Featured Publications
Towards User-centered Corpus Development: Lessons Learnt from Designing and Developing MedTator.
He H, Fu S, Wang L, Wen A, Liu S, Moon S, Miller K, Liu H. Towards User-centered Corpus Development: Lessons Learnt from Designing and Developing MedTator. AMIA Annual Symposium Proceedings 2023, 2022: 532-541. PMID: 37128369, PMCID: PMC10148300.Peer-Reviewed Original ResearchConceptsAnnotation toolWeb-based annotation toolNatural language processing systemsCorpus developmentUser-centered interfacesData security concernsLanguage processing systemTarget end usersAnnotation taskClinical NLPAnnotation processEnd usersSecurity concernsLightweight solutionPowerful featuresAdvanced featuresProcessing systemCore taskTool developmentTaskCorpusAnnotatorsToolNLPUsers
2023
An open natural language processing (NLP) framework for EHR-based clinical research: a case demonstration using the National COVID Cohort Collaborative (N3C)
Liu S, Wen A, Wang L, He H, Fu S, Miller R, Williams A, Harris D, Kavuluru R, Liu M, Abu-el-Rub N, Schutte D, Zhang R, Rouhizadeh M, Osborne J, He Y, Topaloglu U, Hong S, Saltz J, Schaffter T, Pfaff E, Chute C, Duong T, Haendel M, Fuentes R, Szolovits P, Xu H, Liu H. An open natural language processing (NLP) framework for EHR-based clinical research: a case demonstration using the National COVID Cohort Collaborative (N3C). Journal Of The American Medical Informatics Association 2023, 30: 2036-2040. PMID: 37555837, PMCID: PMC10654844, DOI: 10.1093/jamia/ocad134.Peer-Reviewed Original ResearchConceptsNatural language processingNLP modelsClinical natural language processingNatural language processing frameworkEHR-based clinical researchMulti-site settingSymptom extractionProcessing frameworkNLP frameworkLanguage processingNLP solutionMulti-site dataAlgorithm robustnessMethodology advancementsResearch communityTranslational research communityNational COVID Cohort CollaborativeCase demonstrationProcess heterogeneityFrameworkAnnotationCOVID cohortFirst-line Systemic Treatment Options for Metastatic Castration-Sensitive Prostate Cancer
Bin Riaz I, Naqvi S, He H, Asghar N, Siddiqi R, Liu H, Singh P, Childs D, Ravi P, Hussain S, Murad M, Boorjian S, Sweeney C, Van Allen E, Bryce A. First-line Systemic Treatment Options for Metastatic Castration-Sensitive Prostate Cancer. JAMA Oncology 2023, 9: 635-645. PMID: 36862387, PMCID: PMC9982744, DOI: 10.1001/jamaoncol.2022.7762.Peer-Reviewed Original ResearchConceptsMetastatic castration-sensitive prostate cancerCastration-sensitive prostate cancerAndrogen pathway inhibitorsSystemic treatment optionsProgression-free survivalOverall survivalTreatment optionsClinical trialsTriplet therapyProstate cancerFirst-line systemic treatment optionComparative effectivenessFirst-line treatment optionHigh-volume diseaseHigher adverse eventsImproved overall survivalLow-volume diseaseHealth-related qualityFuture clinical trialsDifferent treatment optionsHeterogeneous patient populationVolume of diseaseOutcomes of interestTriplet regimensEligible RCTs
2022
Recommended practices and ethical considerations for natural language processing‐assisted observational research: A scoping review
Fu S, Wang L, Moon S, Zong N, He H, Pejaver V, Relevo R, Walden A, Haendel M, Chute C, Liu H. Recommended practices and ethical considerations for natural language processing‐assisted observational research: A scoping review. Clinical And Translational Science 2022, 16: 398-411. PMID: 36478394, PMCID: PMC10014687, DOI: 10.1111/cts.13463.Peer-Reviewed Original ResearchConceptsWorld Health OrganizationElectronic health recordsNatural language processingObservational clinical studyReporting guidelinesObservational researchStandardized reporting guidelinesClinical studiesObservational studyClinical informationNLP methodologyClinical researchHealth OrganizationHealth recordsAssessment of Electronic Health Record for Cancer Research and Patient Care Through a Scoping Review of Cancer Natural Language Processing
Wang L, Fu S, Wen A, Ruan X, He H, Liu S, Moon S, Mai M, Riaz I, Wang N, Yang P, Xu H, Warner J, Liu H. Assessment of Electronic Health Record for Cancer Research and Patient Care Through a Scoping Review of Cancer Natural Language Processing. JCO Clinical Cancer Informatics 2022, 6: e2200006. PMID: 35917480, PMCID: PMC9470142, DOI: 10.1200/cci.22.00006.Peer-Reviewed Original ResearchQuantifying absolute benefit for adjuvant treatment options in renal cell carcinoma: A living interactive systematic review and network meta-analysis
Riaz I, Sipra Q, Naqvi S, He H, Siddiqi R, Islam M, Asghar N, Ikram W, Xu W, Liu H, Singh P, Ho T, Bilen M, Zakharia Y, Bryce A, Murad M. Quantifying absolute benefit for adjuvant treatment options in renal cell carcinoma: A living interactive systematic review and network meta-analysis. Critical Reviews In Oncology/Hematology 2022, 175: 103706. PMID: 35537621, DOI: 10.1016/j.critrevonc.2022.103706.Peer-Reviewed Original ResearchConceptsRenal cell carcinomaAbsolute benefitCell carcinomaTreatment-related grade 3Adjuvant treatment optionsHigher adverse eventsDisease-free survivalRisk-adapted strategyDelays disease progressionLarger tumor sizeEvidence synthesis frameworkAdjuvant therapyAdjuvant treatmentOverall survivalAdverse eventsNodal positivityLeibovich scoreTumor sizeTreatment optionsDisease progressionRisk groupsGrade 3Current evidenceComparative effectivenessSystematic reviewMidwest rural‐urban disparities in use of patient online services for COVID‐19
Huang M, Wen A, He H, Wang L, Liu S, Wang Y, Zong N, Yu Y, Prigge J, Costello B, Shah N, Ting H, Doubeni C, Fan J, Liu H, Patten C. Midwest rural‐urban disparities in use of patient online services for COVID‐19. The Journal Of Rural Health 2022, 38: 908-915. PMID: 35261092, PMCID: PMC9115171, DOI: 10.1111/jrh.12657.Peer-Reviewed Original ResearchConceptsRural patientsUrban patientsCOVID-19Sociodemographic factorsCOVID-19-related careUrban-rural ratioMidwest health systemMayo Clinic patientsPatient sociodemographic factorsHealth carePublic health intervention strategiesHealth intervention strategiesCOVID-19 diagnosisHealth care issuesClinic patientsRural-urban disparitiesPatient portalsPatientsPortal messagesPatient engagementUrban-rural disparitiesCare issuesHealth systemUrban-rural localityIntervention strategies
2021
Adjuvant Tyrosine Kinase Inhibitors in Renal Cell Carcinoma: A Concluded Living Systematic Review and Meta-Analysis.
