machado L. A collaborative framework for Distributed Privacy-Preserving Support Vector Machine learning. AMIA Annual Symposium Proceedings 2012, 2012: 1350-9. PMID: 23304414, PMCID: PMC3540462.
Preserving Institutional Privacy in Distributed binary Logistic Regression.Wu Y, Jiang X, Ohno-Machado L. Preserving Institutional Privacy in Distributed binary Logistic Regression. AMIA Annual Symposium Proceedings 2012, 2012: 1450-8. PMID: 23304425, PMCID: PMC3540539.
Careers in informatics: a diversity of options with an abundance of jobsOhno-Machado L. Careers in informatics: a diversity of options with an abundance of jobs. Journal Of The American Medical Informatics Association 2012, 19: 919-919. PMID: 23077280, PMCID: PMC3534476, DOI: 10.1136/amiajnl-2012-001363.
An improved model for predicting postoperative nausea and vomiting in ambulatory surgery patients using physician-modifiable risk factorsSarin P, Urman R, Ohno-Machado L. An improved model for predicting postoperative nausea and vomiting in ambulatory surgery patients using physician-modifiable risk factors. Journal Of The American Medical Informatics Association 2012, 19: 995-1002. PMID: 22582204, PMCID: PMC3534465, DOI: 10.1136/amiajnl-2012-000872.
SPLOOCEKroll J, Galante P, Ohara D, Navarro F, Ohno-Machado L, de Souza S. SPLOOCE. RNA Biology 2012, 9: 1339-1343. PMID: 23064119, PMCID: PMC3597574, DOI: 10.4161/rna.22182.
SHARE: system design and case studies for statistical health information releaseGardner J, Xiong L, Xiao Y, Gao J, Post A, Jiang X, Ohno-Machado L. SHARE: system design and case studies for statistical health information release. Journal Of The American Medical Informatics Association 2012, 20: 109-116. PMID: 23059729, PMCID: PMC3555328, DOI: 10.1136/amiajnl-2012-001032.
Privacy-preserving Biometric System for Secure Fingerprint AuthenticationWang S, Jiang X, Ohno-Machado L, Cui L, Cheng S, Xiong H. Privacy-preserving Biometric System for Secure Fingerprint Authentication. 2012, 1: 128-128. DOI: 10.1109/hisb.2012.53.
SecUre Privacy-presERving Medical Image CompRessiOn (SUPERMICRO)Wang S, Jiang X, Ohno-Machado L, Cui L, Cheng S. SecUre Privacy-presERving Medical Image CompRessiOn (SUPERMICRO). 2012, 1: 130-130. DOI: 10.1109/hisb.2012.55.
A randomized response model for privacy-preserving data disseminationJiang X, Wang S, Ji Z, Ohno-Machado L, Xiong L. A randomized response model for privacy-preserving data dissemination. 2012, 1: 138-138. DOI: 10.1109/hisb.2012.63.
Enhancing Twitter Data Analysis with Simple Semantic Filtering: Example in Tracking Influenza-Like IllnessesDoan S, Ohno-Machado L, Collier N. Enhancing Twitter Data Analysis with Simple Semantic Filtering: Example in Tracking Influenza-Like Illnesses. 2012, 1: 62-71. DOI: 10.1109/hisb.2012.21.
Building an Ontology of Phenotypes for Existing GWAS StudiesAlipanah N, Kim H, Ohno-Machado L. Building an Ontology of Phenotypes for Existing GWAS Studies. 2012, 1: 111-111. DOI: 10.1109/hisb.2012.36.
A robust feature selection method for novel pre-microRNA identification using a combination of nucleotide-structure tripletsStepanowsky P, Kim J, Ohno-Machado L. A robust feature selection method for novel pre-microRNA identification using a combination of nucleotide-structure triplets. 2012, 1: 61-61. DOI: 10.1109/hisb.2012.20.
Informatics 2.0: implications of social media, mobile health, and patient-reported outcomes for healthcare and individual privacyOhno-Machado L. Informatics 2.0: implications of social media, mobile health, and patient-reported outcomes for healthcare and individual privacy. Journal Of The American Medical Informatics Association 2012, 19: 683-683. PMID: 22879365, PMCID: PMC3422848, DOI: 10.1136/amiajnl-2012-001224.
Grid Binary LOgistic REgression (GLORE): building shared models without sharing dataWu Y, Jiang X, Kim J, Ohno-Machado L. Grid Binary LOgistic REgression (GLORE): building shared models without sharing data. Journal Of The American Medical Informatics Association 2012, 19: 758-764. PMID: 22511014, PMCID: PMC3422844, DOI: 10.1136/amiajnl-2012-000862.
Reviewing social media use by cliniciansvon Muhlen M, Ohno-Machado L. Reviewing social media use by clinicians. Journal Of The American Medical Informatics Association 2012, 19: 777-781. PMID: 22759618, PMCID: PMC3422846, DOI: 10.1136/amiajnl-2012-000990.
Setting Up an Intronic miRNA DatabaseHinske L, Heyn J, Galante P, Ohno-Machado L, Kreth S. Setting Up an Intronic miRNA Database. 2012, 936: 69-76. PMID: 23007499, DOI: 10.1007/978-1-62703-083-0_5.
Southern California: A Hotbed of Biomedical Engineering: Nine Bioengineers Describe Their Research and Why Southern California Has the Biotech Market CorneredBerger T, Meng E, George S, Khoo M, Marmarelis V, McCulloch A, Cauwenberghs G, Ohno-Machado L, Schultz J, Johnson J. Southern California: A Hotbed of Biomedical Engineering: Nine Bioengineers Describe Their Research and Why Southern California Has the Biotech Market Cornered. IEEE Pulse 2012, 3: 14-21. PMID: 23008840, DOI: 10.1109/mpul.2012.2197698.
Where do we stand in the maze of health information systems?Ohno-Machado L. Where do we stand in the maze of health information systems? Journal Of The American Medical Informatics Association 2012, 19: 497-497. PMCID: PMC3384128, DOI: 10.1136/amiajnl-2012-001134.
Pictogram evaluation and authoring collaboration environment.Kim H, Tamayo D, Muhkin M, Kim J, Lam J, Ohno-Machado L, Aronoff-Spencer E. Pictogram evaluation and authoring collaboration environment. 2012, 2012: 214. PMID: 24199088, PMCID: PMC3799134.
Big science, big data, and a big role for biomedical informaticsOhno-Machado L. Big science, big data, and a big role for biomedical informatics. Journal Of The American Medical Informatics Association 2012, 19: e1-e1. PMID: 22718034, PMCID: PMC3392845, DOI: 10.1136/amiajnl-2012-001052.
Testing The Adequacy Of A Public GWAS Database As A Cohort Discovery ToolLin K, Ross M, Ohno-Machado L, Finn P, Kim H. Testing The Adequacy Of A Public GWAS Database As A Cohort Discovery Tool. 2012, a5778-a5778. DOI: 10.1164/ajrccm-conference.2012.185.1_meetingabstracts.a5778.
Cost-effectiveness of informatics and health IT: impact on finances and quality of careOhno-Machado L. Cost-effectiveness of informatics and health IT: impact on finances and quality of care. Journal Of The American Medical Informatics Association 2012, 19: 327-327. PMCID: PMC3341796, DOI: 10.1136/amiajnl-2012-000964.
Data Locked Inside Databases: A Text Classification In The Database Of Genotypes And Phenotypes (dbGaP) To Address Challenges In Retrieving Clinical Information From Public Data RepositoriesRoss M, Kim J, Lin K, Ohno-Machado L, Finn P, Kim H. Data Locked Inside Databases: A Text Classification In The Database Of Genotypes And Phenotypes (dbGaP) To Address Challenges In Retrieving Clinical Information From Public Data Repositories. 2012, a5777-a5777. DOI: 10.1164/ajrccm-conference.2012.185.1_meetingabstracts.a5777.
A patient-driven adaptive prediction technique to improve personalized risk estimation for clinical decision supportJiang X, Boxwala A, El-Kareh R, Kim J, Ohno-Machado L. A patient-driven adaptive prediction technique to improve personalized risk estimation for clinical decision support. Journal Of The American Medical Informatics Association 2012, 19: e137-e144. PMID: 22493049, PMCID: PMC3392846, DOI: 10.1136/amiajnl-2011-000751.
I-spline Smoothing for Calibrating Predictive Models.Wu Y, Jiang X, Kim J, Ohno-Machado L. I-spline Smoothing for Calibrating Predictive Models. AMIA Joint Summits On Translational Science Proceedings 2012, 2012: 39-46. PMID: 22779048, PMCID: PMC3392066.
iDASH: integrating data for analysis, anonymization, and sharingOhno-Machado L, Bafna V, Boxwala A, Chapman B, Chapman W, Chaudhuri K, Day M, Farcas C, Heintzman N, Jiang X, Kim H, Kim J, Matheny M, Resnic F, Vinterbo S, team A. iDASH: integrating data for analysis, anonymization, and sharing. Journal Of The American Medical Informatics Association 2012, 19: 196-201. PMID: 22081224, PMCID: PMC3277627, DOI: 10.1136/amiajnl-2011-000538.
