Zefeng Wang - Publications

Affiliations: 
CAS-MPG Partner Institute for Computation Biology 
Area:
RNA splicing, RNA processing, Computational biology

68 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
2022 Han W, Huang W, Wei T, Ye Y, Mao M, Wang Z. Programmable RNA base editing with a single gRNA-free enzyme. Nucleic Acids Research. PMID 36029126 DOI: 10.1093/nar/gkac713  0.606
2022 Zhang S, Mao M, Lv Y, Yang Y, He W, Song Y, Wang Y, Yang Y, Al Abo M, Freedman JA, Patierno SR, Wang Y, Wang Z. A widespread length-dependent splicing dysregulation in cancer. Science Advances. 8: eabn9232. PMID 35977015 DOI: 10.1126/sciadv.abn9232  0.785
2022 Fan X, Yang Y, Chen C, Wang Z. Pervasive translation of circular RNAs driven by short IRES-like elements. Nature Communications. 13: 3751. PMID 35768398 DOI: 10.1038/s41467-022-31327-y  0.779
2022 O'Neill AC, Uzbas F, Antognolli G, Merino F, Draganova K, Jäck A, Zhang S, Pedini G, Schessner JP, Cramer K, Schepers A, Metzger F, Esgleas M, Smialowski P, Guerrini R, ... ... Wang Z, et al. Spatial centrosome proteome of human neural cells uncovers disease-relevant heterogeneity. Science (New York, N.Y.). 376: eabf9088. PMID 35709258 DOI: 10.1126/science.abf9088  0.76
2022 Wang JZ, Zhu H, You P, Liu H, Wang WK, Fan X, Yang Y, Xu K, Zhu Y, Li Q, Wu P, Peng C, Wong CC, Li K, Shi Y, ... ... Wang Z, et al. Up-regulated YB-1 protein promotes glioblastoma growth through an YB-1/CCT4/mLST8/mTOR pathway. The Journal of Clinical Investigation. PMID 35239512 DOI: 10.1172/JCI146536  0.78
2022 Ling Y, Cao R, Qian J, Li J, Zhou H, Yuan L, Wang Z, Ma L, Zheng G, Zhao G, Wang Z, Zhang G, Li Y. An interactive viral genome evolution network analysis system enabling rapid large-scale molecular tracing of SARS-CoV-2. Science Bulletin. PMID 35036033 DOI: 10.1016/j.scib.2022.01.001  0.734
2021 Wei HH, Fan XJ, Hu Y, Tian XX, Guo M, Mao MW, Fang ZY, Wu P, Gao SX, Peng C, Yang Y, Wang Z. A systematic survey of PRMT interactomes reveals the key roles of arginine methylation in the global control of RNA splicing and translation. Science Bulletin. 66: 1342-1357. PMID 36654156 DOI: 10.1016/j.scib.2021.01.004  0.72
2021 Ye Y, Wang Z, Yang Y. Comprehensive Identification of Translatable Circular RNAs Using Polysome Profiling. Bio-Protocol. 11: e4167. PMID 34692916 DOI: 10.21769/BioProtoc.4167  0.664
2021 Pan X, Zhao J, Zhou Z, Chen J, Yang Z, Wu Y, Bai M, Jiao Y, Yang Y, Hu X, Cheng T, Lu Q, Wang B, Li CL, Lu YJ, ... ... Wang Z, et al. 5'-UTR SNP of causes translational defect and intellectual disability. Elife. 10. PMID 34184986 DOI: 10.7554/eLife.63021  0.762
2021 Fan W, Tang S, Fan X, Fang Y, Xu X, Li L, Xu J, Li JL, Wang Z, Li X. SIRT1 regulates sphingolipid metabolism and neural differentiation of mouse embryonic stem cells through c-Myc- SMPDL3B. Elife. 10. PMID 34042046 DOI: 10.7554/eLife.67452  0.735
2021 Chen C, Yang Y, Wang Z. Study of circular RNA translation using reporter systems in living cells. Methods (San Diego, Calif.). PMID 33753224 DOI: 10.1016/j.ymeth.2021.03.011  0.649
2021 Li S, Wang H, Jehi S, Li J, Liu S, Wang Z, Truong L, Chiba T, Wang Z, Wu X. PIF1 helicase promotes break-induced replication in mammalian cells. The Embo Journal. e104509. PMID 33470420 DOI: 10.15252/embj.2020104509  0.536
