Weiqun Peng - Publications

Physics The George Washington University, Washington, DC, United States 
General Biophysics, Bioinformatics Biology

60 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Zhao X, Hu W, Park SR, Zhu S, Hu SS, Zang C, Peng W, Shan Q, Xue HH. Publisher Correction: The transcriptional cofactor Tle3 reciprocally controls effector and central memory CD8T cell fates. Nature Immunology. PMID 38347084 DOI: 10.1038/s41590-024-01780-6  0.527
2024 Zhao X, Hu W, Park SR, Zhu S, Hu SS, Zang C, Peng W, Shan Q, Xue HH. The transcriptional cofactor Tle3 reciprocally controls effector and central memory CD8 T cell fates. Nature Immunology. PMID 38238608 DOI: 10.1038/s41590-023-01720-w  0.565
2023 Zhu S, Liu J, Patel V, Zhao X, Peng W, Xue HH. Antigen exposure reshapes chromatin architecture in central memory CD8 T cells and imprints enhanced recall capacity. Proceedings of the National Academy of Sciences of the United States of America. 120: e2313476120. PMID 38085779 DOI: 10.1073/pnas.2313476120  0.372
2023 Liu J, Zhu S, Hu W, Zhao X, Shan Q, Peng W, Xue HH. CTCF mediates CD8+ effector differentiation through dynamic redistribution and genomic reorganization. The Journal of Experimental Medicine. 220. PMID 36752796 DOI: 10.1084/jem.20221288  0.429
2023 Kim J, Nguyen T, Cifello J, Ahmad R, Zhang Y, Yang Q, Lee JE, Li X, Kai Y, De S, Peng W, Ge K, Weng NP. Lysine methyltransferase Kmt2d regulates naive CD8 T cell activation-induced survival. Frontiers in Immunology. 13: 1095140. PMID 36741385 DOI: 10.3389/fimmu.2022.1095140  0.325
2022 Zhao X, Zhu S, Peng W, Xue HH. The Interplay of Transcription and Genome Topology Programs T Cell Development and Differentiation. Journal of Immunology (Baltimore, Md. : 1950). 209: 2269-2278. PMID 36469845 DOI: 10.4049/jimmunol.2200625  0.398
2022 Shan Q, Zhu S, Chen X, Liu J, Yuan S, Li X, Peng W, Xue HH. Tcf1-CTCF cooperativity shapes genomic architecture to promote CD8 T cell homeostasis. Nature Immunology. PMID 35882936 DOI: 10.1038/s41590-022-01263-6  0.322
2022 Shan Q, Hu SS, Zhu S, Chen X, Badovinac VP, Peng W, Zang C, Xue HH. Publisher Correction: Tcf1 preprograms the mobilization of glycolysis in central memory CD8 T cells during recall responses. Nature Immunology. 23: 815. PMID 35414119 DOI: 10.1038/s41590-022-01202-5  0.519
2022 Shan Q, Hu SS, Zhu S, Chen X, Badovinac VP, Peng W, Zang C, Xue HH. Tcf1 preprograms the mobilization of glycolysis in central memory CD8 T cells during recall responses. Nature Immunology. PMID 35190717 DOI: 10.1038/s41590-022-01131-3  0.591
2021 Shan Q, Li X, Chen X, Zeng Z, Zhu S, Gai K, Peng W, Xue HH. Tcf1 and Lef1 provide constant supervision to mature CD8 T cell identity and function by organizing genomic architecture. Nature Communications. 12: 5863. PMID 34615872 DOI: 10.1038/s41467-021-26159-1  0.371
2021 Du J, Jing J, Yuan Y, Feng J, Han X, Chen S, Li X, Peng W, Xu J, Ho TV, Jiang X, Chai Y. Arid1a-Plagl1-Hh signaling is indispensable for differentiation-associated cell cycle arrest of tooth root progenitors. Cell Reports. 35: 108964. PMID 33826897 DOI: 10.1016/j.celrep.2021.108964  0.312
2021 Park YK, Lee JE, Yan Z, McKernan K, O'Haren T, Wang W, Peng W, Ge K. Interplay of BAF and MLL4 promotes cell type-specific enhancer activation. Nature Communications. 12: 1630. PMID 33712604 DOI: 10.1038/s41467-021-21893-y  0.326
