Chun Ye, Ph.D. - Publications

Affiliations: 
2009 Bioinformatics University of California, San Diego, La Jolla, CA 
Area:
Biostatistics Biology, Bioinformatics Biology, Systematic Biology

22 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
2019 Hernandez RD, Uricchio LH, Hartman K, Ye C, Dahl A, Zaitlen N. Ultrarare variants drive substantial cis heritability of human gene expression. Nature Genetics. 51: 1349-1355. PMID 31477931 DOI: 10.1038/s41588-019-0487-7  0.4
2017 Kang HM, Subramaniam M, Targ S, Nguyen M, Maliskova L, McCarthy E, Wan E, Wong S, Byrnes L, Lanata CM, Gate RE, Mostafavi S, Marson A, Zaitlen N, Criswell LA, ... Ye CJ, et al. Multiplexed droplet single-cell RNA-sequencing using natural genetic variation. Nature Biotechnology. PMID 29227470 DOI: 10.1038/nbt.4042  0.32
2017 Park DS, Eskin I, Kang EY, Gamazon ER, Eng C, Gignoux CR, Galanter JM, Burchard E, Ye CJ, Aschard H, Eskin E, Halperin E, Zaitlen N. An ancestry-based approach for detecting interactions. Genetic Epidemiology. PMID 29114909 DOI: 10.1002/gepi.22087  0.76
2017 Aschard H, Guillemot V, Vilhjalmsson B, Patel CJ, Skurnik D, Ye CJ, Wolpin B, Kraft P, Zaitlen N. Covariate selection for association screening in multiphenotype genetic studies. Nature Genetics. PMID 29038595 DOI: 10.1038/ng.3975  0.32
2016 Brown BC, Ye CJ, Price AL, Zaitlen N. Transethnic Genetic-Correlation Estimates from Summary Statistics. American Journal of Human Genetics. PMID 27321947 DOI: 10.1016/j.ajhg.2016.05.001  0.4
2016 Uricchio LH, Zaitlen NA, Ye CJ, Witte JS, Hernandez RD. Selection and explosive growth alter genetic architecture and hamper the detection of causal rare variants. Genome Research. PMID 27197206 DOI: 10.1101/gr.202440.115  0.4
2015 Liu Y, Shen D, Li S, Ni Z, Ding M, Ye C, Tang F. Residue levels and risk assessment of pesticides in nuts of China. Chemosphere. 144: 645-651. PMID 26408971 DOI: 10.1016/j.chemosphere.2015.09.008  0.84
2014 Ye C, Shen Z, Greenberg ML. Cardiolipin remodeling: a regulatory hub for modulating cardiolipin metabolism and function. Journal of Bioenergetics and Biomembranes. PMID 25432572 DOI: 10.1007/s10863-014-9591-7  0.84
2014 Ye CJ, Feng T, Kwon HK, Raj T, Wilson MT, Asinovski N, McCabe C, Lee MH, Frohlich I, Paik HI, Zaitlen N, Hacohen N, Stranger B, De Jager P, Mathis D, et al. Intersection of population variation and autoimmunity genetics in human T cell activation. Science (New York, N.Y.). 345: 1254665. PMID 25214635 DOI: 10.1126/science.1254665  0.32
2014 Raj T, Rothamel K, Mostafavi S, Ye C, Lee MN, Replogle JM, Feng T, Lee M, Asinovski N, Frohlich I, Imboywa S, Von Korff A, Okada Y, Patsopoulos NA, Davis S, et al. Polarization of the effects of autoimmune and neurodegenerative risk alleles in leukocytes. Science (New York, N.Y.). 344: 519-23. PMID 24786080 DOI: 10.1126/science.1249547  0.84
2014 Joo JW, Sul JH, Han B, Ye C, Eskin E. Effectively identifying regulatory hotspots while capturing expression heterogeneity in gene expression studies. Genome Biology. 15: r61. PMID 24708878 DOI: 10.1186/gb-2014-15-4-r61  0.84
