Guo-Cheng Yuan - Publications

Biostatistics Harvard University, Cambridge, MA, United States 
Biostatistics Biology, Bioinformatics Biology

35 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
2017 Blinka S, Reimer MH, Pulakanti K, Pinello L, Yuan GC, Rao S. Identification of Transcribed Enhancers by Genome-Wide Chromatin Immunoprecipitation Sequencing. Methods in Molecular Biology (Clifton, N.J.). 1468: 91-109. PMID 27662872 DOI: 10.1007/978-1-4939-4035-6_8  0.92
2016 Jadhav U, Nalapareddy K, Saxena M, O'Neill NK, Pinello L, Yuan GC, Orkin SH, Shivdasani RA. Acquired Tissue-Specific Promoter Bivalency Is a Basis for PRC2 Necessity in Adult Cells. Cell. PMID 27212235 DOI: 10.1016/J.Cell.2016.04.031  0.92
2016 Stelloh C, Reimer MH, Pulakanti K, Blinka S, Peterson J, Pinello L, Jia S, Roumiantsev S, Hessner MJ, Milanovich S, Yuan GC, Rao S. The cohesin-associated protein Wapal is required for proper Polycomb-mediated gene silencing. Epigenetics & Chromatin. 9: 14. PMID 27087855 DOI: 10.1186/S13072-016-0063-7  0.92
2016 Beyaz S, Mana MD, Roper J, Kedrin D, Saadatpour A, Hong SJ, Bauer-Rowe KE, Xifaras ME, Akkad A, Arias E, Pinello L, Katz Y, Shinagare S, Abu-Remaileh M, Mihaylova MM, ... ... Yuan GC, et al. High-fat diet enhances stemness and tumorigenicity of intestinal progenitors. Nature. 531: 53-8. PMID 26935695 DOI: 10.1038/Nature17173  0.92
2016 Guo G, Pinello L, Han X, Lai S, Shen L, Lin TW, Zou K, Yuan GC, Orkin SH. Serum-Based Culture Conditions Provoke Gene Expression Variability in Mouse Embryonic Stem Cells as Revealed by Single-Cell Analysis. Cell Reports. PMID 26804902 DOI: 10.1016/J.Celrep.2015.12.089  0.92
2016 Huang J, Liu X, Li D, Shao Z, Cao H, Zhang Y, Trompouki E, Bowman TV, Zon LI, Yuan GC, Orkin SH, Xu J. Dynamic Control of Enhancer Repertoires Drives Lineage and Stage-Specific Transcription during Hematopoiesis. Developmental Cell. 36: 9-23. PMID 26766440 DOI: 10.1016/J.Devcel.2015.12.014  0.92
2015 Wu JN, Pinello L, Yissachar E, Wischhusen JW, Yuan GC, Roberts CW. Functionally distinct patterns of nucleosome remodeling at enhancers in glucocorticoid-treated acute lymphoblastic leukemia. Epigenetics & Chromatin. 8: 53. PMID 26633995 DOI: 10.1186/S13072-015-0046-0  0.92
2015 Canver MC, Smith EC, Sher F, Pinello L, Sanjana NE, Shalem O, Chen DD, Schupp PG, Vinjamur DS, Garcia SP, Luc S, Kurita R, Nakamura Y, Fujiwara Y, Maeda T, ... Yuan GC, et al. BCL11A enhancer dissection by Cas9-mediated in situ saturating mutagenesis. Nature. PMID 26375006 DOI: 10.1038/Nature15521  0.92
2015 Hu T, Yeh JE, Pinello L, Jacob J, Chakravarthy S, Yuan GC, Chopra R, Frank DA. Impact of the N-terminal domain of STAT3 in STAT3-dependent transcriptional activity. Molecular and Cellular Biology. PMID 26169829 DOI: 10.1128/Mcb.00060-15  0.92
2015 Glass K, Quackenbush J, Spentzos D, Haibe-Kains B, Yuan GC. A network model for angiogenesis in ovarian cancer. Bmc Bioinformatics. 16: 115. PMID 25888305 DOI: 10.1186/S12859-015-0551-Y  0.92