Calibrating predictive model estimates to support personalized medicineJiang X, Osl M, Kim J, Ohno-Machado L. Calibrating predictive model estimates to support personalized medicine. Journal Of The American Medical Informatics Association 2012, 19: 263-274. PMID: 21984587, PMCID: PMC3277613, DOI: 10.1136/amiajnl-2011-000291.
Informatics research to enable clinically relevant, personalized genomic medicineOhno-Machado L. Informatics research to enable clinically relevant, personalized genomic medicine. Journal Of The American Medical Informatics Association 2012, 19: 149-150. PMID: 22319175, PMCID: PMC3277638, DOI: 10.1136/amiajnl-2012-000844.
Predicting accurate probabilities with a ranking loss.Menon A, Jiang X, Vembu S, Elkan C, Ohno-Machado L. Predicting accurate probabilities with a ranking loss. Proceedings Of The ... International Conference On Machine Learning. 2012, 2012: 703-710. PMID: 25285328, PMCID: PMC4180410.
Computer-based safety surveillance and patient-centered health recordsOhno-Machado L. Computer-based safety surveillance and patient-centered health records. Journal Of The American Medical Informatics Association 2012, 19: 1-1. PMID: 22155973, PMCID: PMC3240770, DOI: 10.1136/amiajnl-2011-000673.
Wireless Patient Monitoring in a Clinical SettingPino E, Curtis D, Stair T, Guttag J, Ohno-Machado L. Wireless Patient Monitoring in a Clinical Setting. 2011, 39-60. DOI: 10.1201/b11522-4.
Innovative approaches to support patient decision making, improve safety, and enable large-scale clinical researchOhno-Machado L. Innovative approaches to support patient decision making, improve safety, and enable large-scale clinical research. Journal Of The American Medical Informatics Association 2011, 18: i1-i1. PMID: 22180872, PMCID: PMC3241183, DOI: 10.1136/amiajnl-2011-000707.
Trends in biomedical informatics: most cited topics from recent yearsKim H, Jiang X, Kim J, Ohno-Machado L. Trends in biomedical informatics: most cited topics from recent years. Journal Of The American Medical Informatics Association 2011, 18: i166-i170. PMID: 22180873, PMCID: PMC3241182, DOI: 10.1136/amiajnl-2011-000706.
A Primer on the Current State of Microarray TechnologiesTrachtenberg A, Robert J, Abdalla A, Fraser A, He S, Lacy J, Rivas-Morello C, Truong A, Hardiman G, Ohno-Machado L, Liu F, Hovig E, Kuo W. A Primer on the Current State of Microarray Technologies. 2011, 802: 3-17. PMID: 22130870, DOI: 10.1007/978-1-61779-400-1_1.
Use of electronic health record systems for decision supportOhno-Machado L. Use of electronic health record systems for decision support. Journal Of The American Medical Informatics Association 2011, 18: 729-729. PMCID: PMC3198004, DOI: 10.1136/amiajnl-2011-000577.
Improving predictions in imbalanced data using Pairwise Expanded Logistic Regression.Jiang X, El-Kareh R, Ohno-Machado L. Improving predictions in imbalanced data using Pairwise Expanded Logistic Regression. AMIA Annual Symposium Proceedings 2011, 2011: 625-34. PMID: 22195118, PMCID: PMC3243279.
Anomaly and signature filtering improve classifier performance for detection of suspicious access to EHRs.Kim J, Grillo J, Boxwala A, Jiang X, Mandelbaum R, Patel B, Mikels D, Vinterbo S, Ohno-Machado L. Anomaly and signature filtering improve classifier performance for detection of suspicious access to EHRs. AMIA Annual Symposium Proceedings 2011, 2011: 723-31. PMID: 22195129, PMCID: PMC3243249.
Realizing the full potential of electronic health records: the role of natural language processingOhno-Machado L. Realizing the full potential of electronic health records: the role of natural language processing. Journal Of The American Medical Informatics Association 2011, 18: 539-539. PMID: 21846784, PMCID: PMC3168331, DOI: 10.1136/amiajnl-2011-000501.
Natural language processing: an introductionNadkarni PM, Ohno-Machado L, Chapman WW. Natural language processing: an introduction. Journal Of The American Medical Informatics Association 2011, 18: 544-551. PMID: 21846786, PMCID: PMC3168328, DOI: 10.1136/amiajnl-2011-000464.
Quantifying fine-grained privacy risk and representativeness in medical dataJiang X, Cheng S, Ohno-Machado L. Quantifying fine-grained privacy risk and representativeness in medical data. 2011, 64-67. DOI: 10.1145/2023582.2023594.
Translational bioinformatics: linking knowledge across biological and clinical realmsSarkar I, Butte A, Lussier Y, Tarczy-Hornoch P, Ohno-Machado L. Translational bioinformatics: linking knowledge across biological and clinical realms. Journal Of The American Medical Informatics Association 2011, 18: 354-357. PMID: 21561873, PMCID: PMC3128415, DOI: 10.1136/amiajnl-2011-000245.
Using statistical and machine learning to help institutions detect suspicious access to electronic health recordsBoxwala A, Kim J, Grillo J, Ohno-Machado L. Using statistical and machine learning to help institutions detect suspicious access to electronic health records. Journal Of The American Medical Informatics Association 2011, 18: 498-505. PMID: 21672912, PMCID: PMC3128412, DOI: 10.1136/amiajnl-2011-000217.
Biomedical informatics: how we got here and where we are headedOhno-Machado L. Biomedical informatics: how we got here and where we are headed. Journal Of The American Medical Informatics Association 2011, 18: 351-351. PMID: 21672903, PMCID: PMC3128422, DOI: 10.1136/amiajnl-2011-000363.
A hybrid open-access model to bridge the publishing divide and reach out to a broader communityOhno-Machado L. A hybrid open-access model to bridge the publishing divide and reach out to a broader community. Journal Of The American Medical Informatics Association 2011, 18: 210-211. PMID: 21486879, PMCID: PMC3078671, DOI: 10.1136/amiajnl-2011-000254.
Informatics is about algorithms, systems, people, and social networksOhno-Machado L. Informatics is about algorithms, systems, people, and social networks. Journal Of The American Medical Informatics Association 2011, 18: 209-209. PMID: 21486878, PMCID: PMC3078672, DOI: 10.1136/amiajnl-2011-000266.
Abstract 4747: Twist1-induced invadopodia formation promotes tumor metastasisEckert M, Lwin T, Chang A, Kim J, Danis E, Ohno-Machado L, Yang J. Abstract 4747: Twist1-induced invadopodia formation promotes tumor metastasis. Cancer Research 2011, 71: 4747-4747. DOI: 10.1158/1538-7445.am2011-4747.
Distinct patterns of somatic alterations in a lymphoblastoid and a tumor genome derived from the same individualGalante P, Parmigiani R, Zhao Q, Caballero O, de Souza J, Navarro F, Gerber A, Nicolás M, Salim A, Silva A, Edsall L, Devalle S, Almeida L, Ye Z, Kuan S, Pinheiro D, Tojal I, Pedigoni R, de Sousa R, Oliveira T, de Paula M, Ohno-Machado L, Kirkness E, Levy S, da Silva W, Vasconcelos A, Ren B, Zago M, Strausberg R, Simpson A, de Souza S, Camargo A. Distinct patterns of somatic alterations in a lymphoblastoid and a tumor genome derived from the same individual. Nucleic Acids Research 2011, 39: 6056-6068. PMID: 21493686, PMCID: PMC3152357, DOI: 10.1093/nar/gkr221.
AnyExpress: Integrated toolkit for analysis of cross-platform gene expression data using a fast interval matching algorithmKim J, Patel K, Jung H, Kuo W, Ohno-Machado L. AnyExpress: Integrated toolkit for analysis of cross-platform gene expression data using a fast interval matching algorithm. BMC Bioinformatics 2011, 12: 75. PMID: 21410990, PMCID: PMC3076267, DOI: 10.1186/1471-2105-12-75.
Smooth isotonic regression: a new method to calibrate predictive models.Jiang X, Osl M, Kim J, Ohno-Machado L. Smooth isotonic regression: a new method to calibrate predictive models. AMIA Joint Summits On Translational Science Proceedings 2011, 2011: 16-20. PMID: 22211175, PMCID: PMC3248752.
