Zichen Wang - Publications

Affiliations: 
Pharmacological Sciences Icahn School of Medicine at Mount Sinai, New York, NY, United States 

49 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 Ochsner SA, Abraham D, Martin K, Ding W, McOwiti A, Kankanamge W, Wang Z, Andreano K, Hamilton RA, Chen Y, Hamilton A, Gantner ML, Dehart M, Qu S, Hilsenbeck SG, et al. The Signaling Pathways Project, an integrated 'omics knowledgebase for mammalian cellular signaling pathways. Scientific Data. 6: 252. PMID 31672983 DOI: 10.1038/s41597-019-0193-4  1
2019 Duncan A, Heyer MP, Ishikawa M, Caligiuri SPB, Liu XA, Chen Z, Vittoria Micioni Di Bonaventura M, Elayouby KS, Ables JL, Howe WM, Bali P, Fillinger C, Williams M, O'Connor RM, Wang Z, et al. Habenular TCF7L2 links nicotine addiction to diabetes. Nature. 574: 372-377. PMID 31619789 DOI: 10.1038/s41586-019-1653-x  1
2019 Fernandez DM, Rahman AH, Fernandez NF, Chudnovskiy A, Amir ED, Amadori L, Khan NS, Wong CK, Shamailova R, Hill CA, Wang Z, Remark R, Li JR, Pina C, Faries C, et al. Single-cell immune landscape of human atherosclerotic plaques. Nature Medicine. PMID 31591603 DOI: 10.1038/s41591-019-0590-4  1
2019 Keenan AB, Torre D, Lachmann A, Leong AK, Wojciechowicz ML, Utti V, Jagodnik KM, Kropiwnicki E, Wang Z, Ma'ayan A. ChEA3: transcription factor enrichment analysis by orthogonal omics integration. Nucleic Acids Research. PMID 31114921 DOI: 10.1093/nar/gkz446  1
2019 Nakahara F, Borger DK, Wei Q, Pinho S, Maryanovich M, Zahalka AH, Suzuki M, Cruz CD, Wang Z, Xu C, Boulais PE, Ma'ayan A, Greally JM, Frenette PS. Engineering a haematopoietic stem cell niche by revitalizing mesenchymal stromal cells. Nature Cell Biology. PMID 30988422 DOI: 10.1038/s41556-019-0308-3  1
2019 Ellis RJ, Wang Z, Genes N, Ma'ayan A. Predicting opioid dependence from electronic health records with machine learning. Biodata Mining. 12: 3. PMID 30728857 DOI: 10.1186/s13040-019-0193-0  1
2018 Mok KW, Saxena N, Heitman N, Grisanti L, Srivastava D, Muraro MJ, Jacob T, Sennett R, Wang Z, Su Y, Yang LM, Ma'ayan A, Ornitz DM, Kasper M, Rendl M. Dermal Condensate Niche Fate Specification Occurs Prior to Formation and Is Placode Progenitor Dependent. Developmental Cell. PMID 30595537 DOI: 10.1016/j.devcel.2018.11.034  1
2018 Wang Z, Lachmann A, Ma'ayan A. Mining data and metadata from the gene expression omnibus. Biophysical Reviews. PMID 30594974 DOI: 10.1007/s12551-018-0490-8  1
2018 Breen MS, Ozcan S, Ramsey JM, Wang Z, Ma'ayan A, Rustogi N, Gottschalk MG, Webster MJ, Weickert CS, Buxbaum JD, Bahn S. Temporal proteomic profiling of postnatal human cortical development. Translational Psychiatry. 8: 267. PMID 30518843 DOI: 10.1038/s41398-018-0306-4  1
2018 Gomes AM, Kurochkin I, Chang B, Daniel M, Law K, Satija N, Lachmann A, Wang Z, Ferreira L, Ma'ayan A, Chen BK, Papatsenko D, Lemischka IR, Moore KA, Pereira CF. Cooperative Transcription Factor Induction Mediates Hemogenic Reprogramming. Cell Reports. 25: 2821-2835.e7. PMID 30517869 DOI: 10.1016/j.celrep.2018.11.032  1
2018 Wang Z, He E, Sani K, Jagodnik KM, Silverstein M, Ma'ayan A. Drug Gene Budger (DGB): An application for ranking drugs to modulate a specific gene based on transcriptomic signatures. Bioinformatics (Oxford, England). PMID 30169739 DOI: 10.1093/bioinformatics/bty763  1
2018 Strub T, Ghiraldini FG, Carcamo S, Li M, Wroblewska A, Singh R, Goldberg MS, Hasson D, Wang Z, Gallagher SJ, Hersey P, Ma'ayan A, Long GV, Scolyer RA, Brown B, et al. SIRT6 haploinsufficiency induces BRAF melanoma cell resistance to MAPK inhibitors via IGF signalling. Nature Communications. 9: 3440. PMID 30143629 DOI: 10.1038/s41467-018-05966-z  1
