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Xiaowei Zhu, Ph.D. - Publications

Affiliations: 
2008 Yale University, New Haven, CT 
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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 Zhou B, Ho SS, Greer SU, Spies N, Bell JM, Zhang X, Zhu X, Arthur JG, Byeon S, Pattni R, Saha I, Huang Y, Song G, Perrin D, Wong WH, et al. Haplotype-resolved and integrated genome analysis of the cancer cell line HepG2. Nucleic Acids Research. PMID 30864654 DOI: 10.1093/Nar/Gkz169  0.383
2019 Zhou B, Ho SS, Greer SU, Zhu X, Bell JM, Arthur JG, Spies N, Zhang X, Byeon S, Pattni R, Ben-Efraim N, Haney MS, Haraksingh RR, Song G, Ji HP, et al. Comprehensive, integrated, and phased whole-genome analysis of the primary ENCODE cell line K562. Genome Research. PMID 30737237 DOI: 10.1101/Gr.234948.118  0.692
2019 Urban A, Zhu X, Zhou B, Sloan S, Pattni R, Fiston-Lavier A, Snyder M, Petrov D, Abyzov A, Vaccarino F, Barres B, Vogel H, Tamminga C, Levinson D. Sa94Machine Learning Analysis Of Ultra-Deep Whole-Genome Sequencing In Human Brain Reveals Somatic Genomic Retrotransposition In Glia As Well As In Neurons European Neuropsychopharmacology. 29. DOI: 10.1016/J.Euroneuro.2018.08.316  0.455
2018 Zhang X, Zhang Y, Zhu X, Purmann C, Haney MS, Ward T, Khechaduri A, Yao J, Weissman SM, Urban AE. Local and global chromatin interactions are altered by large genomic deletions associated with human brain development. Nature Communications. 9: 5356. PMID 30559385 DOI: 10.1038/S41467-018-07766-X  0.34
2018 Velicky P, Meinhardt G, Plessl K, Vondra S, Weiss T, Haslinger P, Lendl T, Aumayr K, Mairhofer M, Zhu X, Schütz B, Hannibal RL, Lindau R, Weil B, Ernerudh J, et al. Genome amplification and cellular senescence are hallmarks of human placenta development. Plos Genetics. 14: e1007698. PMID 30312291 DOI: 10.1371/Journal.Pgen.1007698  0.345
2017 Yu X, Chen X, Wang L, Yang Y, Zhu X, Shao S, Cui W, Xiong F. Novel insights into the effect of nitrogen on storage protein biosynthesis and protein body development in wheat caryopsis. Journal of Experimental Botany. PMID 28472326 DOI: 10.1093/jxb/erx108  0.333
2016 Kukurba KR, Parsana P, Balliu B, Smith KS, Zappala Z, Knowles DA, Favé MJ, Davis JR, Li X, Zhu X, Potash JB, Weissman MM, Shi J, Kundaje A, Levinson DF, et al. Impact of the X Chromosome and sex on regulatory variation. Genome Research. PMID 27197214 DOI: 10.1101/Gr.197897.115  0.314
2014 Mostafavi S, Battle A, Zhu X, Potash JB, Weissman MM, Shi J, Beckman K, Haudenschild C, McCormick C, Mei R, Gameroff MJ, Gindes H, Adams P, Goes FS, Mondimore FM, et al. Type I interferon signaling genes in recurrent major depression: increased expression detected by whole-blood RNA sequencing. Molecular Psychiatry. 19: 1267-74. PMID 24296977 DOI: 10.1038/Mp.2013.161  0.357
2014 Battle A, Mostafavi S, Zhu X, Potash JB, Weissman MM, McCormick C, Haudenschild CD, Beckman KB, Shi J, Mei R, Urban AE, Montgomery SB, Levinson DF, Koller D. Characterizing the genetic basis of transcriptome diversity through RNA-sequencing of 922 individuals. Genome Research. 24: 14-24. PMID 24092820 DOI: 10.1101/Gr.155192.113  0.396