Twist1-Induced Invadopodia Formation Promotes Tumor MetastasisEckert M, Lwin T, Chang A, Kim J, Danis E, Ohno-Machado L, Yang J. Twist1-Induced Invadopodia Formation Promotes Tumor Metastasis. Cancer Cell 2011, 19: 372-386. PMID: 21397860, PMCID: PMC3072410, DOI: 10.1016/j.ccr.2011.01.036.
Evaluation of informatics systems: beyond RCTs and beyond the hospitalLehmannm H, Ohno-Machado L. Evaluation of informatics systems: beyond RCTs and beyond the hospital. Journal Of The American Medical Informatics Association 2011, 18: 110-111. PMID: 21385823, PMCID: PMC3116252, DOI: 10.1136/amiajnl-2011-000145.
Electronic health records and computer-based clinical decision support: are we there yet?Ohno-Machado L. Electronic health records and computer-based clinical decision support: are we there yet? Journal Of The American Medical Informatics Association 2011, 18: 109-109. PMCID: PMC3116251, DOI: 10.1136/amiajnl-2011-000141.
A new JAMIAOhno-Machado L. A new JAMIA. Journal Of The American Medical Informatics Association 2011, 18: 2-2. PMID: 21169617, PMCID: PMC3005883, DOI: 10.1136/jamia.2010.009829.
Snail2 is an Essential Mediator of Twist1-Induced Epithelial Mesenchymal Transition and MetastasisCasas E, Kim J, Bendesky A, Ohno-Machado L, Wolfe C, Yang J. Snail2 is an Essential Mediator of Twist1-Induced Epithelial Mesenchymal Transition and Metastasis. Cancer Research 2011, 71: 245-254. PMID: 21199805, PMCID: PMC3025803, DOI: 10.1158/0008-5472.can-10-2330.
Feasibility Evaluation of Smart Stretcher to Improve Patient Safety during TransfersOhashi K, Kurihara Y, Watanabe K, Ohno-Machado L, Tanaka H. Feasibility Evaluation of Smart Stretcher to Improve Patient Safety during Transfers. Methods Of Information In Medicine 2011, 50: 253-264. PMID: 21057715, DOI: 10.3414/me0616.
Confluence of Disciplines in Health Informatics: an International PerspectiveGeissbuhler A, Kimura M, Kulikowski C, Murray P, Ohno-Machado L, Park H, Haux R. Confluence of Disciplines in Health Informatics: an International Perspective. Methods Of Information In Medicine 2011, 50: 545-555. PMID: 22146917, DOI: 10.3414/me11-06-0005.
What's new in informaticsOhno-Machado L. What's new in informatics. Journal Of The American Medical Informatics Association 2011, 18: 1-1. PMID: 21169616, PMCID: PMC3005884, DOI: 10.1136/jamia.2010.009910.
Automating pressure ulcer risk assessment using documented patient dataKim H, Choi J, Thompson S, Meeker L, Dykes P, Goldsmith D, Ohno-Machado L. Automating pressure ulcer risk assessment using documented patient data. International Journal Of Medical Informatics 2010, 79: 840-848. PMID: 20869303, DOI: 10.1016/j.ijmedinf.2010.08.005.
Building an ontology for pressure ulcer risk assessment to allow data sharing and comparisons across hospitals.Kim H, Choi J, Secalag L, Dibsie L, Boxwala A, Ohno-Machado L. Building an ontology for pressure ulcer risk assessment to allow data sharing and comparisons across hospitals. AMIA Annual Symposium Proceedings 2010, 2010: 382-6. PMID: 21347005, PMCID: PMC3041354.
Effect of data combination on predictive modeling: a study using gene expression data.Osl M, Dreiseitl S, Kim J, Patel K, Baumgartner C, Ohno-Machado L. Effect of data combination on predictive modeling: a study using gene expression data. AMIA Annual Symposium Proceedings 2010, 2010: 567-71. PMID: 21347042, PMCID: PMC3041313.
Positive predictive value of CT urography in the evaluation of upper tract urothelial cancer.Sadow C, Wheeler S, Kim J, Ohno-Machado L, Silverman S. Positive predictive value of CT urography in the evaluation of upper tract urothelial cancer. American Journal Of Roentgenology 2010, 195: w337-43. PMID: 20966298, DOI: 10.2214/ajr.09.4147.
Assessing the quality of annotations in asthma gene expression experimentsLacson R, Mbagwu M, Yousif H, Ohno-Machado L. Assessing the quality of annotations in asthma gene expression experiments. BMC Bioinformatics 2010, 11: s8. PMID: 21044366, PMCID: PMC2967749, DOI: 10.1186/1471-2105-11-s9-s8.
A potential role for intragenic miRNAs on their hosts' interactomeHinske L, Galante P, Kuo W, Ohno-Machado L. A potential role for intragenic miRNAs on their hosts' interactome. BMC Genomics 2010, 11: 533. PMID: 20920310, PMCID: PMC3091682, DOI: 10.1186/1471-2164-11-533.
Adding the Human Element: Experience with a Wireless Patient Monitoring SystemCurtis D, Pino E, Stair T, Ohno-Machado L. Adding the Human Element: Experience with a Wireless Patient Monitoring System. 2010, 259-277. DOI: 10.1007/978-1-4419-5834-1_10.
Smart medical environment at the point of care: Auto-tracking clinical interventions at the bed side using RFID technologyOhashi K, Ota S, Ohno-Machado L, Tanaka H. Smart medical environment at the point of care: Auto-tracking clinical interventions at the bed side using RFID technology. Computers In Biology And Medicine 2010, 40: 545-554. PMID: 20471637, DOI: 10.1016/j.compbiomed.2010.03.007.
DSGeo: Software tools for cross-platform analysis of gene expression data in GEOLacson R, Pitzer E, Kim J, Galante P, Hinske C, Ohno-Machado L. DSGeo: Software tools for cross-platform analysis of gene expression data in GEO. Journal Of Biomedical Informatics 2010, 43: 709-715. PMID: 20435161, PMCID: PMC2934864, DOI: 10.1016/j.jbi.2010.04.007.
PositionMatcher: A Fast Custom-Annotation Tool for Short DNA Sequences.Pitzer E, Kim J, Patel K, Galante P, Ohno-Machado L. PositionMatcher: A Fast Custom-Annotation Tool for Short DNA Sequences. AMIA Joint Summits On Translational Science Proceedings 2010, 2010: 25-9. PMID: 21347141, PMCID: PMC3041550.
TGF-beta1 interactome: metastasis and beyond.Perera M, Tsang C, Distel R, Lacy J, Ohno-Machado L, Ricchiuti V, Samaranayake L, Smejkal G, Smith M, Trachtenberg A, Kuo W. TGF-beta1 interactome: metastasis and beyond. Cancer Genomics & Proteomics 2010, 7: 217-29. PMID: 20656987.
SMART: Mobile Patient Monitoring in anPino E, Curtis D, Stair T, Ohno-Machado L. SMART: Mobile Patient Monitoring in an. International Journal Of Healthcare Delivery Reform Initiatives 2009, 1: 1-16. DOI: 10.4018/jhdri.2009100101.
Towards large-scale sample annotation in gene expression repositoriesPitzer E, Lacson R, Hinske C, Kim J, Galante P, Ohno-Machado L. Towards large-scale sample annotation in gene expression repositories. BMC Bioinformatics 2009, 10: s9. PMID: 19761579, PMCID: PMC2745696, DOI: 10.1186/1471-2105-10-s9-s9.
Evaluation of a large-scale biomedical data annotation initiativeLacson R, Pitzer E, Hinske C, Galante P, Ohno-Machado L. Evaluation of a large-scale biomedical data annotation initiative. BMC Bioinformatics 2009, 10: s10. PMID: 19761564, PMCID: PMC2745681, DOI: 10.1186/1471-2105-10-s9-s10.
Is there an advantage in scoring early embryos on more than one day?Racowsky C, Ohno-Machado L, Kim J, Biggers J. Is there an advantage in scoring early embryos on more than one day? Human Reproduction 2009, 24: 2104-2113. PMID: 19493872, PMCID: PMC2727402, DOI: 10.1093/humrep/dep198.
Presentation of the 2008 Morris F. Collen Award to Robert A. GreenesOhno-Machado L, Ellison D, Shortliffe E. Presentation of the 2008 Morris F. Collen Award to Robert A. Greenes. Journal Of The American Medical Informatics Association 2009, 16: 413-418. PMID: 19606540, PMCID: PMC2732226, DOI: 10.1197/jamia.m3172.
A Systematic Comparison of Gene Expression Measurements across Different Hybridization-Based TechnologiesKuo W, Liu F, Jensen T, Benson S, Cepko C, Hovig E, Ohno-Machado L. A Systematic Comparison of Gene Expression Measurements across Different Hybridization-Based Technologies. 2009, 20090856: 145-173. DOI: 10.1201/9781420094510-c12.