2018 Guo Y, Pace J, Li Z, Ma'ayan A, Wang Z, Revelo MP, Chen E, Gu X, Attalah A, Yang Y, Estrada C, Yang VW, He JC, Mallipattu SK. Podocyte-Specific Induction of Krüppel-Like Factor 15 Restores Differentiation Markers and Attenuates Kidney Injury in Proteinuric Kidney Disease. Journal of the American Society of Nephrology : Jasn. PMID 30143559 DOI: 10.1681/ASN.2018030324  1
2018 Clarke DJB, Kuleshov MV, Schilder BM, Torre D, Duffy ME, Keenan AB, Lachmann A, Feldmann AS, Gundersen GW, Silverstein MC, Wang Z, Ma'ayan A. eXpression2Kinases (X2K) Web: linking expression signatures to upstream cell signaling networks. Nucleic Acids Research. PMID 29800326 DOI: 10.1093/nar/gky458  1
2018 Torre D, Krawczuk P, Jagodnik KM, Lachmann A, Wang Z, Wang L, Kuleshov MV, Ma'ayan A. Datasets2Tools, repository and search engine for bioinformatics datasets, tools and canned analyses. Scientific Data. 5: 180023. PMID 29485625 DOI: 10.1038/sdata.2018.23  1
2018 Wang Z, Lachmann A, Keenan AB, Ma'ayan A, Stegle O. L1000FWD: Fireworks visualization of drug-induced transcriptomic signatures. Bioinformatics (Oxford, England). PMID 29420694 DOI: 10.1093/bioinformatics/bty060  1
2018 Hodos R, Zhang P, Lee HC, Duan Q, Wang Z, Clark NR, Ma'ayan A, Wang F, Kidd B, Hu J, Sontag D, Dudley J. Cell-specific prediction and application of drug-induced gene expression profiles. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 23: 32-43. PMID 29218867  1
2018 Keenan AB, Jenkins SL, Jagodnik KM, Koplev S, He E, Torre D, Wang Z, Dohlman AB, Silverstein MC, Lachmann A, Kuleshov MV, Ma'ayan A, Stathias V, Terryn R, Cooper D, et al. The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level Cataloging of Human Cells Response to Perturbations. Cell Systems. 6: 13-24. PMID 29199020 DOI: 10.1016/j.cels.2017.11.001  1
2017 Wang Z, Li L, Glicksberg BS, Israel A, Dudley JT, Ma'ayan A. Predicting Age by Mining Electronic Medical Records with Deep Learning Characterizes Differences between Chronological and Physiological Age. Journal of Biomedical Informatics. PMID 29113935 DOI: 10.1016/j.jbi.2017.11.003  1
2017 Fu J, Wang Z, Lee K, Wei C, Liu Z, Zhang M, Zhou M, Cai M, Zhang W, Chuang PY, Ma'ayan A, He JC, Liu Z. Transcriptomic analysis uncovers novel synergistic mechanisms in combination therapy for lupus nephritis. Kidney International. PMID 29102373 DOI: 10.1016/j.kint.2017.08.031  1
2017 Niepel M, Hafner M, Duan Q, Wang Z, Paull EO, Chung M, Lu X, Stuart JM, Golub TR, Subramanian A, Ma'ayan A, Sorger PK. Common and cell-type specific responses to anti-cancer drugs revealed by high throughput transcript profiling. Nature Communications. 8: 1186. PMID 29084964 DOI: 10.1038/s41467-017-01383-w  1
2017 Asada N, Kunisaki Y, Pierce H, Wang Z, Fernandez NF, Birbrair A, Ma'ayan A, Frenette PS. Differential cytokine contributions of perivascular haematopoietic stem cell niches. Nature Cell Biology. PMID 28218906 DOI: 10.1038/ncb3475  1
2016 Duan Q, Reid SP, Clark NR, Wang Z, Fernandez NF, Rouillard AD, Readhead B, Tritsch SR, Hodos R, Hafner M, Niepel M, Sorger PK, Dudley JT, Bavari S, Panchal RG, et al. L1000CDS(2): LINCS L1000 characteristic direction signatures search engine. Npj Systems Biology and Applications. 2. PMID 28413689 DOI: 10.1038/npjsba.2016.15  1
