2022
Spatial profiling of chromatin accessibility in mouse and human tissues
Deng Y, Bartosovic M, Ma S, Zhang D, Kukanja P, Xiao Y, Su G, Liu Y, Qin X, Rosoklija GB, Dwork AJ, Mann JJ, Xu ML, Halene S, Craft JE, Leong KW, Boldrini M, Castelo-Branco G, Fan R. Spatial profiling of chromatin accessibility in mouse and human tissues. Nature 2022, 609: 375-383. PMID: 35978191, PMCID: PMC9452302, DOI: 10.1038/s41586-022-05094-1.Peer-Reviewed Original ResearchConceptsChromatin accessibilityATAC-seqSpecific epigenetic landscapesChromatin accessibility profilingCell fate decisionsEpigenetic informationEpigenetic landscapeGenome scaleFate decisionsAccessible genomeCell identityEpigenetic underpinningsNext-generation sequencingGene regulatorsCell statesMouse embryosSpatial biologySpatial transcriptomicsCell typesCellular levelImmune cell typesDistinct organizationHuman tissuesProfilingSpatial profiling
2019
Distinct modes of mitochondrial metabolism uncouple T cell differentiation and function
Bailis W, Shyer JA, Zhao J, Canaveras JCG, Al Khazal FJ, Qu R, Steach HR, Bielecki P, Khan O, Jackson R, Kluger Y, Maher LJ, Rabinowitz J, Craft J, Flavell RA. Distinct modes of mitochondrial metabolism uncouple T cell differentiation and function. Nature 2019, 571: 403-407. PMID: 31217581, PMCID: PMC6939459, DOI: 10.1038/s41586-019-1311-3.Peer-Reviewed Original ResearchConceptsMitochondrial citrate exportTerminal effector functionsMalate-aspartate shuttleCitrate exportHistone acetylationCell differentiationComplex ICellular biochemical compositionT cell differentiationSuccinate dehydrogenaseT cell activationExpression of genesElectron transport chainTricarboxylic acid cycleT cell receptor ligationAnabolic programTranscriptional remodellingTranscriptional programmingEpigenetic remodellingSignal transductionCell activationMetabolic reprogrammingCell statesDistinct modesEffector functions