Using ambient intelligence for physiological monitoringCurtis D, Bailey J, Pino E, Stair T, Vinterbo S, Waterman J, Shih E, Guttag J, Greenes R, Ohno-Machado L. Using ambient intelligence for physiological monitoring. Journal Of Ambient Intelligence And Smart Environments 2009, 1: 129-142. DOI: 10.3233/ais-2009-0018.
Outstanding Submissions to the AMIA Annual Symposium Now Featured in JAMIAOhno-Machado L, Miller R. Outstanding Submissions to the AMIA Annual Symposium Now Featured in JAMIA. Journal Of The American Medical Informatics Association 2009, 16: 143-144. PMID: 19127607, PMCID: PMC2605591, DOI: 10.1197/jamia.m3021.
Improving calibration of logistic regression models by local estimates.Osl M, Ohno-Machado L, Baumgartner C, Tilg B, Dreiseitl S. Improving calibration of logistic regression models by local estimates. AMIA Annual Symposium Proceedings 2008, 2008: 535-9. PMID: 18998878, PMCID: PMC2656048.
Comparison of RFID systems for tracking clinical interventions at the bedside.Ohashi K, Ota S, Ohno-Machado L, Tanaka H. Comparison of RFID systems for tracking clinical interventions at the bedside. AMIA Annual Symposium Proceedings 2008, 2008: 525-9. PMID: 18998888, PMCID: PMC2656010.
Validation of an Automated Safety Surveillance System with Prospective, Randomized Trial DataMatheny M, Morrow D, Ohno-Machado L, Cannon C, Sabatine M, Resnic F. Validation of an Automated Safety Surveillance System with Prospective, Randomized Trial Data. Medical Decision Making 2008, 29: 247-256. PMID: 19015285, PMCID: PMC2743924, DOI: 10.1177/0272989x08327110.
Peripheral arterial occlusive disease: Global gene expression analyses suggest a major role for immune and inflammatory responsesFu S, Zhao H, Shi J, Abzhanov A, Crawford K, Ohno-Machado L, Zhou J, Du Y, Kuo W, Zhang J, Jiang M, Jin J. Peripheral arterial occlusive disease: Global gene expression analyses suggest a major role for immune and inflammatory responses. BMC Genomics 2008, 9: 369. PMID: 18673543, PMCID: PMC2529314, DOI: 10.1186/1471-2164-9-369.
Validation of oligoarrays for quantitative exploration of the transcriptomeNygaard V, Liu F, Holden M, Kuo W, Trimarchi J, Ohno-Machado L, Cepko C, Frigessi A, Glad I, van de Wiel M, Hovig E, Lyng H. Validation of oligoarrays for quantitative exploration of the transcriptome. BMC Genomics 2008, 9: 258. PMID: 18513391, PMCID: PMC2430212, DOI: 10.1186/1471-2164-9-258.
Optimizing logistic regression coefficients for discrimination and calibration using estimation of distribution algorithmsRobles V, Bielza C, Larrañaga P, González S, Ohno-Machado L. Optimizing logistic regression coefficients for discrimination and calibration using estimation of distribution algorithms. TOP 2008, 16: 345. DOI: 10.1007/s11750-008-0054-3.
Angiogenic heterogeneity in head and neck squamous cell carcinoma: biological and therapeutic implicationsHasina R, Whipple M, Martin L, Kuo W, Ohno-Machado L, Lingen M. Angiogenic heterogeneity in head and neck squamous cell carcinoma: biological and therapeutic implications. Laboratory Investigation 2008, 88: 342-353. PMID: 18283272, PMCID: PMC2614382, DOI: 10.1038/labinvest.2008.6.
Physiological Signal Monitoring in the Waiting Areas of an Emergency RoomCurtis D, Shih E, Waterman J, Guttag J, Bailey J, Stair T, Greenes R, Ohno-Machado L. Physiological Signal Monitoring in the Waiting Areas of an Emergency Room. 2008 DOI: 10.4108/icst.bodynets2008.2968.
SMART—An Integrated Wireless System for Monitoring Unattended PatientsCurtis D, Pino E, Bailey J, Shih E, Waterman J, Vinterbo S, Stair T, Guttag J, Greenes R, Ohno-Machado L. SMART—An Integrated Wireless System for Monitoring Unattended Patients. Journal Of The American Medical Informatics Association 2007, 15: 44-53. PMID: 17947629, PMCID: PMC2274866, DOI: 10.1197/jamia.m2016.
Risk-adjusted sequential probability ratio test control chart methods for monitoring operator and institutional mortality rates in interventional cardiologyMatheny M, Ohno-Machado L, Resnic F. Risk-adjusted sequential probability ratio test control chart methods for monitoring operator and institutional mortality rates in interventional cardiology. American Heart Journal 2007, 155: 114-120. PMID: 18082501, DOI: 10.1016/j.ahj.2007.08.022.
Rare adverse event monitoring of medical devices with the use of an automated surveillance tool.Matheny M, Arora N, Ohno-Machado L, Resnic F. Rare adverse event monitoring of medical devices with the use of an automated surveillance tool. AMIA Annual Symposium Proceedings 2007, 2007: 518-22. PMID: 18693890, PMCID: PMC2655807.
Is redundancy in vital signs monitoring useful?Curtis D, Bailey J, Pino E, Shih E, Greenes R, Guttag J, Stair T, Ohno-Machado L. Is redundancy in vital signs monitoring useful? AMIA Annual Symposium Proceedings 2007, 923. PMID: 18694023.
Validating an automated outcomes surveillance application using data from a terminated randomized, controlled trial (OPUS [TIMI-16]).Matheny M, Morrow D, Ohno-Machado L, Cannon C, Resnic F. Validating an automated outcomes surveillance application using data from a terminated randomized, controlled trial (OPUS [TIMI-16]). AMIA Annual Symposium Proceedings 2007, 1043. PMID: 18694141.
Current status of the Japanese cancer registry system: results of a nationwide survey.Sawa T, Yuji K, Kami M, Ohno-Machado L, Nakata Y. Current status of the Japanese cancer registry system: results of a nationwide survey. AMIA Annual Symposium Proceedings 2007, 1104. PMID: 18694201.
MODELING CANCER: INTEGRATION OF "OMICS" INFORMATION IN DYNAMIC SYSTEMSSTRANSKY B, BARRERA J, OHNO-MACHADO L, DE SOUZA S. MODELING CANCER: INTEGRATION OF "OMICS" INFORMATION IN DYNAMIC SYSTEMS. Journal Of Bioinformatics And Computational Biology 2007, 5: 977-986. PMID: 17787066, DOI: 10.1142/s0219720007002990.
Comparison of hybridization-based and sequencing-based gene expression technologies on biological replicatesLiu F, Jenssen T, Trimarchi J, Punzo C, Cepko C, Ohno-Machado L, Hovig E, Patrick Kuo W. Comparison of hybridization-based and sequencing-based gene expression technologies on biological replicates. BMC Genomics 2007, 8: 153. PMID: 17555589, PMCID: PMC1899500, DOI: 10.1186/1471-2164-8-153.
Effects of SVM parameter optimization on discrimination and calibration for post-procedural PCI mortalityMatheny M, Resnic F, Arora N, Ohno-Machado L. Effects of SVM parameter optimization on discrimination and calibration for post-procedural PCI mortality. Journal Of Biomedical Informatics 2007, 40: 688-697. PMID: 17600771, PMCID: PMC2170520, DOI: 10.1016/j.jbi.2007.05.008.
Automatic correspondence of tags and genes (ACTG): a tool for the analysis of SAGE, MPSS and SBS data.Galante P, Trimarchi J, Cepko C, de Souza S, Ohno-Machado L, Kuo W. Automatic correspondence of tags and genes (ACTG): a tool for the analysis of SAGE, MPSS and SBS data. Bioinformatics 2007, 23: 903-5. PMID: 17277333, DOI: 10.1093/bioinformatics/btm023.
10 Generation of knowledge for clinical decision support Statistical and machine learning techniquesMatheny M, Ohno-Machado L. 10 Generation of knowledge for clinical decision support Statistical and machine learning techniques. 2007, 227-248. DOI: 10.1016/b978-012369377-8/50011-8.
DATA MINING IN BIOMEDICINEOhno-Machado L, Vinterbo S. DATA MINING IN BIOMEDICINE. 2006, 2: 305-320. DOI: 10.1142/9789812772664_0014.
PROGNOSIS IN CRITICAL CAREOhno-Machado L, Resnic F, Matheny M. PROGNOSIS IN CRITICAL CARE. Annual Review Of Biomedical Engineering 2006, 8: 567-599. PMID: 16834567, DOI: 10.1146/annurev.bioeng.8.061505.095842.