2020 Zhang S, Bao Y, Shen X, Pan Y, Sun Y, Xiao M, Chen K, Wei H, Zuo J, Saffen D, Zong WX, Sun Y, Wang Z, Wang Y. RNA binding motif protein 10 suppresses lung cancer progression by controlling alternative splicing of eukaryotic translation initiation factor 4H. Ebiomedicine. 61: 103067. PMID 33130397 DOI: 10.1016/j.ebiom.2020.103067  0.777
2020 Huang W, Ling Y, Zhang S, Xia Q, Cao R, Fan X, Fang Z, Wang Z, Zhang G. TransCirc: an interactive database for translatable circular RNAs based on multi-omics evidence. Nucleic Acids Research. PMID 33074314 DOI: 10.1093/nar/gkaa823  0.788
2020 Esgleas M, Falk S, Forné I, Thiry M, Najas S, Zhang S, Mas-Sanchez A, Geerlof A, Niessing D, Wang Z, Imhof A, Götz M. Trnp1 organizes diverse nuclear membrane-less compartments in neural stem cells. The Embo Journal. e103373. PMID 32627867 DOI: 10.15252/Embj.2019103373  0.747
2020 Wang Y, Bao Y, Zhang S, Wang Z. Splicing dysregulation in cancer: from mechanistic understanding to a new class of therapeutic targets. Science China. Life Sciences. PMID 32086672 DOI: 10.1007/S11427-019-1605-0  0.762
2020 Li Y, Liu X, Guo Y, Xie J, Wang L, Chen Q, Wang G, Wang Z, Gao H. Secondary mutation-induced alternative splicing suppresses RNA splicing defect of the jing he sheng1 mutant. Plant Physiology. PMID 32054782 DOI: 10.1104/pp.19.01571  0.587
2019 Bindereif A, Wang Z. A joint adventure of Sino-German researchers to explore the wild world of RNAs. Journal of Molecular Cell Biology. PMID 31638144 DOI: 10.1093/jmcb/mjz097  0.554
2019 Yang Y, Wang Z. IRES-mediated cap-independent translation, a path leading to hidden proteome. Journal of Molecular Cell Biology. PMID 31504667 DOI: 10.1093/Jmcb/Mjz091  0.642
2018 Mao M, Hu Y, Yang Y, Qian Y, Wei H, Fan W, Yang Y, Li X, Wang Z. Modeling and Predicting the Activities of Trans-Acting Splicing Factors with Machine Learning. Cell Systems. PMID 30414922 DOI: 10.1016/J.Cels.2018.09.002  0.651
2018 Wang Z. Diverse roles of regulatory non-coding RNAs. Journal of Molecular Cell Biology. 10: 91-92. PMID 29762766 DOI: 10.1093/Jmcb/Mjy026  0.564
2018 Wang L, Wrobel JA, Xie L, Li D, Zurlo G, Shen H, Yang P, Wang Z, Peng Y, Gunawardena HP, Zhang Q, Chen X. Novel RNA-Affinity Proteogenomics Dissects Tumor Heterogeneity for Revealing Personalized Markers in Precision Prognosis of Cancer. Cell Chemical Biology. PMID 29503206 DOI: 10.1016/J.Chembiol.2018.01.016  0.562
2018 Zhao YY, Mao MW, Zhang WJ, Wang J, Li HT, Yang Y, Wang Z, Wu JW. Expanding RNA binding specificity and affinity of engineered PUF domains. Nucleic Acids Research. PMID 29490074 DOI: 10.1093/Nar/Gky134  0.586
2018 Yang Y, Wang Z. Constructing GFP-Based Reporter to Study Back Splicing and Translation of Circular RNA. Methods in Molecular Biology (Clifton, N.J.). 1724: 107-118. PMID 29322444 DOI: 10.1007/978-1-4939-7562-4_9  0.664
2017 Song X, Zeng Z, Wei H, Wang Z. Alternative splicing in cancers: From aberrant regulation to new therapeutics. Seminars in Cell & Developmental Biology. PMID 28919308 DOI: 10.1016/J.Semcdb.2017.09.018  0.603
2017 Sun Y, Bao Y, Han W, Song F, Shen X, Zhao J, Zuo J, Saffen D, Chen W, Wang Z, You X, Wang Y. Autoregulation of RBM10 and cross-regulation of RBM10/RBM5 via alternative splicing-coupled nonsense-mediated decay. Nucleic Acids Research. PMID 28586478 DOI: 10.1093/Nar/Gkx508  0.599