2014 Lee MN, Ye C, Villani AC, Raj T, Li W, Eisenhaure TM, Imboywa SH, Chipendo PI, Ran FA, Slowikowski K, Ward LD, Raddassi K, McCabe C, Lee MH, Frohlich IY, et al. Common genetic variants modulate pathogen-sensing responses in human dendritic cells. Science (New York, N.Y.). 343: 1246980. PMID 24604203 DOI: 10.1126/science.1246980  0.84
2013 Sul JH, Han B, Ye C, Choi T, Eskin E. Effectively identifying eQTLs from multiple tissues by combining mixed model and meta-analytic approaches. Plos Genetics. 9: e1003491. PMID 23785294 DOI: 10.1371/journal.pgen.1003491  0.84
2013 Kirby A, Gnirke A, Jaffe DB, Barešová V, Pochet N, Blumenstiel B, Ye C, Aird D, Stevens C, Robinson JT, Cabili MN, Gat-Viks I, Kelliher E, Daza R, DeFelice M, et al. Mutations causing medullary cystic kidney disease type 1 lie in a large VNTR in MUC1 missed by massively parallel sequencing. Nature Genetics. 45: 299-303. PMID 23396133 DOI: 10.1038/ng.2543  0.84
2012 Friese RS, Ye C, Nievergelt CM, Schork AJ, Mahapatra NR, Rao F, Napolitan PS, Waalen J, Ehret GB, Munroe PB, Schmid-Schönbein GW, Eskin E, O'Connor DT. Integrated computational and experimental analysis of the neuroendocrine transcriptome in genetic hypertension identifies novel control points for the cardiometabolic syndrome. Circulation. Cardiovascular Genetics. 5: 430-40. PMID 22670052 DOI: 10.1161/CIRCGENETICS.111.962415  0.84
2011 Furlotte NA, Kang HM, Ye C, Eskin E. Mixed-model coexpression: calculating gene coexpression while accounting for expression heterogeneity. Bioinformatics (Oxford, England). 27: i288-94. PMID 21685083 DOI: 10.1093/bioinformatics/btr221  0.84
2010 Kang EY, Ye C, Shpitser I, Eskin E. Detecting the presence and absence of causal relationships between expression of yeast genes with very few samples. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 17: 533-46. PMID 20377462 DOI: 10.1089/cmb.2009.0176  0.84
2009 Ye C, Galbraith SJ, Liao JC, Eskin E. Using network component analysis to dissect regulatory networks mediated by transcription factors in yeast. Plos Computational Biology. 5: e1000311. PMID 19300475 DOI: 10.1371/journal.pcbi.1000311  0.84
2008 Kang HM, Ye C, Eskin E. Accurate discovery of expression quantitative trait loci under confounding from spurious and genuine regulatory hotspots. Genetics. 180: 1909-25. PMID 18791227 DOI: 10.1534/genetics.108.094201  0.84
2007 Ye C, Eskin E. Discovering tightly regulated and differentially expressed gene sets in whole genome expression data. Bioinformatics (Oxford, England). 23: e84-90. PMID 17237110 DOI: 10.1093/bioinformatics/btl315  0.84
2005 Bashir A, Ye C, Price AL, Bafna V. Orthologous repeats and mammalian phylogenetic inference. Genome Research. 15: 998-1006. PMID 15998912 DOI: 10.1101/gr.3493405  0.84
2005 Tompa M, Li N, Bailey TL, Church GM, De Moor B, Eskin E, Favorov AV, Frith MC, Fu Y, Kent WJ, Makeev VJ, Mironov AA, Noble WS, Pavesi G, Pesole G, ... ... Ye C, et al. Assessing computational tools for the discovery of transcription factor binding sites. Nature Biotechnology. 23: 137-44. PMID 15637633 DOI: 10.1038/nbt1053  0.76
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