A sequence-oriented comparison of gene expression measurements across different hybridization-based technologiesKuo W, Liu F, Trimarchi J, Punzo C, Lombardi M, Sarang J, Whipple M, Maysuria M, Serikawa K, Lee S, McCrann D, Kang J, Shearstone J, Burke J, Park D, Wang X, Rector T, Ricciardi-Castagnoli P, Perrin S, Choi S, Bumgarner R, Kim J, Short G, Freeman M, Seed B, Jensen R, Church G, Hovig E, Cepko C, Park P, Ohno-Machado L, Jenssen T. A sequence-oriented comparison of gene expression measurements across different hybridization-based technologies. Nature Biotechnology 2006, 24: 832-840. PMID: 16823376, DOI: 10.1038/nbt1217.
Supratentorial Low-Grade Glioma Resectability: Statistical Predictive Analysis Based on Anatomic MR Features and Tumor CharacteristicsTalos I, Zou K, Ohno-Machado L, Bhagwat J, Kikinis R, Black P, Jolesz F. Supratentorial Low-Grade Glioma Resectability: Statistical Predictive Analysis Based on Anatomic MR Features and Tumor Characteristics. Radiology 2006, 239: 506-13. PMID: 16641355, PMCID: PMC1475754, DOI: 10.1148/radiol.2392050661.
Approximation properties of haplotype taggingVinterbo S, Dreiseitl S, Ohno-Machado L. Approximation properties of haplotype tagging. BMC Bioinformatics 2006, 7: 8. PMID: 16401341, PMCID: PMC1395335, DOI: 10.1186/1471-2105-7-8.
A certificate program in health informatics: Brazil/USA experience.Marin H, Massad E, Marques E, Ohno-Machado L. A certificate program in health informatics: Brazil/USA experience. 2006, 122: 800. PMID: 17102389.
Monitoring Device Safety in Interventional CardiologyMatheny M, Ohno-Machado L, Resnic F. Monitoring Device Safety in Interventional Cardiology. Journal Of The American Medical Informatics Association 2005, 13: 180-187. PMID: 16357356, PMCID: PMC1447549, DOI: 10.1197/jamia.m1908.
Representation in stochastic search for phylogenetic tree reconstructionWeber G, Ohno-Machado L, Shieber S. Representation in stochastic search for phylogenetic tree reconstruction. Journal Of Biomedical Informatics 2005, 39: 43-50. PMID: 16359929, DOI: 10.1016/j.jbi.2005.11.001.
Clinical machine learningOhno-Machado L. Clinical machine learning. Journal Of Biomedical Informatics 2005, 38: 345-346. DOI: 10.1016/j.jbi.2005.05.009.
The use of receiver operating characteristic curves in biomedical informaticsLasko T, Bhagwat J, Zou K, Ohno-Machado L. The use of receiver operating characteristic curves in biomedical informatics. Journal Of Biomedical Informatics 2005, 38: 404-415. PMID: 16198999, DOI: 10.1016/j.jbi.2005.02.008.
Development of radiology prediction models using feature analysis1Carrino J, Ohno-Machado L. Development of radiology prediction models using feature analysis1. Academic Radiology 2005, 12: 415-421. PMID: 15831414, DOI: 10.1016/j.acra.2005.01.009.
Discrimination and calibration of mortality risk prediction models in interventional cardiologyMatheny M, Ohno-Machado L, Resnic F. Discrimination and calibration of mortality risk prediction models in interventional cardiology. Journal Of Biomedical Informatics 2005, 38: 367-375. PMID: 16198996, DOI: 10.1016/j.jbi.2005.02.007.
A global goodness-of-fit test for receiver operating characteristic curve analysis via the bootstrap methodZou K, Resnic F, Talos I, Goldberg-Zimring D, Bhagwat J, Haker S, Kikinis R, Jolesz F, Ohno-Machado L. A global goodness-of-fit test for receiver operating characteristic curve analysis via the bootstrap method. Journal Of Biomedical Informatics 2005, 38: 395-403. PMID: 16198998, DOI: 10.1016/j.jbi.2005.02.004.
Small, fuzzy and interpretable gene expression based classifiersVinterbo S, Kim E, Ohno-Machado L. Small, fuzzy and interpretable gene expression based classifiers. Bioinformatics 2005, 21: 1964-1970. PMID: 15661797, DOI: 10.1093/bioinformatics/bti287.
Real-time ECG algorithms for ambulatory patient monitoring.Pino E, Ohno-Machado L, Wiechmann E, Curtis D. Real-time ECG algorithms for ambulatory patient monitoring. AMIA Annual Symposium Proceedings 2005, 2005: 604-8. PMID: 16779111, PMCID: PMC1560458.
Training health informatics professionals in Brazil: rationale for the development of a new certificate program.Marin H, Massad E, Marques E, Azevedo R, Ohno-Machado L. Training health informatics professionals in Brazil: rationale for the development of a new certificate program. AMIA Annual Symposium Proceedings 2005, 2005: 1042. PMID: 16779329, PMCID: PMC1560621.
Exploration of a Bayesian updating tool to provide real-time safety monitoring for new medical devices.Matheny M, Ohno-Machado L, Resnic F. Exploration of a Bayesian updating tool to provide real-time safety monitoring for new medical devices. AMIA Annual Symposium Proceedings 2005, 2005: 1045. PMID: 16779332, PMCID: PMC1560574.
WLAN PDA to improve efficiency in patient care documentation.Sawa T, Funahara T, Nagatani H, Okahara M, Sase K, Nakata Y, Ohno-Machado L. WLAN PDA to improve efficiency in patient care documentation. AMIA Annual Symposium Proceedings 2005, 2005: 1107. PMID: 16779394, PMCID: PMC1560477.
Combining Classifiers Using Their Receiver Operating Characteristics and Maximum Likelihood EstimationHaker S, Wells W, Warfield S, Talos I, Bhagwat J, Goldberg-Zimring D, Mian A, Ohno-Machado L, Zou K. Combining Classifiers Using Their Receiver Operating Characteristics and Maximum Likelihood Estimation. 2005, 8: 506-514. PMID: 16685884, PMCID: PMC3681096, DOI: 10.1007/11566465_63.
Training in Health Informatics in BrazilMarques E, Marin H, Massad E, Ohno-Machado L. Training in Health Informatics in Brazil. Yearbook Of Medical Informatics 2004, 13: 185-191. PMID: 27706319, DOI: 10.1055/s-0038-1638192.
A primer on gene expression and microarrays for machine learning researchersKuo W, Kim E, Trimarchi J, Jenssen T, Vinterbo S, Ohno-Machado L. A primer on gene expression and microarrays for machine learning researchers. Journal Of Biomedical Informatics 2004, 37: 293-303. PMID: 15465482, DOI: 10.1016/j.jbi.2004.07.002.
Research on machine learning issues in biomedical informatics modelingOhno-Machado L. Research on machine learning issues in biomedical informatics modeling. Journal Of Biomedical Informatics 2004, 37: 221-223. PMID: 15465475, DOI: 10.1016/j.jbi.2004.07.004.
Protecting patient privacy by quantifiable control of disclosures in disseminated databasesOhno-Machado L, Silveira P, Vinterbo S. Protecting patient privacy by quantifiable control of disclosures in disseminated databases. International Journal Of Medical Informatics 2004, 73: 599-606. PMID: 15246040, DOI: 10.1016/j.ijmedinf.2004.05.002.
Exploration of a Bayesian Updating Methodology to Monitor the Safety of Interventional Cardiovascular ProceduresResnic F, Zou K, Do D, Apostolakis G, Ohno-Machado L. Exploration of a Bayesian Updating Methodology to Monitor the Safety of Interventional Cardiovascular Procedures. Medical Decision Making 2004, 24: 399-407. PMID: 15271278, DOI: 10.1177/0272989x04267012.
Intertumoral angiogenic heterogeneity: biologic and therapeutic implicationsHasina R, Kuo W, Ohno-Machado L, Lingen M. Intertumoral angiogenic heterogeneity: biologic and therapeutic implications. Oral Surgery Oral Medicine Oral Pathology And Oral Radiology 2004, 98: 203. DOI: 10.1016/j.tripleo.2004.06.039.
A greedy algorithm for supervised discretizationButterworth R, Simovici D, Santos G, Ohno-Machado L. A greedy algorithm for supervised discretization. Journal Of Biomedical Informatics 2004, 37: 285-292. PMID: 15465481, DOI: 10.1016/j.jbi.2004.07.006.