2015 Lao T, Glass K, Qiu W, Polverino F, Gupta K, Morrow J, Mancini JD, Vuong L, Perrella MA, Hersh CP, Owen CA, Quackenbush J, Yuan GC, Silverman EK, Zhou X. Haploinsufficiency of Hedgehog interacting protein causes increased emphysema induced by cigarette smoke through network rewiring. Genome Medicine. 7: 12. PMID 25763110 DOI: 10.1186/S13073-015-0137-3  0.92
2015 Xu J, Shao Z, Li D, Xie H, Kim W, Huang J, Taylor JE, Pinello L, Glass K, Jaffe JD, Yuan GC, Orkin SH. Developmental control of polycomb subunit composition by GATA factors mediates a switch to non-canonical functions. Molecular Cell. 57: 304-16. PMID 25578878 DOI: 10.1016/J.Molcel.2014.12.009  0.92
2014 Saadatpour A, Guo G, Orkin SH, Yuan GC. Characterizing heterogeneity in leukemic cells using single-cell gene expression analysis. Genome Biology. 15: 525. PMID 25517911 DOI: 10.1186/S13059-014-0525-9  0.92
2014 Marco E, Karp RL, Guo G, Robson P, Hart AH, Trippa L, Yuan GC. Bifurcation analysis of single-cell gene expression data reveals epigenetic landscape. Proceedings of the National Academy of Sciences of the United States of America. 111: E5643-50. PMID 25512504 DOI: 10.1073/Pnas.1408993111  0.92
2014 Glass K, Quackenbush J, Silverman EK, Celli B, Rennard SI, Yuan GC, DeMeo DL. Sexually-dimorphic targeting of functionally-related genes in COPD. Bmc Systems Biology. 8: 118. PMID 25431000 DOI: 10.1186/S12918-014-0118-Y  0.92
2014 Chipumuro E, Marco E, Christensen CL, Kwiatkowski N, Zhang T, Hatheway CM, Abraham BJ, Sharma B, Yeung C, Altabef A, Perez-Atayde A, Wong KK, Yuan GC, Gray NS, Young RA, et al. CDK7 inhibition suppresses super-enhancer-linked oncogenic transcription in MYCN-driven cancer. Cell. 159: 1126-39. PMID 25416950 DOI: 10.1016/J.Cell.2014.10.024  0.92
2014 Riddell J, Gazit R, Garrison BS, Guo G, Saadatpour A, Mandal PK, Ebina W, Volchkov P, Yuan GC, Orkin SH, Rossi DJ. Reprogramming committed murine blood cells to induced hematopoietic stem cells with defined factors. Cell. 157: 549-64. PMID 24766805 DOI: 10.1016/J.Cell.2014.04.006  0.92
2014 Pinello L, Lo Bosco G, Yuan GC. Applications of alignment-free methods in epigenomics. Briefings in Bioinformatics. 15: 419-30. PMID 24197932 DOI: 10.1093/Bib/Bbt078  0.92
2013 Nag A, Savova V, Fung HL, Miron A, Yuan GC, Zhang K, Gimelbrant AA. Chromatin signature of widespread monoallelic expression. Elife. 2: e01256. PMID 24381246 DOI: 10.7554/eLife.01256  0.92
2013 Ku WL, Girvan M, Yuan GC, Sorrentino F, Ott E. Modeling the dynamics of bivalent histone modifications. Plos One. 8: e77944. PMID 24223747 DOI: 10.1371/Journal.Pone.0077944  0.92
2013 Glass K, Huttenhower C, Quackenbush J, Yuan GC. Passing messages between biological networks to refine predicted interactions. Plos One. 8: e64832. PMID 23741402 DOI: 10.1371/Journal.Pone.0064832  0.92
2013 Larson JL, Huttenhower C, Quackenbush J, Yuan GC. A tiered hidden Markov model characterizes multi-scale chromatin states. Genomics. 102: 1-7. PMID 23570996 DOI: 10.1016/J.Ygeno.2013.03.009  0.92
2013 Baena E, Shao Z, Linn DE, Glass K, Hamblen MJ, Fujiwara Y, Kim J, Nguyen M, Zhang X, Godinho FJ, Bronson RT, Mucci LA, Loda M, Yuan GC, Orkin SH, et al. ETV1 directs androgen metabolism and confers aggressive prostate cancer in targeted mice and patients. Genes & Development. 27: 683-98. PMID 23512661 DOI: 10.1101/Gad.211011.112  0.92