2020 Zang C, Wang Y, Peng W. RECOGNICER: A coarse-graining approach for identifying broad domains from ChIP-seq data. Quantitative Biology (Beijing, China). 8: 359-368. PMID 34327037 DOI: 10.1007/s40484-020-0225-2  0.586
2020 Tian Y, Zeng Z, Li X, Wang Y, Chen R, Mattijssen S, Gaidamakov S, Wu Y, Maraia RJ, Peng W, Zhu J. Transcriptome-wide stability analysis uncovers LARP4-mediated NFκB1 mRNA stabilization during T cell activation. Nucleic Acids Research. PMID 32735645 DOI: 10.1093/Nar/Gkaa643  0.418
2019 Xing S, Gai K, Li X, Shao P, Zeng Z, Zhao X, Zhao X, Chen X, Paradee WJ, Meyerholz DK, Peng W, Xue HH. Tcf1 and Lef1 are required for the immunosuppressive function of regulatory T cells. The Journal of Experimental Medicine. PMID 30837262 DOI: 10.1084/Jem.20182010  0.425
2018 Li F, Zeng Z, Xing S, Gullicksrud JA, Shan Q, Choi J, Badovinac VP, Crotty S, Peng W, Xue HH. Ezh2 programs T differentiation by integrating phosphorylation-dependent activation of Bcl6 and polycomb-dependent repression of p19Arf. Nature Communications. 9: 5452. PMID 30575739 DOI: 10.1038/S41467-018-07853-Z  0.439
2018 Kai Y, Andricovich J, Zeng Z, Zhu J, Tzatsos A, Peng W. Predicting CTCF-mediated chromatin interactions by integrating genomic and epigenomic features. Nature Communications. 9: 4221. PMID 30310060 DOI: 10.1038/S41467-018-06664-6  0.391
2018 Xing S, Shao P, Li F, Zhao X, Seo W, Wheat JC, Ramasamy S, Wang J, Li X, Peng W, Yu S, Liu C, Taniuchi I, Sweetser DA, Xue HH. Tle corepressors are differentially partitioned to instruct CD8 T cell lineage choice and identity. The Journal of Experimental Medicine. PMID 30045946 DOI: 10.1084/Jem.20171514  0.413
2017 Lee JE, Park YK, Park S, Jang Y, Waring N, Dey A, Ozato K, Lai B, Peng W, Ge K. Brd4 binds to active enhancers to control cell identity gene induction in adipogenesis and myogenesis. Nature Communications. 8: 2217. PMID 29263365 DOI: 10.1038/S41467-017-02403-5  0.459
2017 Gullicksrud JA, Li F, Xing S, Zeng Z, Peng W, Badovinac VP, Harty JT, Xue HH. Differential Requirements for Tcf1 Long Isoforms in CD8(+) and CD4(+) T Cell Responses to Acute Viral Infection. Journal of Immunology (Baltimore, Md. : 1950). PMID 28652395 DOI: 10.4049/Jimmunol.1700595  0.426
2017 Shan Q, Zeng Z, Xing S, Li F, Hartwig SM, Gullicksrud JA, Kurup SP, Van Braeckel-Budimir N, Su Y, Martin MD, Varga SM, Taniuchi I, Harty JT, Peng W, Badovinac VP, et al. The transcription factor Runx3 guards cytotoxic CD8(+) effector T cells against deviation towards follicular helper T cell lineage. Nature Immunology. PMID 28604718 DOI: 10.1038/Ni.3773  0.46
2017 Lai B, Lee JE, Jang Y, Wang L, Peng W, Ge K. MLL3/MLL4 are required for CBP/p300 binding on enhancers and super-enhancer formation in brown adipogenesis. Nucleic Acids Research. PMID 28398509 DOI: 10.1093/Nar/Gkx234  0.442
2017 Choi YJ, Lin CP, Risso D, Chen S, Kim TA, Tan MH, Li JB, Wu Y, Chen C, Xuan Z, Macfarlan T, Peng W, Lloyd KC, Kim SY, Speed TP, et al. Deficiency of microRNA miR-34a expands cell fate potential in pluripotent stem cells. Science (New York, N.Y.). PMID 28082412 DOI: 10.1126/Science.Aag1927  0.311
2017 Barski A, Cuddapah S, Kartashov AV, Liu C, Imamichi H, Yang W, Peng W, Lane HC, Zhao K. Rapid Recall Ability of Memory T cells is Encoded in their Epigenome. Scientific Reports. 7: 39785. PMID 28054639 DOI: 10.1038/Srep39785  0.602
