2022
Peripheral Blood Involvement at Staging in Patients With Aggressive Peripheral T-Cell Lymphoma
Avery J, Chandhok N, Rainey C, Torres R, Huntington S, Isufi I, Seropian S, Xu ML, Foss F. Peripheral Blood Involvement at Staging in Patients With Aggressive Peripheral T-Cell Lymphoma. Clinical Lymphoma Myeloma & Leukemia 2022, 22: 680-689. PMID: 35568635, DOI: 10.1016/j.clml.2022.04.019.Peer-Reviewed Original ResearchConceptsPeripheral T-cell lymphomaT-cell lymphomaBone marrow involvementBlood involvementFlow cytometryMarrow involvementNodal subtypesAggressive peripheral T-cell lymphomaNodal T-cell lymphomasNegative flow cytometryPeripheral blood involvementPositive flow cytometryMalignant T cellsMalignant tumor cellsMedian PFSTime ofdiagnosisOverall survivalLymph nodesPoor outcomeDisease stagePeripheral bloodT cellsPrognostic measuresRare subgroupLymphoma
2021
Applications of Digital Microscopy and Densely Connected Convolutional Neural Networks for Automated Quantification of Babesia-Infected Erythrocytes
Durant TJS, Dudgeon SN, McPadden J, Simpson A, Price N, Schulz WL, Torres R, Olson EM. Applications of Digital Microscopy and Densely Connected Convolutional Neural Networks for Automated Quantification of Babesia-Infected Erythrocytes. Clinical Chemistry 2021, 68: 218-229. PMID: 34969114, DOI: 10.1093/clinchem/hvab237.Peer-Reviewed Original ResearchHuman Amniotic Membrane as a Novel Scaffold for Inducible Pluripotent Stem Cell-derived Kidney Organoids
Figetakis M, James KJ, Kosyakova N, Torres R, Chang WG. Human Amniotic Membrane as a Novel Scaffold for Inducible Pluripotent Stem Cell-derived Kidney Organoids. ASAIO Journal 2021, 68: e73-e76. PMID: 35503644, PMCID: PMC9065564, DOI: 10.1097/mat.0000000000001476.Peer-Reviewed Original ResearchUltrahigh-speed point scanning two-photon microscopy using high dynamic range silicon photomultipliers
Ching-Roa VD, Olson EM, Ibrahim SF, Torres R, Giacomelli MG. Ultrahigh-speed point scanning two-photon microscopy using high dynamic range silicon photomultipliers. Scientific Reports 2021, 11: 5248. PMID: 33664354, PMCID: PMC7933192, DOI: 10.1038/s41598-021-84522-0.Peer-Reviewed Original ResearchConceptsMaximum imaging rateSilicon photomultipliersAdvanced detection technologyPhoton detection rateDetection electronicsDetection technologyTwo-photon microscopyHigh sensitivityPhotomultiplier tubeDynamic rangeMicroscopyTwo-photon microscopeNoise ratioImaging rateOrders of magnitudeTwo-photonIntegration timeDetector designElectronicsPhotomultipliersMicroscopeConfocal microscopyTubeTechnologyDetection rate
2020
Initial Evaluation of Rapid, Direct-to-Digital Prostate Biopsy Pathology.
Torres R, Olson E, Homer R, Martin DT, Levene MJ, Perincheri S, Sprenkle PC, Humphrey PA. Initial Evaluation of Rapid, Direct-to-Digital Prostate Biopsy Pathology. Archives Of Pathology & Laboratory Medicine 2020, 145: 583-591. PMID: 32991670, DOI: 10.5858/arpa.2020-0037-oa.Peer-Reviewed Original ResearchImpact of intra-tumoral heterogeneity detected by next-generation sequencing on acute myeloid leukemia survival
Schulz WL, Rinder HM, Durant TJS, Tormey CA, Torres R, Smith BR, Hager KM, Howe JG, Siddon AJ. Impact of intra-tumoral heterogeneity detected by next-generation sequencing on acute myeloid leukemia survival. Leukemia & Lymphoma 2020, 61: 3269-3271. PMID: 32715805, DOI: 10.1080/10428194.2020.1797016.Peer-Reviewed Original ResearchDouble-Edged Spike—Are SARS-CoV-2 Serologic Tests Safe Right Now?