The Goodman-Kruskal coefficient and its applications in genetic diagnosis of cancerJaroszewicz S, Simovici D, Kuo W, Ohno-Machado L. The Goodman-Kruskal coefficient and its applications in genetic diagnosis of cancer. IEEE Transactions On Biomedical Engineering 2004, 51: 1095-1102. PMID: 15248526, DOI: 10.1109/tbme.2004.827267.
Genomic Analysis of Mouse Retinal DevelopmentBlackshaw S, Harpavat S, Trimarchi J, Cai L, Huang H, Kuo W, Weber G, Lee K, Fraioli R, Cho S, Yung R, Asch E, Ohno-Machado L, Wong W, Cepko C. Genomic Analysis of Mouse Retinal Development. PLOS Biology 2004, 2: e247. PMID: 15226823, PMCID: PMC439783, DOI: 10.1371/journal.pbio.0020247.
Multivariate selection of genetic markers in diagnostic classificationWeber G, Vinterbo S, Ohno-Machado L. Multivariate selection of genetic markers in diagnostic classification. Artificial Intelligence In Medicine 2004, 31: 155-167. PMID: 15219292, DOI: 10.1016/j.artmed.2004.01.011.
Deciphering gene expression profiles generated from DNA microarrays and their applications in oral medicineKuo W, Whipple M, Epstein J, Jenssen T, Santos G, Ohno-Machado L, Sonis S. Deciphering gene expression profiles generated from DNA microarrays and their applications in oral medicine. Oral Surgery Oral Medicine Oral Pathology And Oral Radiology 2004, 97: 584-591. PMID: 15153870, DOI: 10.1016/j.tripleo.2003.11.016.
Diagnostic accuracy of chest X-rays acquired using a digital camera for low-cost teleradiologySzot A, Jacobson F, Munn S, Jazayeri D, Nardell E, Harrison D, Drosten R, Ohno-Machado L, Smeaton L, Fraser H. Diagnostic accuracy of chest X-rays acquired using a digital camera for low-cost teleradiology. International Journal Of Medical Informatics 2004, 73: 65-73. PMID: 15036080, DOI: 10.1016/j.ijmedinf.2003.10.002.
Prediction of mortality in an Indian intensive care unitNimgaonkar A, Karnad D, Sudarshan S, Ohno-Machado L, Kohane I. Prediction of mortality in an Indian intensive care unit. Intensive Care Medicine 2004, 30: 248-253. PMID: 14727015, DOI: 10.1007/s00134-003-2105-4.
International training in health informatics: a Brazilian experience.Marin H, Massad E, Marques E, Ohno-Machado L. International training in health informatics: a Brazilian experience. 2004, 107: 898-902. PMID: 15360942.
A nationwide adaptive prediction tool for coronary heart disease prevention.Holt T, Ohno-Machado L. A nationwide adaptive prediction tool for coronary heart disease prevention. British Journal Of General Practice 2003, 53: 866-70. PMID: 14702907, PMCID: PMC1314730.
Efficient Bayesian Sample Size Calculation for Designing a Clinical Trial with Multi‐Cluster Outcome DataZou K, Resnic F, Gogate A, Ondategui‐Parra S, Ohno‐Machado L. Efficient Bayesian Sample Size Calculation for Designing a Clinical Trial with Multi‐Cluster Outcome Data. Biometrical Journal 2003, 45: 826-836. DOI: 10.1002/bimj.200390052.
An Epicurean learning approach to gene-expression data classificationAlbrecht A, Vinterbo S, Ohno-Machado L. An Epicurean learning approach to gene-expression data classification. Artificial Intelligence In Medicine 2003, 28: 75-87. PMID: 12850314, DOI: 10.1016/s0933-3657(03)00036-8.
Microarrays and clinical dentistryKuo W, Whipple M, Jenssen T, Todd R, Epstein J, Ohno-Machado L, Sonis S, Park P. Microarrays and clinical dentistry. The Journal Of The American Dental Association 2003, 134: 456-462. PMID: 12733779, DOI: 10.14219/jada.archive.2003.0195.
Classification and identification of genes associated with oral cancer based on gene expression profiles. A preliminary study.Kuo W, Hasina R, Ohno-Machado L, Lingen M. Classification and identification of genes associated with oral cancer based on gene expression profiles. A preliminary study. Dental Journal 2003, 69: 23-6. PMID: 12703240.
Classification of movement states in Parkinson's disease using a wearable ambulatory monitor.Klapper D, Weaver J, Fernandez H, Ohno-Machado L. Classification of movement states in Parkinson's disease using a wearable ambulatory monitor. AMIA Annual Symposium Proceedings 2003, 2003: 896. PMID: 14728401, PMCID: PMC1480298.
Preoperative information management system using wireless PDAs.Sawa T, Okahara M, Santo M, Schmidt U, Nakata Y, Morita S, Ohno-Machado L. Preoperative information management system using wireless PDAs. AMIA Annual Symposium Proceedings 2003, 2003: 995. PMID: 14728498, PMCID: PMC1480168.
Stochastic Algorithms for Gene Expression AnalysisOhno-Machado L, Kuo W. Stochastic Algorithms for Gene Expression Analysis. 2003, 2827: 39-49. DOI: 10.1007/978-3-540-39816-5_4.
A neural network-based similarity index for clustering DNA microarray dataSawa T, Ohno-Machado L. A neural network-based similarity index for clustering DNA microarray data. Computers In Biology And Medicine 2003, 33: 1-15. PMID: 12485626, DOI: 10.1016/s0010-4825(02)00032-x.
No-reflow is an independent predictor of death and myocardial infarction after percutaneous coronary interventionResnic F, Wainstein M, Lee M, Behrendt D, Wainstein R, Ohno-Machado L, Kirshenbaum J, Rogers C, Popma J, Piana R. No-reflow is an independent predictor of death and myocardial infarction after percutaneous coronary intervention. American Heart Journal 2003, 145: 42-46. PMID: 12514653, DOI: 10.1067/mhj.2003.36.
Epicurean-style Learning Applied to the Classification of Gene-Expression DataAlbrecht A, Vinterbo S, Ohno-Machado L. Epicurean-style Learning Applied to the Classification of Gene-Expression Data. 2003, 47-59. DOI: 10.1007/978-1-4471-0651-7_4.
Effects of Data Anonymization by Cell Suppression on Descriptive Statistics and Predictive Modeling PerformanceOhno-Machado L, Vinterbo S, Dreiseitl S. Effects of Data Anonymization by Cell Suppression on Descriptive Statistics and Predictive Modeling Performance. Journal Of The American Medical Informatics Association 2002, 9: s115-s119. PMCID: PMC419433, DOI: 10.1197/jamia.m1241.
Generation of Dynamically Configured Check Lists for Intra-Operative Problems: Using a Set Covering AlgorithmSawa T, Ohno-Machado L. Generation of Dynamically Configured Check Lists for Intra-Operative Problems: Using a Set Covering Algorithm. Journal Of The American Medical Informatics Association 2002, 9: s28-s33. PMCID: PMC419412, DOI: 10.1197/jamia.m1221.
Disambiguation Data: Extracting Information from Anonymized SourcesDreiseitl S, Vinterbo S, Ohno-Machado L. Disambiguation Data: Extracting Information from Anonymized Sources. Journal Of The American Medical Informatics Association 2002, 9: s110-s114. PMCID: PMC419432, DOI: 10.1197/jamia.m1240.
Gene expression profiling by DNA microarrays and its application to dental researchKuo W, Whipple M, Sonis S, Ohno-Machado L, Jenssen T. Gene expression profiling by DNA microarrays and its application to dental research. Oral Oncology 2002, 38: 650-656. PMID: 12353490, DOI: 10.1016/s1368-8375(02)00013-1.
Logistic regression and artificial neural network classification models: a methodology reviewDreiseitl S, Ohno-Machado L. Logistic regression and artificial neural network classification models: a methodology review. Journal Of Biomedical Informatics 2002, 35: 352-359. PMID: 12968784, DOI: 10.1016/s1532-0464(03)00034-0.
A Simulated Annealing and Resampling Method for Training Perceptrons to Classify Gene-Expression DataAlbrecht A, Vinterbo S, Wong C, Ohno-Machado L. A Simulated Annealing and Resampling Method for Training Perceptrons to Classify Gene-Expression Data. 2002, 2415: 401-407. DOI: 10.1007/3-540-46084-5_65.
Analysis of matched mRNA measurements from two different microarray technologiesKuo W, Jenssen T, Butte A, Ohno-Machado L, Kohane I. Analysis of matched mRNA measurements from two different microarray technologies. Bioinformatics 2002, 18: 405-412. PMID: 11934739, DOI: 10.1093/bioinformatics/18.3.405.
Visualization and evaluation of clusters for exploratory analysis of gene expression dataKim J, Kohane I, Ohno-Machado L. Visualization and evaluation of clusters for exploratory analysis of gene expression data. Journal Of Biomedical Informatics 2002, 35: 25-36. PMID: 12415724, DOI: 10.1016/s1532-0464(02)00001-1.