2017 Wei HH, Liu Y, Wang Y, Lu Q, Yang X, Li J, Wang Z. Engineering Artificial Factors to Specifically Manipulate Alternative Splicing in Human Cells. Journal of Visualized Experiments : Jove. PMID 28518098 DOI: 10.3791/54967  0.789
2017 Yang Y, Fan X, Mao M, Song X, Wu P, Zhang Y, Jin Y, Yang Y, Chen L, Wang Y, Wong CC, Xiao X, Wang Z. Extensive translation of circular RNAs driven by N(6)-methyladenosine. Cell Research. PMID 28281539 DOI: 10.1038/Cr.2017.31  0.792
2017 Wang F, Fu X, Chen P, Wu P, Fan X, Li N, Zhu H, Jia TT, Ji H, Wang Z, Wong CC, Hu R, Hui J. SPSB1-mediated HnRNP A1 ubiquitylation regulates alternative splicing and cell migration in EGF signaling. Cell Research. PMID 28084329 DOI: 10.1038/Cr.2017.7  0.739
2016 Hu J, Khodadadi-Jamayran A, Mao M, Shah K, Yang Z, Nasim MT, Wang Z, Jiang H. AKAP95 regulates splicing through scaffolding RNAs and RNA processing factors. Nature Communications. 7: 13347. PMID 27824034 DOI: 10.1038/Ncomms13347  0.613
2016 Mao H, McMahon JJ, Tsai YH, Wang Z, Silver DL. Haploinsufficiency for Core Exon Junction Complex Components Disrupts Embryonic Neurogenesis and Causes p53-Mediated Microcephaly. Plos Genetics. 12: e1006282. PMID 27618312 DOI: 10.1371/Journal.Pgen.1006282  0.574
2016 Dominguez D, Tsai YH, Gomez N, Jha DK, Davis I, Wang Z. A high-resolution transcriptome map of cell cycle reveals novel connections between periodic genes and cancer. Cell Research. PMID 27364684 DOI: 10.1038/Cr.2016.84  0.755
2016 Li R, Dong Q, Yuan X, Zeng X, Gao Y, Chiao C, Li H, Zhao X, Keles S, Wang Z, Chang Q. Misregulation of Alternative Splicing in a Mouse Model of Rett Syndrome. Plos Genetics. 12: e1006129. PMID 27352031 DOI: 10.1371/Journal.Pgen.1006129  0.601
2016 Qi Y, Yu J, Han W, Fan X, Qian H, Wei H, Tsai YH, Zhao J, Zhang W, Liu Q, Meng S, Wang Y, Wang Z. A splicing isoform of TEAD4 attenuates the Hippo-YAP signalling to inhibit tumour proliferation. Nature Communications. 7: ncomms11840. PMID 27291620 DOI: 10.1038/Ncomms11840  0.756
2016 Dominguez D, Tsai YH, Weatheritt R, Wang Y, Blencowe BJ, Wang Z. An extensive program of periodic alternative splicing linked to cell cycle progression. Elife. 5. PMID 27015110 DOI: 10.7554/Elife.10288  0.753
2016 Wang Y, Wang Z. Design of RNA-Binding Proteins: Manipulate Alternative Splicing in Human Cells with Artificial Splicing Factors. Methods in Molecular Biology (Clifton, N.J.). 1421: 227-41. PMID 26965269 DOI: 10.1007/978-1-4939-3591-8_18  0.628
2015 Du P, Miao C, Lou Q, Wang Z, Lou C. Engineering translational activators with CRISPR-Cas system. Acs Synthetic Biology. PMID 26414660 DOI: 10.1021/Acssynbio.5B00130  0.592
2015 Wei H, Wang Z. Engineering RNA-binding proteins with diverse activities. Wiley Interdisciplinary Reviews. Rna. PMID 26329122 DOI: 10.1002/Wrna.1296  0.598
2015 Szempruch AJ, Choudhury R, Wang Z, Hajduk SL. In vivo analysis of trypanosome mitochondrial RNA function by artificial site-specific RNA endonuclease-mediated knockdown. Rna (New York, N.Y.). PMID 26264591 DOI: 10.1261/Rna.052084.115  0.58
2015 Tsai YS, Dominguez D, Gomez SM, Wang Z. Transcriptome-wide identification and study of cancer-specific splicing events across multiple tumors. Oncotarget. 6: 6825-39. PMID 25749525 DOI: 10.18632/Oncotarget.3145  0.74