Torres R, Rinder HM. Double-Edged Spike—Are SARS-CoV-2 Serologic Tests Safe Right Now? Lab Medicine 2020, 51: 236-238. PMID: 32322891, PMCID: PMC7188174, DOI: 10.1093/labmed/lmaa025.Peer-Reviewed Original ResearchAntibodies, ViralBetacoronavirusClinical Laboratory TechniquesCommunicable Disease ControlCoronavirus InfectionsCOVID-19COVID-19 TestingHumansImmunity, HumoralPandemicsPneumonia, ViralSARS-CoV-2Sensitivity and SpecificitySocial BehaviorSpike Glycoprotein, CoronavirusUnited StatesUnited States Food and Drug AdministrationWorkDouble-Edged Spike
Torres R, Rinder HM. Double-Edged Spike. American Journal Of Clinical Pathology 2020, 153: 709-711. PMID: 32322898, PMCID: PMC7188132, DOI: 10.1093/ajcp/aqaa071.Peer-Reviewed Original Research
2019
Regulated necrosis and failed repair in cisplatin-induced chronic kidney disease
Landau SI, Guo X, Velazquez H, Torres R, Olson E, Garcia-Milian R, Moeckel GW, Desir GV, Safirstein R. Regulated necrosis and failed repair in cisplatin-induced chronic kidney disease. Kidney International 2019, 95: 797-814. PMID: 30904067, PMCID: PMC6543531, DOI: 10.1016/j.kint.2018.11.042.Peer-Reviewed Original ResearchConceptsChronic kidney diseaseKidney diseaseKidney injuryCisplatin-induced chronic kidney diseaseCisplatin-induced acute kidney injuryToll-like receptor 2Regulated necrosis pathwaysReversible kidney injuryAcute kidney injuryChronic kidney injuryProximal tubular damageKidney injury markersDoses of cisplatinEvidence of fibrosisMechanisms of progressionEffective chemotherapeutic agentWestern blot analysisFirst doseInjury markersIntraperitoneal cisplatinSignificant nephrotoxicityTubular damageKidney functionSecond doseCisplatin administrationA highly efficient and faithful MDS patient-derived xenotransplantation model for pre-clinical studies
Song Y, Rongvaux A, Taylor A, Jiang T, Tebaldi T, Balasubramanian K, Bagale A, Terzi YK, Gbyli R, Wang X, Fu X, Gao Y, Zhao J, Podoltsev N, Xu M, Neparidze N, Wong E, Torres R, Bruscia EM, Kluger Y, Manz MG, Flavell RA, Halene S. A highly efficient and faithful MDS patient-derived xenotransplantation model for pre-clinical studies. Nature Communications 2019, 10: 366. PMID: 30664659, PMCID: PMC6341122, DOI: 10.1038/s41467-018-08166-x.Peer-Reviewed Original ResearchConceptsPatient-derived xenograftsMyelodysplastic syndromeXenotransplantation modelDysplastic morphologyImmunodeficient murine hostsPre-clinical studiesMDS stem cellsMDS subtypesComprehensive preclinical studiesPreclinical studiesTherapeutic efficacyMurine hostSerial transplantationDrug mechanismsMDS researchStem cell propagationStem cellsDifferentiation potentialHematopoietic stem cell nicheGenetic complexityNovel avenuesStem cell nicheCell propagationDisease representationsImmunodeficient
2018
Modified approach to fibrinogen replacement in the setting of dysfibrinogenaemia
Chandler JB, Siddon AJ, Bahel P, Torres R, Rinder HM, Tormey CA. Modified approach to fibrinogen replacement in the setting of dysfibrinogenaemia. Journal Of Clinical Pathology 2018, 72: 177. PMID: 30463936, DOI: 10.1136/jclinpath-2018-205438.Peer-Reviewed Original ResearchFalse-Positive Light Chain Clonal Restriction by Flow Cytometry in Patients Treated With Alemtuzumab