Gene expression levels in different stages of progression in oral squamous cell carcinoma.Kuo W, Jenssen T, Park P, Lingen M, Hasina R, Ohno-Machado L. Gene expression levels in different stages of progression in oral squamous cell carcinoma. AMIA Annual Symposium Proceedings 2002, 415-9. PMID: 12474876, PMCID: PMC2244435.
Training in health informatics in Brazil.Marques E, Marin H, Massad E, Fraser H, Ohno-Machado L. Training in health informatics in Brazil. 2002, 90: 757-60. PMID: 15460793.
Open source handheld-based EMR for paramedics working in rural areas.Anantraman V, Mikkelsen T, Khilnani R, Kumar V, Pentland A, Ohno-Machado L. Open source handheld-based EMR for paramedics working in rural areas. AMIA Annual Symposium Proceedings 2002, 12-6. PMID: 12463777, PMCID: PMC2244537.
Comparing imperfect measurements with the Bland-Altman technique: application in gene expression analysis.Ohno-Machado L, Vinterbo S, Dreiseitl S, Jenssen T, Kuo W. Comparing imperfect measurements with the Bland-Altman technique: application in gene expression analysis. AMIA Annual Symposium Proceedings 2002, 572-6. PMID: 12463888, PMCID: PMC2244491.
Providing context-sensitive decision-support based on WHO guidelines.Ray H, Boxwala A, Anantraman V, Ohno-Machado L. Providing context-sensitive decision-support based on WHO guidelines. AMIA Annual Symposium Proceedings 2002, 637-41. PMID: 12463901, PMCID: PMC2244156.
Building an asynchronous web-based tool for machine learning classification.Weber G, Vinterbo S, Ohno-Machado L. Building an asynchronous web-based tool for machine learning classification. AMIA Annual Symposium Proceedings 2002, 869-73. PMID: 12463949, PMCID: PMC2244467.
Modeling Medical Prognosis: Survival Analysis TechniquesOhno-Machado L. Modeling Medical Prognosis: Survival Analysis Techniques. Journal Of Biomedical Informatics 2001, 34: 428-439. PMID: 12198763, DOI: 10.1006/jbin.2002.1038.
Vascular closure devices and the risk of vascular complications after percutaneous coronary intervention in patients receiving glycoprotein IIb-IIIa inhibitorsResnic F, Blake G, Ohno-Machado L, Selwyn A, Popma J, Rogers C. Vascular closure devices and the risk of vascular complications after percutaneous coronary intervention in patients receiving glycoprotein IIb-IIIa inhibitors. The American Journal Of Cardiology 2001, 88: 493-496. PMID: 11524056, DOI: 10.1016/s0002-9149(01)01725-8.
Simplified risk score models accurately predict the risk of major in-hospital complications following percutaneous coronary interventionResnic F, Ohno-Machado L, Selwyn A, Simon D, Popma J. Simplified risk score models accurately predict the risk of major in-hospital complications following percutaneous coronary intervention. The American Journal Of Cardiology 2001, 88: 5-9. PMID: 11423050, DOI: 10.1016/s0002-9149(01)01576-4.
A Comparison of Machine Learning Methods for the Diagnosis of Pigmented Skin LesionsDreiseitl S, Ohno-Machado L, Kittler H, Vinterbo S, Billhardt H, Binder M. A Comparison of Machine Learning Methods for the Diagnosis of Pigmented Skin Lesions. Journal Of Biomedical Informatics 2001, 34: 28-36. PMID: 11376540, DOI: 10.1006/jbin.2001.1004.
Effects of Case Removal in Prognostic ModelsOhno-Machado L, Vinterbo S. Effects of Case Removal in Prognostic Models. Methods Of Information In Medicine 2001, 40: 32-38. PMID: 11310157, DOI: 10.1055/s-0038-1634461.
Training in medical informatics: combining onsite and online instruction.Ohno-Machado L, Marin H, Marques E, Masssad E, Greenes R. Training in medical informatics: combining onsite and online instruction. 2001, 84: 1066-70. PMID: 11604895.
Finding appropriate clinical trials: evaluating encoded eligibility criteria with incomplete data.Ash N, Ogunyemi O, Zeng Q, Ohno-Machado L. Finding appropriate clinical trials: evaluating encoded eligibility criteria with incomplete data. AMIA Annual Symposium Proceedings 2001, 27-31. PMID: 11825151, PMCID: PMC2243370.
Disambiguation data: extracting information from anonymized sources.Dreiseitl S, Vinterbo S, Ohno-Machado L. Disambiguation data: extracting information from anonymized sources. AMIA Annual Symposium Proceedings 2001, 144-8. PMID: 11825171, PMCID: PMC2243291.
Effects of data anonymization by cell suppression on descriptive statistics and predictive modeling performance.Ohno-Machado L, Vinterbo S, Dreiseitl S. Effects of data anonymization by cell suppression on descriptive statistics and predictive modeling performance. AMIA Annual Symposium Proceedings 2001, 503-7. PMID: 11825239, PMCID: PMC2243599.
Hiding information by cell suppression.Vinterbo S, Ohno-Machado L, Dreiseitl S. Hiding information by cell suppression. AMIA Annual Symposium Proceedings 2001, 726-30. PMID: 11825281, PMCID: PMC2243346.
Generation of dynamically configured check lists for intra-operative problems using a set of covering algorithms.Sawa T, Ohno-Machado L. Generation of dynamically configured check lists for intra-operative problems using a set of covering algorithms. AMIA Annual Symposium Proceedings 2001, 593-7. PMID: 11837218, PMCID: PMC2243696.
Using patient-reportable clinical history factors to predict myocardial infarctionWang S, Ohno-Machado L, Fraser H, Kennedy R. Using patient-reportable clinical history factors to predict myocardial infarction. Computers In Biology And Medicine 2001, 31: 1-13. PMID: 11058690, DOI: 10.1016/s0010-4825(00)00022-6.
Unsupervised learning from complex data: the matrix incision tree algorithm.Kim J, Ohno-Machado L, Kohane I. Unsupervised learning from complex data: the matrix incision tree algorithm. Biocomputing 2000, 30-41. PMID: 11262950, DOI: 10.1142/9789814447362_0004.
Comparing Three-class Diagnostic Tests by Three-way ROC AnalysisDreiseitl S, Ohno-Machado L, Binder M. Comparing Three-class Diagnostic Tests by Three-way ROC Analysis. Medical Decision Making 2000, 20: 323-331. PMID: 10929855, DOI: 10.1177/0272989x0002000309.
FACTS (Find the Appropriate Clinical Trials) for You: A Computer-Based Decision Support System for Breast Cancer PatientsOhno-Machado L. FACTS (Find the Appropriate Clinical Trials) for You: A Computer-Based Decision Support System for Breast Cancer Patients. 2000 DOI: 10.21236/ada386873.
A genetic algorithm approach to multi-disorder diagnosisVinterbo S, Ohno-Machado L. A genetic algorithm approach to multi-disorder diagnosis. Artificial Intelligence In Medicine 2000, 18: 117-132. PMID: 10648846, DOI: 10.1016/s0933-3657(99)00036-6.
Risk stratification in heart failure using artificial neural networks.Atienza F, Martinez-Alzamora N, De Velasco J, Dreiseitl S, Ohno-Machado L. Risk stratification in heart failure using artificial neural networks. AMIA Annual Symposium Proceedings 2000, 32-6. PMID: 11079839, PMCID: PMC2243942.
Building knowledge in a complex preterm birth problem domain.Goodwin L, Maher S, Ohno-Machado L, Iannacchione M, Crockett P, Dreiseitl S, Vinterbo S, Hammond W. Building knowledge in a complex preterm birth problem domain. AMIA Annual Symposium Proceedings 2000, 305-9. PMID: 11079894, PMCID: PMC2243761.
Major complications after angioplasty in patients with chronic renal failure: a comparison of predictive models.Lacson R, Ohno-Machado L. Major complications after angioplasty in patients with chronic renal failure: a comparison of predictive models. AMIA Annual Symposium Proceedings 2000, 457-61. PMID: 11079925, PMCID: PMC2243840.
Decision trees and fuzzy logic: a comparison of models for the selection of measles vaccination strategies in Brazil.Ohno-Machado L, Lacson R, Massad E. Decision trees and fuzzy logic: a comparison of models for the selection of measles vaccination strategies in Brazil. AMIA Annual Symposium Proceedings 2000, 625-9. PMID: 11079959, PMCID: PMC2244038.