Riaz I, Siddiqi R, Islam M, He H, Riaz A, Asghar N, Naqvi S, Warner J, Murad M, Kohli M. Adjuvant Tyrosine Kinase Inhibitors in Renal Cell Carcinoma: A Concluded Living Systematic Review and Meta-Analysis. JCO Clinical Cancer Informatics 2021, 5: 588-599. PMID: 34043431, DOI: 10.1200/cci.21.00035.Peer-Reviewed Original ResearchConceptsAdjuvant tyrosine kinase inhibitorsTyrosine kinase inhibitorsRenal cell carcinomaTrial sequential analysisCell carcinomaTKI monotherapyClinical trialsHigh-risk renal cell carcinomaMultiple large clinical trialsKinase inhibitorsLiving Systematic ReviewRandomized phase 2High-risk patientsCertainty of evidenceLarge clinical trialsKey clinical outcomesAdverse event riskLack of benefitOS benefitPROTECT trialGRADE approachClinical outcomesRandomized trialsCancer recurrenceSTUDY SELECTIONDirect Oral Anticoagulants Compared With Dalteparin for Treatment of Cancer-Associated Thrombosis: A Living, Interactive Systematic Review and Network Meta-analysis
Riaz I, Fuentes H, Naqvi S, He H, Sipra Q, Tafur A, Padranos L, Wysokinski W, Marshall A, Vandvik P, Montori V, Bryce A, Liu H, Badgett R, Murad M, McBane R. Direct Oral Anticoagulants Compared With Dalteparin for Treatment of Cancer-Associated Thrombosis: A Living, Interactive Systematic Review and Network Meta-analysis. Mayo Clinic Proceedings 2021, 97: 308-324. PMID: 34172290, DOI: 10.1016/j.mayocp.2020.10.041.Peer-Reviewed Original ResearchConceptsDirect oral anticoagulantsCancer-associated thrombosisTreatment of CATMajor bleedingSystematic reviewOral anticoagulantsRecurrent venous thromboembolism (VTE) eventsRelevant nonmajor bleedingUse of apixabanVenous thromboembolism eventsNetwork Meta-AnalysisStandard of careDifferent treatment optionsMixed treatment comparisonNonmajor bleedingThromboembolism eventsVTE recurrenceControlled TrialsWeight heparinTreatment optionsDalteparinHigh riskCurrent evidenceBleedingMeta-AnalysisA Living, Interactive Systematic Review and Network Meta-analysis of First-line Treatment of Metastatic Renal Cell Carcinoma
Riaz I, He H, Ryu A, Siddiqi R, Naqvi S, Yao Y, Husnain M, Narasimhulu D, Mathew J, Sipra Q, Vandvik P, Joseph R, Liu H, Wang Z, Herasevich V, Singh P, Hussain S, Ho T, Bryce A, Pagliaro L, Murad M, Costello B. A Living, Interactive Systematic Review and Network Meta-analysis of First-line Treatment of Metastatic Renal Cell Carcinoma. European Urology 2021, 80: 712-723. PMID: 33824031, DOI: 10.1016/j.eururo.2021.03.016.Peer-Reviewed Original ResearchConceptsInteractive tableGraphical user interfaceUser interfaceUser-friendly formatAdvanced programmingDisplay resultsInteractive mannerInteractive reviewNetworkSearch strategyCurrent approachesSparse direct evidenceMetastatic renal cell carcinomaData extractionTableFirst-line treatmentProgrammingUntreated metastatic renal cell carcinomaFormatMultiple treatment optionsRenal cell carcinomaInherent biasesAdverse eventsComplete responseFramework
2020
An aberration detection-based approach for sentinel syndromic surveillance of COVID-19 and other novel influenza-like illnesses
Wen A, Wang L, He H, Liu S, Fu S, Sohn S, Kugel J, Kaggal V, Huang M, Wang Y, Shen F, Fan J, Liu H. An aberration detection-based approach for sentinel syndromic surveillance of COVID-19 and other novel influenza-like illnesses. Journal Of Biomedical Informatics 2020, 113: 103660. PMID: 33321199, PMCID: PMC7832634, DOI: 10.1016/j.jbi.2020.103660.Peer-Reviewed Original ResearchConceptsInfluenza-like illness