2016 Pfau ML, Purushothaman I, Feng J, Golden SA, Aleyasin H, Lorsch ZS, Cates HM, Flanigan ME, Menard C, Heshmati M, Wang Z, Ma'ayan A, Shen L, Hodes GE, Russo SJ. Integrative Analysis of Sex-Specific microRNA Networks Following Stress in Mouse Nucleus Accumbens. Frontiers in Molecular Neuroscience. 9: 144. PMID 28066174 DOI: 10.3389/fnmol.2016.00144  1
2016 Wang Z, Monteiro CD, Jagodnik KM, Fernandez NF, Gundersen GW, Rouillard AD, Jenkins SL, Feldmann AS, Hu KS, McDermott MG, Duan Q, Clark NR, Jones MR, Kou Y, Goff T, et al. Extraction and analysis of signatures from the Gene Expression Omnibus by the crowd. Nature Communications. 7: 12846. PMID 27667448 DOI: 10.1038/ncomms12846  0.56
2016 Wang Z, Ma'ayan A. An open RNA-Seq data analysis pipeline tutorial with an example of reprocessing data from a recent Zika virus study. F1000research. 5: 1574. PMID 27583132 DOI: 10.12688/f1000research.9110.1  1
2016 von Schimmelmann M, Feinberg PA, Sullivan JM, Ku SM, Badimon A, Duff MK, Wang Z, Lachmann A, Dewell S, Ma'ayan A, Han MH, Tarakhovsky A, Schaefer A. Polycomb repressive complex 2 (PRC2) silences genes responsible for neurodegeneration. Nature Neuroscience. PMID 27526204 DOI: 10.1038/nn.4360  1
2016 Rouillard AD, Gundersen GW, Fernandez NF, Wang Z, Monteiro CD, McDermott MG, Ma'ayan A. The harmonizome: a collection of processed datasets gathered to serve and mine knowledge about genes and proteins. Database : the Journal of Biological Databases and Curation. 2016. PMID 27374120 DOI: 10.1093/database/baw100  1
2016 Morgan DJ, Poolman TM, Williamson AJ, Wang Z, Clark NR, Ma'ayan A, Whetton AD, Brass A, Matthews LC, Ray DW. Glucocorticoid receptor isoforms direct distinct mitochondrial programs to regulate ATP production. Scientific Reports. 6: 26419. PMID 27226058 DOI: 10.1038/srep26419  0.56
2016 Wang Z, Clark NR, Ma'ayan A. Drug-induced adverse events prediction with the LINCS L1000 data. Bioinformatics (Oxford, England). PMID 27153606 DOI: 10.1093/bioinformatics/btw168  1
2016 Kuleshov MV, Jones MR, Rouillard AD, Fernandez NF, Duan Q, Wang Z, Koplev S, Jenkins SL, Jagodnik KM, Lachmann A, McDermott MG, Monteiro CD, Gundersen GW, Ma'ayan A. Enrichr: a comprehensive gene set enrichment analysis web server 2016 update. Nucleic Acids Research. PMID 27141961 DOI: 10.1093/nar/gkw377  1
2016 Rezza A, Wang Z, Sennett R, Qiao W, Wang D, Heitman N, Mok KW, Clavel C, Yi R, Zandstra P, Ma'ayan A, Rendl M. Signaling Networks among Stem Cell Precursors, Transit-Amplifying Progenitors, and their Niche in Developing Hair Follicles. Cell Reports. PMID 27009580 DOI: 10.1016/j.celrep.2016.02.078  0.56
2016 Kong DS, Kim J, Lee IH, Kim ST, Seol HJ, Lee JI, Park WY, Ryu G, Wang Z, Ma'ayan A, Nam DH. Integrative radiogenomic analysis for multicentric radiophenotype in glioblastoma. Oncotarget. PMID 26863628 DOI: 10.18632/oncotarget.7115  0.56
2015 Clark NR, Szymkiewicz M, Wang Z, Monteiro CD, Jones MR, Ma'ayan A. Principal Angle Enrichment Analysis (PAEA): Dimensionally Reduced Multivariate Gene Set Enrichment Analysis Tool. Proceedings. Ieee International Conference On Bioinformatics and Biomedicine. 2015: 256-262. PMID 26848405 DOI: 10.1109/BIBM.2015.7359689  0.56
2015 Rouillard AD, Wang Z, Ma'ayan A. Reprint of "Abstraction for data integration: Fusing mammalian molecular, cellular and phenotype big datasets for better knowledge extraction". Computational Biology and Chemistry. PMID 26297300 DOI: 10.1016/j.compbiolchem.2015.08.005  0.56