2016 Wang C, Lee JE, Lai B, Macfarlan TS, Xu S, Zhuang L, Liu C, Peng W, Ge K. Enhancer priming by H3K4 methyltransferase MLL4 controls cell fate transition. Proceedings of the National Academy of Sciences of the United States of America. PMID 27698142 DOI: 10.1073/Pnas.1606857113  0.46
2016 Ni T, Yang W, Han M, Zhang Y, Shen T, Nie H, Zhou Z, Dai Y, Yang Y, Liu P, Cui K, Zeng Z, Tian Y, Zhou B, Wei G, ... ... Peng W, et al. Global intron retention mediated gene regulation during CD4+ T cell activation. Nucleic Acids Research. PMID 27369383 DOI: 10.1093/Nar/Gkw591  0.636
2016 Xing S, Li F, Zeng Z, Zhao Y, Yu S, Shan Q, Li Y, Phillips FC, Maina PK, Qi HH, Liu C, Zhu J, Pope RM, Musselman CA, Zeng C, ... Peng W, et al. Tcf1 and Lef1 transcription factors establish CD8(+) T cell identity through intrinsic HDAC activity. Nature Immunology. PMID 27111144 DOI: 10.1038/Ni.3456  0.452
2016 Yu S, Li F, Xing S, Zhao T, Peng W, Xue HH. Hematopoietic and Leukemic Stem Cells Have Distinct Dependence on Tcf1 and Lef1 Transcription Factors. The Journal of Biological Chemistry. PMID 27044748 DOI: 10.1074/Jbc.M116.717801  0.354
2016 Andricovich J, Kai Y, Peng W, Foudi A, Tzatsos A. Histone demethylase KDM2B regulates lineage commitment in normal and malignant hematopoiesis. The Journal of Clinical Investigation. 126: 905-20. PMID 26808549 DOI: 10.1172/Jci84014  0.43
2016 Starnes LM, Su D, Pikkupeura LM, Weinert BT, Santos MA, Mund A, Soria R, Cho YW, Pozdnyakova I, Kubec Højfeldt M, Vala A, Yang W, López-Méndez B, Lee JE, Peng W, et al. A PTIP-PA1 subcomplex promotes transcription for IgH class switching independently from the associated MLL3/MLL4 methyltransferase complex. Genes & Development. PMID 26744420 DOI: 10.1101/Gad.268797.115  0.398
2016 Crompton JG, Narayanan M, Cuddapah S, Roychoudhuri R, Ji Y, Yang W, Patel SJ, Sukumar M, Palmer DC, Peng W, Wang E, Marincola FM, Klebanoff CA, Zhao K, Tsang JS, et al. Lineage relationship of CD8+ T cell subsets is revealed by progressive changes in the epigenetic landscape Cellular and Molecular Immunology. 13: 502-513. DOI: 10.1038/cmi.2015.32  0.634
2015 Choi YS, Gullicksrud JA, Xing S, Zeng Z, Shan Q, Li F, Love PE, Peng W, Xue HH, Crotty S. LEF-1 and TCF-1 orchestrate TFH differentiation by regulating differentiation circuits upstream of the transcriptional repressor Bcl6. Nature Immunology. PMID 26214741 DOI: 10.1038/Ni.3226  0.451
2015 Crompton JG, Narayanan M, Cuddapah S, Roychoudhuri R, Ji Y, Yang W, Patel SJ, Sukumar M, Palmer DC, Peng W, Wang E, Marincola FM, Klebanoff CA, Zhao K, Tsang JS, et al. Lineage relationship of CD8(+) T cell subsets is revealed by progressive changes in the epigenetic landscape. Cellular & Molecular Immunology. PMID 25914936 DOI: 10.1038/Cmi.2015.32  0.667
2014 Jin Q, Zhuang L, Lai B, Wang C, Li W, Dolan B, Lu Y, Wang Z, Zhao K, Peng W, Dent SY, Ge K. Gcn5 and PCAF negatively regulate interferon-β production through HAT-independent inhibition of TBK1. Embo Reports. 15: 1192-201. PMID 25269644 DOI: 10.15252/Embr.201438990  0.537
2014 Xu S, Grullon S, Ge K, Peng W. Spatial clustering for identification of ChIP-enriched regions (SICER) to map regions of histone methylation patterns in embryonic stem cells. Methods in Molecular Biology (Clifton, N.J.). 1150: 97-111. PMID 24743992 DOI: 10.1007/978-1-4939-0512-6_5  0.417