2013 Mostafavi S, Battle A, Zhu X, Urban AE, Levinson D, Montgomery SB, Koller D. Normalizing RNA-sequencing data by modeling hidden covariates with prior knowledge. Plos One. 8: e68141. PMID 23874524 DOI: 10.1371/Journal.Pone.0068141  0.303
2011 Mok J, Zhu X, Snyder M. Dissecting phosphorylation networks: lessons learned from yeast. Expert Review of Proteomics. 8: 775-86. PMID 22087660 DOI: 10.1586/Epr.11.64  0.71
2007 Zhu X, Gerstein M, Snyder M. Getting connected: analysis and principles of biological networks. Genes & Development. 21: 1010-24. PMID 17473168 DOI: 10.1101/Gad.1528707  0.43
2006 Zhu X, Gerstein M, Snyder M. ProCAT: a data analysis approach for protein microarrays. Genome Biology. 7: R110. PMID 17109749 DOI: 10.1186/Gb-2006-7-11-R110  0.531
2006 Royce TE, Rozowsky JS, Luscombe NM, Emanuelsson O, Yu H, Zhu X, Snyder M, Gerstein MB. Extrapolating traditional DNA microarray statistics to tiling and protein microarray technologies. Methods in Enzymology. 411: 282-311. PMID 16939796 DOI: 10.1016/S0076-6879(06)11015-0  0.473
2006 Zhu H, Hu S, Jona G, Zhu X, Kreiswirth N, Willey BM, Mazzulli T, Liu G, Song Q, Chen P, Cameron M, Tyler A, Wang J, Wen J, Chen W, et al. Severe acute respiratory syndrome diagnostics using a coronavirus protein microarray. Proceedings of the National Academy of Sciences of the United States of America. 103: 4011-6. PMID 16537477 DOI: 10.1073/Pnas.0510921103  0.444
2005 Ptacek J, Devgan G, Michaud G, Zhu H, Zhu X, Fasolo J, Guo H, Jona G, Breitkreutz A, Sopko R, McCartney RR, Schmidt MC, Rachidi N, Lee SJ, Mah AS, et al. Global analysis of protein phosphorylation in yeast. Nature. 438: 679-84. PMID 16319894 DOI: 10.1038/Nature04187  0.692
2005 Smith MG, Jona G, Ptacek J, Devgan G, Zhu H, Zhu X, Snyder M. Global analysis of protein function using protein microarrays. Mechanisms of Ageing and Development. 126: 171-5. PMID 15610776 DOI: 10.1016/J.Mad.2004.09.019  0.68
2004 Bertone P, Stolc V, Royce TE, Rozowsky JS, Urban AE, Zhu X, Rinn JL, Tongprasit W, Samanta M, Weissman S, Gerstein M, Snyder M. Global identification of human transcribed sequences with genome tiling arrays. Science (New York, N.Y.). 306: 2242-6. PMID 15539566 DOI: 10.1126/Science.1103388  0.693
2004 Hall DA, Zhu H, Zhu X, Royce T, Gerstein M, Snyder M. Regulation of gene expression by a metabolic enzyme. Science (New York, N.Y.). 306: 482-4. PMID 15486299 DOI: 10.1126/Science.1096773  0.589
2004 Yu H, Luscombe NM, Lu HX, Zhu X, Xia Y, Han JD, Bertin N, Chung S, Vidal M, Gerstein M. Annotation transfer between genomes: protein-protein interologs and protein-DNA regulogs. Genome Research. 14: 1107-18. PMID 15173116 DOI: 10.1101/Gr.1774904  0.453
2004 Yu H, Greenbaum D, Xin Lu H, Zhu X, Gerstein M. Genomic analysis of essentiality within protein networks. Trends in Genetics : Tig. 20: 227-31. PMID 15145574 DOI: 10.1016/J.Tig.2004.04.008  0.374
2004 Yu H, Zhu X, Greenbaum D, Karro J, Gerstein M. TopNet: a tool for comparing biological sub-networks, correlating protein properties with topological statistics. Nucleic Acids Research. 32: 328-37. PMID 14724320 DOI: 10.1093/Nar/Gkh164  0.35
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