2015 Sennett R, Wang Z, Rezza A, Grisanti L, Roitershtein N, Sicchio C, Mok KW, Heitman NJ, Clavel C, Ma'ayan A, Rendl M. An Integrated Transcriptome Atlas of Embryonic Hair Follicle Progenitors, Their Niche, and the Developing Skin. Developmental Cell. PMID 26256211 DOI: 10.1016/j.devcel.2015.06.023  0.56
2015 Rouillard AD, Wang Z, Ma'ayan A. Abstraction for data integration: Fusing mammalian molecular, cellular and phenotype big datasets for better knowledge extraction. Computational Biology and Chemistry. 58: 104-119. PMID 26101093 DOI: 10.1016/j.compbiolchem.2015.06.003  0.56
2015 Wang Z, Clark NR, Ma'ayan A. Dynamics of the discovery process of protein-protein interactions from low content studies. Bmc Systems Biology. 9: 26. PMID 26048415 DOI: 10.1186/s12918-015-0173-z  0.56
2014 Duarte LF, Young AR, Wang Z, Wu HA, Panda T, Kou Y, Kapoor A, Hasson D, Mills NR, Ma'ayan A, Narita M, Bernstein E. Histone H3.3 and its proteolytically processed form drive a cellular senescence programme. Nature Communications. 5: 5210. PMID 25394905 DOI: 10.1038/ncomms6210  1
2014 Ma'ayan A, Rouillard AD, Clark NR, Wang Z, Duan Q, Kou Y. Lean Big Data integration in systems biology and systems pharmacology. Trends in Pharmacological Sciences. 35: 450-60. PMID 25109570 DOI: 10.1016/j.tips.2014.07.001  0.56
2014 Duan Q, Wang Z, Fernandez NF, Rouillard AD, Tan CM, Benes CH, Ma'ayan A. Drug/Cell-line Browser: interactive canvas visualization of cancer drug/cell-line viability assay datasets. Bioinformatics (Oxford, England). 30: 3289-90. PMID 25100688 DOI: 10.1093/bioinformatics/btu526  0.56
2013 Chen EY, Tan CM, Kou Y, Duan Q, Wang Z, Meirelles GV, Clark NR, Ma'ayan A. Enrichr: interactive and collaborative HTML5 gene list enrichment analysis tool. Bmc Bioinformatics. 14: 128. PMID 23586463 DOI: 10.1186/1471-2105-14-128  0.56
2012 Rong C, Ding X, Zhu Y, Li Y, Wang L, Qu Y, Ma X, Wang Z. Production of furfural from xylose at atmospheric pressure by dilute sulfuric acid and inorganic salts. Carbohydrate Research. 350: 77-80. PMID 22277539 DOI: 10.1016/j.carres.2011.11.023  0.48
2011 Wang L, Wang X, Zou B, Ma X, Qu Y, Rong C, Li Y, Su Y, Wang Z. Preparation of carbon black from rice husk by hydrolysis, carbonization and pyrolysis. Bioresource Technology. 102: 8220-4. PMID 21745737 DOI: 10.1016/j.biortech.2011.05.079  0.48
2011 Chen Y, Zhu Y, Wang Z, Li Y, Wang L, Ding L, Gao X, Ma Y, Guo Y. Application studies of activated carbon derived from rice husks produced by chemical-thermal process--a review. Advances in Colloid and Interface Science. 163: 39-52. PMID 21353192 DOI: 10.1016/j.cis.2011.01.006  0.48
2011 Li Y, Ding X, Guo Y, Rong C, Wang L, Qu Y, Ma X, Wang Z. A new method of comprehensive utilization of rice husk. Journal of Hazardous Materials. 186: 2151-6. PMID 21251754 DOI: 10.1016/j.jhazmat.2011.01.013  0.48
2011 Wang L, Guo Y, Zou B, Rong C, Ma X, Qu Y, Li Y, Wang Z. High surface area porous carbons prepared from hydrochars by phosphoric acid activation. Bioresource Technology. 102: 1947-50. PMID 20851598 DOI: 10.1016/j.biortech.2010.08.100  0.48
2010 Wang L, Guo Y, Zhu Y, Li Y, Qu Y, Rong C, Ma X, Wang Z. A new route for preparation of hydrochars from rice husk. Bioresource Technology. 101: 9807-10. PMID 20709533 DOI: 10.1016/j.biortech.2010.07.031  0.48
2010 Qu Y, Tian Y, Zou B, Zhang J, Zheng Y, Wang L, Li Y, Rong C, Wang Z. A novel mesoporous lignin/silica hybrid from rice husk produced by a sol-gel method. Bioresource Technology. 101: 8402-5. PMID 20594831 DOI: 10.1016/j.biortech.2010.05.067  0.48
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