2015 Wang Z. Not just a sponge: new functions of circular RNAs discovered. Science China. Life Sciences. 58: 407-8. PMID 25680857 DOI: 10.1007/S11427-015-4826-3  0.574
2015 Wang Y, Wang Z. Efficient backsplicing produces translatable circular mRNAs. Rna (New York, N.Y.). 21: 172-9. PMID 25449546 DOI: 10.1261/Rna.048272.114  0.627
2014 Wang Y, Chen D, Qian H, Tsai YS, Shao S, Liu Q, Dominguez D, Wang Z. The splicing factor RBM4 controls apoptosis, proliferation, and migration to suppress tumor progression. Cancer Cell. 26: 374-89. PMID 25203323 DOI: 10.1016/J.Ccr.2014.07.010  0.75
2014 Choudhury R, Wang Z. Manipulation of RNA using engineered proteins with customized specificity. Advances in Experimental Medicine and Biology. 825: 199-225. PMID 25201107 DOI: 10.1007/978-1-4939-1221-6_6  0.601
2014 Tsai YS, Gomez SM, Wang Z. Prevalent RNA recognition motif duplication in the human genome. Rna (New York, N.Y.). 20: 702-12. PMID 24667216 DOI: 10.1261/Rna.044081.113  0.594
2014 Matera AG, Wang Z. A day in the life of the spliceosome. Nature Reviews. Molecular Cell Biology. 15: 108-21. PMID 24452469 DOI: 10.1038/Nrm3742  0.584
2014 Choudhury R, Roy SG, Tsai YS, Tripathy A, Graves LM, Wang Z. The splicing activator DAZAP1 integrates splicing control into MEK/Erk-regulated cell proliferation and migration. Nature Communications. 5: 3078. PMID 24452013 DOI: 10.1038/Ncomms4078  0.61
2014 Zhang W, Wang Y, Dong S, Choudhury R, Jin Y, Wang Z. Treatment of type 1 myotonic dystrophy by engineering site-specific RNA endonucleases that target (CUG)(n) repeats. Molecular Therapy : the Journal of the American Society of Gene Therapy. 22: 312-20. PMID 24196578 DOI: 10.1038/Mt.2013.251  0.625
2014 Wang Y, Wang Z. Systematical identification of splicing regulatory cis-elements and cognate trans-factors. Methods (San Diego, Calif.). 65: 350-8. PMID 23974071 DOI: 10.1016/J.Ymeth.2013.08.019  0.615
2013 Wang Y, Wang Z, Tanaka Hall TM. Engineered proteins with Pumilio/fem-3 mRNA binding factor scaffold to manipulate RNA metabolism. The Febs Journal. 280: 3755-67. PMID 23731364 DOI: 10.1111/Febs.12367  0.627
2013 Wang Y, Xiao X, Zhang J, Choudhury R, Robertson A, Li K, Ma M, Burge CB, Wang Z. A complex network of factors with overlapping affinities represses splicing through intronic elements Nature Structural and Molecular Biology. 20: 36-45. PMID 23241926 DOI: 10.1038/Nsmb.2459  0.789
2012 Choudhury R, Tsai YS, Dominguez D, Wang Y, Wang Z. Engineering RNA endonucleases with customized sequence specificities. Nature Communications. 3: 1147. PMID 23093184 DOI: 10.1038/Ncomms2154  0.775
2012 Wang Y, Ma M, Xiao X, Wang Z. Intronic splicing enhancers, cognate splicing factors and context-dependent regulation rules. Nature Structural & Molecular Biology. 19: 1044-52. PMID 22983564 DOI: 10.1038/Nsmb.2377  0.735
2012 Zhu H, Urban DJ, Blashka J, McPheeters MT, Kroeze WK, Mieczkowski P, Overholser JC, Jurjus GJ, Dieter L, Mahajan GJ, Rajkowska G, Wang Z, Sullivan PF, Stockmeier CA, Roth BL. Quantitative analysis of focused a-to-I RNA editing sites by ultra-high-throughput sequencing in psychiatric disorders. Plos One. 7: e43227. PMID 22912834 DOI: 10.1371/Journal.Pone.0043227  0.589
