Featured Publications
Identity thieves: T cells steal CD20 from B cells but mark themselves for certain death.
Sumida TS, O'Connor KC. Identity thieves: T cells steal CD20 from B cells but mark themselves for certain death. Science Immunology 2022, 7: eabq7242. PMID: 35522724, DOI: 10.1126/sciimmunol.abq7242.Peer-Reviewed Original Research
2024
A scalable approach to topic modelling in single-cell data by approximate pseudobulk projection
Subedi S, Sumida T, Park Y. A scalable approach to topic modelling in single-cell data by approximate pseudobulk projection. Life Science Alliance 2024, 7: e202402713. PMID: 39107066, PMCID: PMC11303850, DOI: 10.26508/lsa.202402713.Peer-Reviewed Original ResearchConceptsCell type-specific marker genesSingle-cell RNA-seq data analysisRNA-seq data analysisSingle-cell data analysisTopic modelsSingle-cell dataProbabilistic topic modelPathway annotationScalable approximation methodsLow memory consumptionComputation timeCellular statesMarker genesDictionary matrixLatent representationSingle-cellMemory consumptionTopic assignmentsComputing unitsFrequency vectorSelection stepCellsData analysisScalable approachData matrix
2021
Tet2 Controls the Responses of β cells to Inflammation in Autoimmune Diabetes
Rui J, Deng S, Perdigoto AL, Ponath G, Kursawe R, Lawlor N, Sumida T, Levine-Ritterman M, Stitzel ML, Pitt D, Lu J, Herold KC. Tet2 Controls the Responses of β cells to Inflammation in Autoimmune Diabetes. Nature Communications 2021, 12: 5074. PMID: 34417463, PMCID: PMC8379260, DOI: 10.1038/s41467-021-25367-z.Peer-Reviewed Original ResearchConceptsImmune cellsΒ-cellsNOD/SCID recipientsDiabetogenic immune cellsDiabetogenic T cellsBone marrow transplantType 1 diabetesExpression of TET2Human β-cellsIslet infiltratesSCID recipientsMarrow transplantInflammatory pathwaysTransfer of diseaseT cellsInflammatory genesImmune killingPathologic interactionsReduced expressionDiabetesInflammationTET2MiceRecipientsCellsCutting Edge: Distinct B Cell Repertoires Characterize Patients with Mild and Severe COVID-19
Hoehn KB, Ramanathan P, Unterman A, Sumida TS, Asashima H, Hafler DA, Kaminski N, Dela Cruz CS, Sealfon SC, Bukreyev A, Kleinstein SH. Cutting Edge: Distinct B Cell Repertoires Characterize Patients with Mild and Severe COVID-19. The Journal Of Immunology 2021, 206: 2785-2790. PMID: 34049971, PMCID: PMC8627528, DOI: 10.4049/jimmunol.2100135.Peer-Reviewed Original ResearchConceptsSevere COVID-19Mild COVID-19B cell responsesMemory B cellsB cell repertoireB cellsCell repertoireCOVID-19Cell responsesExtrafollicular B cell responsesLong-term immunitySymptomatic COVID-19Onset of symptomsB cell populationsGerminal center reactionProtective immunityPlasma cellsSingle-cell RNA sequencingCenter reactionPatientsCell populationsImmunityRNA sequencingCellsPostvaccination