Chen PP, Tormey CA, Eisenbarth SC, Torres R, Richardson SS, Rinder HM, Smith BR, Siddon AJ. False-Positive Light Chain Clonal Restriction by Flow Cytometry in Patients Treated With Alemtuzumab. American Journal Of Clinical Pathology 2018, 151: 154-163. PMID: 30307483, DOI: 10.1093/ajcp/aqy129.Peer-Reviewed Original ResearchConceptsHealthy donor bloodAlemtuzumab treatmentDonor bloodBone marrowFlow cytometryLight chain restrictionT-cell prolymphocytic leukemiaB-cell neoplasmsLight chain clonalityFlow cytometry analysisAutoimmune diseasesHematologic malignanciesImmunophenotypic analysisChain restrictionAlemtuzumabT cellsB cellsProlymphocytic leukemiaImmunoglobulin G1PatientsMonoclonal antibodiesCytometry analysisSimilar findingsBloodClonal restrictionMcp1 Promotes Macrophage-Dependent Cyst Expansion in Autosomal Dominant Polycystic Kidney Disease
Cassini MF, Kakade VR, Kurtz E, Sulkowski P, Glazer P, Torres R, Somlo S, Cantley LG. Mcp1 Promotes Macrophage-Dependent Cyst Expansion in Autosomal Dominant Polycystic Kidney Disease. Journal Of The American Society Of Nephrology 2018, 29: 2471-2481. PMID: 30209078, PMCID: PMC6171277, DOI: 10.1681/asn.2018050518.Peer-Reviewed Original ResearchConceptsAutosomal dominant polycystic kidney diseaseSingle knockout miceTubular cell injuryDominant polycystic kidney diseaseCyst growthPolycystic kidney diseaseKidney diseaseCell injuryMonocyte chemoattractant protein-1Alternative activation phenotypeChemoattractant protein-1Double knockout miceOrthologous mouse modelCell proliferative rateRenal functionMacrophage accumulationMacrophage infiltrationReceptor CCR2Cystic dilationMacrophage numbersFunctional improvementOxidative DNA damageMouse modelActivation phenotypeCyst expansion
2017
Very Deep Convolutional Neural Networks for Morphologic Classification of Erythrocytes
Durant T, Olson EM, Schulz WL, Torres R. Very Deep Convolutional Neural Networks for Morphologic Classification of Erythrocytes. Clinical Chemistry 2017, 63: 1847-1855. PMID: 28877918, DOI: 10.1373/clinchem.2017.276345.Peer-Reviewed Original ResearchConceptsConvolutional neural networkNeural networkDeep convolutional neural networkDense shortcut connectionsNeural network designSlow manual processSignificant labor costsClassification of erythrocytesWeb applicationCapable machinesUnseen dataShortcut connectionsManual processEnsemble model predictionsDigital imagesPrecision metricsArchitectural considerationsNetwork designAutomated profilingClassification frequencyMisclassification errorPractical performanceFinal databaseHarmonic meanNetworkMicrobiota control immune regulation in humanized mice
Gülden E, Vudattu NK, Deng S, Preston-Hurlburt P, Mamula M, Reed JC, Mohandas S, Herold BC, Torres R, Vieira SM, Lim B, Herazo-Maya JD, Kriegel M, Goodman AL, Cotsapas C, Herold KC. Microbiota control immune regulation in humanized mice. JCI Insight 2017, 2: e91709. PMID: 29093268, PMCID: PMC5752290, DOI: 10.1172/jci.insight.91709.Peer-Reviewed Original ResearchMeSH KeywordsAdaptive ImmunityAnimalsAntibodies, AntinuclearAntibodies, Monoclonal, HumanizedAutoimmune DiseasesB7-2 AntigenCD11b AntigenCD11c AntigenCD3 ComplexCD8-Positive