2011 Dong S, Wang Y, Cassidy-Amstutz C, Lu G, Bigler R, Jezyk MR, Li C, Hall TM, Wang Z. Specific and modular binding code for cytosine recognition in Pumilio/FBF (PUF) RNA-binding domains. The Journal of Biological Chemistry. 286: 26732-42. PMID 21653694 DOI: 10.1074/Jbc.M111.244889  0.616
2010 Burd CE, Jeck WR, Liu Y, Sanoff HK, Wang Z, Sharpless NE. Expression of linear and novel circular forms of an INK4/ARF-associated non-coding RNA correlates with atherosclerosis risk. Plos Genetics. 6: e1001233. PMID 21151960 DOI: 10.1371/Journal.Pgen.1001233  0.585
2010 Abbas AI, Urban DJ, Jensen NH, Farrell MS, Kroeze WK, Mieczkowski P, Wang Z, Roth BL. Assessing serotonin receptor mRNA editing frequency by a novel ultra high-throughput sequencing method. Nucleic Acids Research. 38: e118. PMID 20185571 DOI: 10.1093/Nar/Gkq107  0.526
2009 Wang Y, Cheong CG, Hall TM, Wang Z. Engineering splicing factors with designed specificities. Nature Methods. 6: 825-30. PMID 19801992 DOI: 10.1038/Nmeth.1379  0.624
2009 Xiao X, Wang Z, Jang M, Nutiu R, Wang ET, Burge CB. Splice site strength-dependent activity and genetic buffering by poly-G runs Nature Structural and Molecular Biology. 16: 1094-1100. PMID 19749754 DOI: 10.1038/Nsmb.1661  0.796
2008 Wang Z, Burge CB. Splicing regulation: From a parts list of regulatory elements to an integrated splicing code Rna. 14: 802-813. PMID 18369186 DOI: 10.1261/Rna.876308  0.717
2007 Xiao X, Wang Z, Jang M, Burge CB. Coevolutionary networks of splicing cis-regulatory elements Proceedings of the National Academy of Sciences of the United States of America. 104: 18583-18588. PMID 17998536 DOI: 10.1073/Pnas.0707349104  0.771
2006 Wang Z, Xiao X, Van Nostrand E, Burge CB. General and Specific Functions of Exonic Splicing Silencers in Splicing Control Molecular Cell. 23: 61-70. PMID 16797197 DOI: 10.1016/J.Molcel.2006.05.018  0.755
2006 Wang XL, Zhang YJ, Chen MX, Wang ZF. [Optimization study on extraction technology of the seed of Ziziphus jujuba var. spinosa by orthogonal design with multi-targets]. Zhongguo Zhong Yao Za Zhi = Zhongguo Zhongyao Zazhi = China Journal of Chinese Materia Medica. 30: 753-5. PMID 16075714  0.428
2004 Wang Z, Rolish ME, Yeo G, Tung V, Mawson M, Burge CB. Systematic identification and analysis of exonic splicing silencers Cell. 119: 831-845. PMID 15607979 DOI: 10.1016/J.Cell.2004.11.010  0.757
2003 Drew ME, Morris JC, Wang Z, Wells L, Sanchez M, Landfear SM, Englund PT. The adenosine analog tubercidin inhibits glycolysis in Trypanosoma brucei as revealed by an RNA interference library. The Journal of Biological Chemistry. 278: 46596-600. PMID 12972414 DOI: 10.1074/Jbc.M309320200  0.776
2002 Wang Z, Drew ME, Morris JC, Englund PT. Asymmetrical division of the kinetoplast DNA network of the trypanosome. The Embo Journal. 21: 4998-5005. PMID 12234939 DOI: 10.1093/Emboj/Cdf482  0.761
2002 Morris JC, Wang Z, Drew ME, Englund PT. Glycolysis modulates trypanosome glycoprotein expression as revealed by an RNAi library. The Embo Journal. 21: 4429-38. PMID 12198145 DOI: 10.1093/Emboj/Cdf474  0.788
2002 Grams J, Morris JC, Drew ME, Wang Z, Englund PT, Hajduk SL. A trypanosome mitochondrial RNA polymerase is required for transcription and replication. The Journal of Biological Chemistry. 277: 16952-9. PMID 11859084 DOI: 10.1074/Jbc.M200662200  0.788
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