2014 Barski A, Cuddapah S, Kartashov AV, Imamichi H, Yang W, Peng W, Lane H, Zhao K. Epigenetic regulation of gene expression and cellular differentiation Molecular Pain. 10: O20. DOI: 10.1186/1744-8069-10-S1-O20  0.678
2013 Lee JE, Wang C, Xu S, Cho YW, Wang L, Feng X, Baldridge A, Sartorelli V, Zhuang L, Peng W, Ge K. H3K4 mono- and di-methyltransferase MLL4 is required for enhancer activation during cell differentiation. Elife. 2: e01503. PMID 24368734 DOI: 10.7554/Elife.01503  0.465
2013 Ni T, Yang Y, Hafez D, Yang W, Kiesewetter K, Wakabayashi Y, Ohler U, Peng W, Zhu J. Distinct polyadenylation landscapes of diverse human tissues revealed by a modified PA-seq strategy. Bmc Genomics. 14: 615. PMID 24025092 DOI: 10.1186/1471-2164-14-615  0.335
2013 Jiang L, Mu J, Zhang Q, Ni T, Srinivasan P, Rayavara K, Yang W, Turner L, Lavstsen T, Theander TG, Peng W, Wei G, Jing Q, Wakabayashi Y, Bansal A, et al. PfSETvs methylation of histone H3K36 represses virulence genes in Plasmodium falciparum. Nature. 499: 223-7. PMID 23823717 DOI: 10.1038/Nature12361  0.605
2013 Wang L, Xu S, Lee JE, Baldridge A, Grullon S, Peng W, Ge K. Histone H3K9 methyltransferase G9a represses PPARγ expression and adipogenesis. The Embo Journal. 32: 45-59. PMID 23178591 DOI: 10.1038/Emboj.2012.306  0.376
2013 Lee J, Wang C, Xu S, Cho Y, Wang L, Feng X, Baldridge A, Sartorelli V, Zhuang L, Peng W, Ge K. Author response: H3K4 mono- and di-methyltransferase MLL4 is required for enhancer activation during cell differentiation Elife. DOI: 10.7554/Elife.01503.027  0.35
2012 Callen E, Faryabi RB, Luckey M, Hao B, Daniel JA, Yang W, Sun HW, Dressler G, Peng W, Chi H, Ge K, Krangel MS, Park JH, Nussenzweig A. The DNA Damage- and Transcription-Associated Protein Paxip1 Controls Thymocyte Development and Emigration Immunity. 37: 971-985. PMID 23159437 DOI: 10.1016/J.Immuni.2012.10.007  0.477
2012 Hao H, Kim DS, Klocke B, Johnson KR, Cui K, Gotoh N, Zang C, Gregorski J, Gieser L, Peng W, Fann Y, Seifert M, Zhao K, Swaroop A. Transcriptional regulation of rod photoreceptor homeostasis revealed by in vivo NRL targetome analysis. Plos Genetics. 8: e1002649. PMID 22511886 DOI: 10.1371/Journal.Pgen.1002649  0.694
2012 Cowley AW, Nadeau JH, Baccarelli A, Berecek K, Fornage M, Gibbons GH, Harrison DG, Liang M, Nathanielsz PW, O'Connor DT, Ordovas J, Peng W, Soares MB, Szyf M, Tolunay HE, et al. Report of the National Heart, Lung, and Blood Institute Working Group on epigenetics and hypertension. Hypertension. 59: 899-905. PMID 22431584 DOI: 10.1161/Hypertensionaha.111.190116  0.476
2011 Peng W, Zhao K. An integrated strategy for identification of both sharp and broad peaks from next-generation sequencing data. Genome Biology. 12: 120. PMID 21787381 DOI: 10.1186/Gb-2011-12-7-120  0.548
2011 Yang W, Mousavi K, Zare H, Sartorelli V, Peng W. The Interplay of Chromatin and Transcription Factors in the Regulation of Muscle Differentiation Biophysical Journal. 100: 286a-287a. DOI: 10.1016/J.Bpj.2010.12.1770  0.444
2010 Daniel JA, Santos MA, Wang Z, Zang C, Schwab KR, Jankovic M, Filsuf D, Chen HT, Gazumyan A, Yamane A, Cho YW, Sun HW, Ge K, Peng W, Nussenzweig MC, et al. PTIP promotes chromatin changes critical for immunoglobulin class switch recombination Science. 329: 917-923. PMID 20671152 DOI: 10.1126/Science.1187942  0.683