GLIF3: the evolution of a guideline representation format.Peleg M, Boxwala A, Ogunyemi O, Zeng Q, Tu S, Lacson R, Bernstam E, Ash N, Mork P, Ohno-Machado L, Shortliffe E, Greenes R. GLIF3: the evolution of a guideline representation format. AMIA Annual Symposium Proceedings 2000, 645-9. PMID: 11079963, PMCID: PMC2243832.
Development and evaluation of models to predict death and myocardial infarction following coronary angioplasty and stenting.Resnic F, Popma J, Ohno-Machado L. Development and evaluation of models to predict death and myocardial infarction following coronary angioplasty and stenting. AMIA Annual Symposium Proceedings 2000, 690-3. PMID: 11079972, PMCID: PMC2243827.
Using electronic data to predict the probability of true bacteremia from positive blood cultures.Wang S, Kuperman G, Ohno-Machado L, Onderdonk A, Sandige H, Bates D. Using electronic data to predict the probability of true bacteremia from positive blood cultures. AMIA Annual Symposium Proceedings 2000, 893-7. PMID: 11080013, PMCID: PMC2243892.
NEURAL NETWORK APPLICATIONS IN PHYSICAL MEDICINE AND REHABILITATION1Ohno-Machado L, Rowland T. NEURAL NETWORK APPLICATIONS IN PHYSICAL MEDICINE AND REHABILITATION1. American Journal Of Physical Medicine & Rehabilitation 1999, 78: 392-398. PMID: 10418849, DOI: 10.1097/00002060-199907000-00022.
FACTS (Find the Appropriate Clinical Trials) for You: A Computer-Based Decision Support System for Breast Cancer PatientsOhno-Machado L. FACTS (Find the Appropriate Clinical Trials) for You: A Computer-Based Decision Support System for Breast Cancer Patients. 1999 DOI: 10.21236/ada381179.
Using Boolean reasoning to anonymize databasesØhrn A, Ohno-Machado L. Using Boolean reasoning to anonymize databases. Artificial Intelligence In Medicine 1999, 15: 235-254. PMID: 10206109, DOI: 10.1016/s0933-3657(98)00056-6.
COMPARISON OF PRACTICAL PREDICTION MODELS FOR AMBULATION AFTER SPINAL CORD INJURYRowland T, Ohno-Machado L, Ohrn A, McKinley W. COMPARISON OF PRACTICAL PREDICTION MODELS FOR AMBULATION AFTER SPINAL CORD INJURY. American Journal Of Physical Medicine & Rehabilitation 1999, 78: 180. DOI: 10.1097/00002060-199903000-00034.
The decision systems group: creating a framework for decision making.Greenes R, Boxwala A, Ohno-Machado L. The decision systems group: creating a framework for decision making. M.D. Computing 1999, 16: 23-7. PMID: 10507232.
Evaluating variable selection methods for diagnosis of myocardial infarction.Dreiseitl S, Ohno-Machado L, Vinterbo S. Evaluating variable selection methods for diagnosis of myocardial infarction. AMIA Annual Symposium Proceedings 1999, 246-50. PMID: 10566358, PMCID: PMC2232647.
A framework and tools for authoring, editing, documenting, sharing, searching, navigating, and executing computer-based clinical guidelines.Greenes R, Boxwala A, Sloan W, Ohno-Machado L, Deibel S. A framework and tools for authoring, editing, documenting, sharing, searching, navigating, and executing computer-based clinical guidelines. AMIA Annual Symposium Proceedings 1999, 261-5. PMID: 10566361, PMCID: PMC2232593.
Decision support for clinical trial eligibility determination in breast cancer.Ohno-Machado L, Wang S, Mar P, Boxwala A. Decision support for clinical trial eligibility determination in breast cancer. AMIA Annual Symposium Proceedings 1999, 340-4. PMID: 10566377, PMCID: PMC2232554.
A genetic algorithm to select variables in logistic regression: example in the domain of myocardial infarction.Vinterbo S, Ohno-Machado L. A genetic algorithm to select variables in logistic regression: example in the domain of myocardial infarction. AMIA Annual Symposium Proceedings 1999, 984-8. PMID: 10566508, PMCID: PMC2232877.
The GuideLine Interchange FormatOhno-Machado L, Gennari J, Murphy S, Jain N, Tu S, Oliver D, Pattison-Gordon E, Greenes R, Shortliffe E, Barnett G. The GuideLine Interchange Format. Journal Of The American Medical Informatics Association 1998, 5: 357-372. PMID: 9670133, PMCID: PMC61313, DOI: 10.1136/jamia.1998.0050357.
Diagnosing breast cancer from FNAs: variable relevance in neural network and logistic regression models.Ohno-Machado L, Bialek D. Diagnosing breast cancer from FNAs: variable relevance in neural network and logistic regression models. 1998, 52 Pt 1: 537-40. PMID: 10384515.
Improving machine learning performance by removing redundant cases in medical data sets.Ohno-Machado L, Fraser H, Ohrn A. Improving machine learning performance by removing redundant cases in medical data sets. AMIA Annual Symposium Proceedings 1998, 523-7. PMID: 9929274, PMCID: PMC2232167.
Comparison of multiple prediction models for ambulation following spinal cord injury.Rowland T, Ohno-Machado L, Ohrn A. Comparison of multiple prediction models for ambulation following spinal cord injury. AMIA Annual Symposium Proceedings 1998, 528-32. PMID: 9929275, PMCID: PMC2232380.
Building manageable rough set classifiers.Ohrn A, Ohno-Machado L, Rowland T. Building manageable rough set classifiers. AMIA Annual Symposium Proceedings 1998, 543-7. PMID: 9929278, PMCID: PMC2232320.
Sequential versus standard neural networks for pattern recognition: An example using the domain of coronary heart diseaseOhno-Machado L, Musen M. Sequential versus standard neural networks for pattern recognition: An example using the domain of coronary heart disease. Computers In Biology And Medicine 1997, 27: 267-281. PMID: 9303265, DOI: 10.1016/s0010-4825(97)00008-5.
Modular Neural Networks for Medical Prognosis: Quantifying the Benefits of Combining Neural Networks for Survival PredictionOhno-Machado L, Musen M. Modular Neural Networks for Medical Prognosis: Quantifying the Benefits of Combining Neural Networks for Survival Prediction. Connection Science 1997, 9: 71-86. DOI: 10.1080/095400997116748.
A virtual repository approach to clinical and utilization studies: application in mammography as alternative to a national database.Ohno-Machado L, Boxwala A, Ehresman J, Smith D, Greenes R. A virtual repository approach to clinical and utilization studies: application in mammography as alternative to a national database. AMIA Annual Symposium Proceedings 1997, 369-73. PMID: 9357650, PMCID: PMC2233552.
A comparison of Cox proportional hazards and artificial neural network models for medical prognosisOhno-Machado L. A comparison of Cox proportional hazards and artificial neural network models for medical prognosis. Computers In Biology And Medicine 1997, 27: 55-65. PMID: 9055046, DOI: 10.1016/s0010-4825(96)00036-4.
Sequential use of neural networks for survival prediction in AIDS.Ohno-Machado L. Sequential use of neural networks for survival prediction in AIDS. AMIA Annual Symposium Proceedings 1996, 170-4. PMID: 8947650, PMCID: PMC2233186.
A comparison of two computer-based prognostic systems for AIDS.Ohno-Machado L, Musen M. A comparison of two computer-based prognostic systems for AIDS. AMIA Annual Symposium Proceedings 1995, 737-41. PMID: 8563387, PMCID: PMC2579191.
Hierarchical neural networks for survival analysis.Ohno-Machado L, Walker M, Musen M. Hierarchical neural networks for survival analysis. Medinfo. 1995, 8 Pt 1: 828-32. PMID: 8591339.
Learning rare categories in backpropagationOhno-Machado L, Musen M. Learning rare categories in backpropagation. 1995, 991: 201-209. DOI: 10.1007/bfb0034813.
Identification of low frequency patterns in backpropagation neural networks.Ohno-Machado L. Identification of low frequency patterns in backpropagation neural networks. AMIA Annual Symposium Proceedings 1994, 853-9. PMID: 7950045, PMCID: PMC2247950.
Prognostic classification for aids patients in BrazilOhno-Machado L. Prognostic classification for aids patients in Brazil. Journal Of Medical Systems 1993, 17: 163-172. PMID: 8254260, DOI: 10.1007/bf00996941.
AIDS2: a decision-support tool for decreasing physicians' uncertainty regarding patient eligibility for HIV treatment protocols.Ohno-Machado L, Parra E, Henry S, Tu S, Musen M. AIDS2: a decision-support tool for decreasing physicians' uncertainty regarding patient eligibility for HIV treatment protocols. AMIA Annual Symposium Proceedings 1993, 429-33. PMID: 8130510, PMCID: PMC2248545.

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