2023
Mapping disease regulatory circuits at cell-type resolution from single-cell multiomics data
Chen X, Wang Y, Cappuccio A, Cheng W, Zamojski F, Nair V, Miller C, Rubenstein A, Nudelman G, Tadych A, Theesfeld C, Vornholt A, George M, Ruffin F, Dagher M, Chawla D, Soares-Schanoski A, Spurbeck R, Ndhlovu L, Sebra R, Kleinstein S, Letizia A, Ramos I, Fowler V, Woods C, Zaslavsky E, Troyanskaya O, Sealfon S. Mapping disease regulatory circuits at cell-type resolution from single-cell multiomics data. Nature Computational Science 2023, 3: 644-657. PMID: 37974651, PMCID: PMC10653299, DOI: 10.1038/s43588-023-00476-5.Peer-Reviewed Original ResearchCell-type resolutionRegulatory circuitsMethicillin resistanceTransposase-accessible chromatin sequencingDisease-associated transcription factorsOmics data typesSingle-cell dataSingle-cell RNA sequencingGene expression changesChromatin sitesMethicillin-susceptible S. aureus infectionsChromatin sequencingTranscription factorsRNA sequencingStaphylococcus aureus sepsisMultiomics dataExpression analysisExpression changesBloodstream infectionsBacterial sepsisCD14 monocytesSequencePredictive valueHierarchical Bayesian approachUninfected controls
2021
Cutting 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
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