2010 Wei L, Vahedi G, Sun HW, Watford WT, Takatori H, Ramos HL, Takahashi H, Liang J, Gutierrez-Cruz G, Zang C, Peng W, O'Shea JJ, Kanno Y. Discrete roles of STAT4 and STAT6 transcription factors in tuning epigenetic modifications and transcription during T helper cell differentiation. Immunity. 32: 840-51. PMID 20620946 DOI: 10.1016/J.Immuni.2010.06.003  0.656
2009 Wang Z, Zang C, Cui K, Schones DE, Barski A, Peng W, Zhao K. Genome-wide mapping of HATs and HDACs reveals distinct functions in active and inactive genes. Cell. 138: 1019-31. PMID 19698979 DOI: 10.1016/J.Cell.2009.06.049  0.712
2009 Jin C, Zang C, Wei G, Cui K, Peng W, Zhao K, Felsenfeld G. H3.3/H2A.Z double variant-containing nucleosomes mark 'nucleosome-free regions' of active promoters and other regulatory regions. Nature Genetics. 41: 941-5. PMID 19633671 DOI: 10.1038/Ng.409  0.701
2009 Araki Y, Wang Z, Zang C, Wood WH, Schones D, Cui K, Roh TY, Lhotsky B, Wersto RP, Peng W, Becker KG, Zhao K, Weng NP. Genome-wide analysis of histone methylation reveals chromatin state-based regulation of gene transcription and function of memory CD8+ T cells. Immunity. 30: 912-25. PMID 19523850 DOI: 10.1016/J.Immuni.2009.05.006  0.743
2009 Zang C, Schones DE, Zeng C, Cui K, Zhao K, Peng W. A clustering approach for identification of enriched domains from histone modification ChIP-Seq data. Bioinformatics (Oxford, England). 25: 1952-8. PMID 19505939 DOI: 10.1093/Bioinformatics/Btp340  0.696
2009 Wei G, Wei L, Zhu J, Zang C, Hu-Li J, Yao Z, Cui K, Kanno Y, Roh TY, Watford WT, Schones DE, Peng W, Sun HW, Paul WE, O'Shea JJ, et al. Global mapping of H3K4me3 and H3K27me3 reveals specificity and plasticity in lineage fate determination of differentiating CD4+ T cells. Immunity. 30: 155-67. PMID 19144320 DOI: 10.1016/J.Immuni.2008.12.009  0.706
2009 Cui K, Zang C, Roh TY, Schones DE, Childs RW, Peng W, Zhao K. Chromatin signatures in multipotent human hematopoietic stem cells indicate the fate of bivalent genes during differentiation. Cell Stem Cell. 4: 80-93. PMID 19128795 DOI: 10.1016/J.Stem.2008.11.011  0.707
2008 Wang Z, Zang C, Rosenfeld JA, Schones DE, Barski A, Cuddapah S, Cui K, Roh TY, Peng W, Zhang MQ, Zhao K. Combinatorial patterns of histone acetylations and methylations in the human genome. Nature Genetics. 40: 897-903. PMID 18552846 DOI: 10.1038/Ng.154  0.723
2004 Peng W, Levine H, Hwa T, Kessler DA. Analytical study of the effect of recombination on evolution via DNA shuffling. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 69: 051911. PMID 15244851 DOI: 10.1103/Physreve.69.051911  0.445
2003 Peng W, Gerland U, Hwa T, Levine H. Dynamics of competitive evolution on a smooth landscape. Physical Review Letters. 90: 088103. PMID 12633464 DOI: 10.1103/Physrevlett.90.088103  0.451
2001 Sutherland JE, Peng W, Zhang Q, Costa M. The histone deacetylase inhibitor trichostatin A reduces nickel-induced gene silencing in yeast and mammalian cells. Mutation Research. 479: 225-33. PMID 11470494 DOI: 10.1016/S0027-5107(01)00163-4  0.331
2000 Peng W, Goldbart PM. Renormalization-group approach to the vulcanization transition Physical Review E. 61: 3339-3357. PMID 11088108 DOI: 10.1103/Physreve.61.3339  0.541
1998 Peng W, Castillo HE, Goldbart PM, Zippelius A. Universality and its origins at the amorphous solidification transition Physical Review B - Condensed Matter and Materials Physics. 57: 839-847. DOI: 10.1103/Physrevb.57.839  0.692
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