T-LymphocytesCytokinesDisease Models, AnimalGastrointestinal MicrobiomeGastrointestinal TractGraft RejectionHumansImmunosuppressive AgentsImmunotherapyInterferon-gammaInterleukin-10Interleukin-27Leukocytes, MononuclearMiceMice, KnockoutMucous MembraneSkin TransplantationSTAT5 Transcription FactorT-LymphocytesTransplantation, HeterologousConceptsT cellsIL-10Humanized miceHuman peripheral blood mononuclear cellsPeripheral blood mononuclear cellsIL-27 expressionIL-10 levelsAnti-nuclear antibodiesEffector T cellsLevels of IFNCentral memory cellsLess IL-10Markers of efficacyBlood mononuclear cellsExpression of CD86Immune regulatory pathwaysIL-10 inductionHuman immune cellsHuman stool samplesImmunosuppressive medicationsIL-27Xenograft rejectionImmune therapyMononuclear cellsAntibiotic treatment
2016
Evaluation of relational and NoSQL database architectures to manage genomic annotations
Schulz WL, Nelson BG, Felker DK, Durant TJ, Torres R. Evaluation of relational and NoSQL database architectures to manage genomic annotations. Journal Of Biomedical Informatics 2016, 64: 288-295. PMID: 27810480, DOI: 10.1016/j.jbi.2016.10.015.Peer-Reviewed Original ResearchConceptsRelational databaseNoSQL databasesQuery efficiencyData managementData storageDocument-oriented NoSQL databaseBiomedical data setsCommon relational databaseQuery retrievalDatabase technologyInformatics infrastructureRelational modelGenomic annotationsIndexingData setsArchitectureRetrievalAnnotationNew technologiesDatabaseTechnologySignificant advantagesRelative advantagesInfrastructureStorageModelling gas exchange during platelet storage without agitation
Torres R, Tormey CA. Modelling gas exchange during platelet storage without agitation. Vox Sanguinis 2016, 111: 445-448. PMID: 27864979, DOI: 10.1111/vox.12452.Peer-Reviewed Original ResearchFluid motion and shear forces in platelet storage bags with different modes of agitation
Torres R, Tormey CA, Stack G. Fluid motion and shear forces in platelet storage bags with different modes of agitation. Vox Sanguinis 2016, 111: 209-212. PMID: 27078040, PMCID: PMC4981547, DOI: 10.1111/vox.12409.Peer-Reviewed Original Research
2015
Computational Approach to Annotating Variants of Unknown Significance in Clinical Next Generation Sequencing
Schulz WL, Tormey CA, Torres R. Computational Approach to Annotating Variants of Unknown Significance in Clinical Next Generation Sequencing. Lab Medicine 2015, 46: 285-289. PMID: 26489672, DOI: 10.1309/lmwzh57brwopr5rq.Peer-Reviewed Original ResearchConceptsNext-generation sequencingClinical significanceUnknown clinical significanceMalignant neoplasmsHematologic malignanciesClinical next-generation sequencingSoftware algorithmsGeneration sequencingUnknown significanceBenign variantsConflicting resultsClinical laboratoriesComputational toolsCommon technologyAlgorithm
2014
Abnormal lymphocytes with “filamentous-like” cytoplasmic inclusions in chronic lymphocytic leukemia
Torres R, Tormey CA. Abnormal lymphocytes with “filamentous-like” cytoplasmic inclusions in chronic lymphocytic leukemia. Blood 2014, 124: 1391. PMID: 25313413, PMCID: PMC4148760, DOI: 10.1182/blood-2014-06-582098.Peer-Reviewed Original Research