2012 Xu J, Shao Z, Glass K, Bauer DE, Pinello L, Van Handel B, Hou S, Stamatoyannopoulos JA, Mikkola HK, Yuan GC, Orkin SH. Combinatorial assembly of developmental stage-specific enhancers controls gene expression programs during human erythropoiesis. Developmental Cell. 23: 796-811. PMID 23041383 DOI: 10.1016/J.Devcel.2012.09.003  0.92
2012 Shao Z, Zhang Y, Yuan GC, Orkin SH, Waxman DJ. MAnorm: a robust model for quantitative comparison of ChIP-Seq data sets. Genome Biology. 13: R16. PMID 22424423 DOI: 10.1186/Gb-2012-13-3-R16  0.92
2012 Larson JL, Yuan GC. Chromatin states accurately classify cell differentiation stages. Plos One. 7: e31414. PMID 22363642 DOI: 10.1371/Journal.Pone.0031414  0.92
2012 Yuan GC. Linking genome to epigenome. Wiley Interdisciplinary Reviews. Systems Biology and Medicine. 4: 297-309. PMID 22344857 DOI: 10.1002/Wsbm.1165  0.92
2011 Van Rechem C, Black JC, Abbas T, Allen A, Rinehart CA, Yuan GC, Dutta A, Whetstine JR. The SKP1-Cul1-F-box and leucine-rich repeat protein 4 (SCF-FbxL4) ubiquitin ligase regulates lysine demethylase 4A (KDM4A)/Jumonji domain-containing 2A (JMJD2A) protein. The Journal of Biological Chemistry. 286: 30462-70. PMID 21757720 DOI: 10.1074/Jbc.M111.273508  0.92
2011 Yuan GC. Prediction of epigenetic target sites by using genomic DNA sequence Handbook of Research On Computational and Systems Biology: Interdisciplinary Applications. 187-201. DOI: 10.4018/978-1-60960-491-2.ch008  0.92
2010 Larson JL, Yuan GC. Epigenetic domains found in mouse embryonic stem cells via a hidden Markov model. Bmc Bioinformatics. 11: 557. PMID 21073706 DOI: 10.1186/1471-2105-11-557  0.92
2010 Fang R, Barbera AJ, Xu Y, Rutenberg M, Leonor T, Bi Q, Lan F, Mei P, Yuan GC, Lian C, Peng J, Cheng D, Sui G, Kaiser UB, Shi Y, et al. Human LSD2/KDM1b/AOF1 regulates gene transcription by modulating intragenic H3K4me2 methylation. Molecular Cell. 39: 222-33. PMID 20670891 DOI: 10.1016/J.Molcel.2010.07.008  0.92
2010 Chastanet A, Vitkup D, Yuan GC, Norman TM, Liu JS, Losick RM. Broadly heterogeneous activation of the master regulator for sporulation in Bacillus subtilis. Proceedings of the National Academy of Sciences of the United States of America. 107: 8486-91. PMID 20404177 DOI: 10.1073/Pnas.1002499107  0.92
2010 Lantermann AB, Straub T, Strålfors A, Yuan GC, Ekwall K, Korber P. Schizosaccharomyces pombe genome-wide nucleosome mapping reveals positioning mechanisms distinct from those of Saccharomyces cerevisiae. Nature Structural & Molecular Biology. 17: 251-7. PMID 20118936 DOI: 10.1038/Nsmb.1741  0.92
2009 Yuan GC. Targeted recruitment of histone modifications in humans predicted by genomic sequences. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 16: 341-55. PMID 19193151 DOI: 10.1089/Cmb.2008.18Tt  0.92
2005 Yuan GC, Liu YJ, Dion MF, Slack MD, Wu LF, Altschuler SJ, Rando OJ. Genome-scale identification of nucleosome positions in S. cerevisiae. Science (New York, N.Y.). 309: 626-30. PMID 15961632 DOI: 10.1126/Science.1112178  0.92
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