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Xiangdong Fu - Publications

Affiliations: 
University of California, San Diego, La Jolla, CA 
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55 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
2023 Liang Z, Gilbreath C, Liu W, Wang Y, Zhang MQ, Zhang DE, Wu S, Fu XD. Chromatin-associated RNA Dictates the ecDNA Interactome in the Nucleus. Biorxiv : the Preprint Server For Biology. PMID 37547001 DOI: 10.1101/2023.07.27.550855  0.365
2022 Zhang C, Wang D, Hao Y, Wu S, Luo J, Xue Y, Wang D, Li G, Liu L, Shao C, Li H, Yuan J, Zhu M, Fu XD, Yang X, et al. LncRNA CCTT-mediated RNA-DNA and RNA-protein interactions facilitate the recruitment of CENP-C to centromeric DNA during kinetochore assembly. Molecular Cell. 82: 4018-4032.e9. PMID 36332605 DOI: 10.1016/j.molcel.2022.09.022  0.326
2022 Huang YJ, Chen JY, Yan M, Davis AG, Miyauchi S, Chen L, Hao Y, Katz S, Bejar R, Abdel-Wahab O, Fu XD, Zhang DE. RUNX1 deficiency cooperates with SRSF2 mutation to induce multilineage hematopoietic defects characteristic of MDS. Blood Advances. PMID 36206200 DOI: 10.1182/bloodadvances.2022007804  0.467
2022 Yuan B, Zhou X, Suzuki K, Ramos-Mandujano G, Wang M, Tehseen M, Cortés-Medina LV, Moresco JJ, Dunn S, Hernandez-Benitez R, Hishida T, Kim NY, Andijani MM, Bi C, Ku M, ... ... Fu XD, et al. Wiskott-Aldrich syndrome protein forms nuclear condensates and regulates alternative splicing. Nature Communications. 13: 3646. PMID 35752626 DOI: 10.1038/s41467-022-31220-8  0.394
2022 Zhang X, Hao Y, Fu XD. Mapping R-Loops Using Catalytically Inactive RNaseH1 (R-ChIP). Methods in Molecular Biology (Clifton, N.J.). 2528: 359-372. PMID 35704204 DOI: 10.1007/978-1-0716-2477-7_24  0.313
2022 Zhang D, Liu L, Jin S, Tota E, Li Z, Piao X, Zhang X, Fu XD, Devaraj NK. Site-Specific and Enzymatic Cross-Linking of sgRNA Enables Wavelength-Selectable Photoactivated Control of CRISPR Gene Editing. Journal of the American Chemical Society. PMID 35257575 DOI: 10.1021/jacs.1c12166  0.329
2021 Lin R, Zhong X, Zhou Y, Geng H, Hu Q, Huang Z, Hu J, Fu XD, Chen L, Chen JY. R-loopBase: a knowledgebase for genome-wide R-loop formation and regulation. Nucleic Acids Research. PMID 34792163 DOI: 10.1093/nar/gkab1103  0.425
2021 Li L, Luo H, Lim DH, Han L, Li Y, Fu XD, Qi Y. Global profiling of RNA-chromatin interactions reveals co-regulatory gene expression networks in Arabidopsis. Nature Plants. 7: 1364-1378. PMID 34650265 DOI: 10.1038/s41477-021-01004-x  0.367
2021 Qiu Z, Zhao L, Shen JZ, Liang Z, Wu Q, Yang K, Min L, Gimple RC, Yang Q, Bhargava S, Jin C, Kim C, Hinz D, Dixit D, Bernatchez JA, ... ... Fu XD, et al. Transcription Elongation Machinery Is a Druggable Dependency and Potentiates Immunotherapy in Glioblastoma Stem Cells. Cancer Discovery. PMID 34615656 DOI: 10.1158/2159-8290.CD-20-1848  0.303
2021 Davis AG, Einstein JM, Zheng D, Jayne ND, Fu XD, Tian B, Yeo GW, Zhang DE. A CRISPR RNA-binding protein screen reveals regulators of RUNX1 isoform generation. Blood Advances. 5: 1310-1323. PMID 33656539 DOI: 10.1182/bloodadvances.2020002090  0.372
2021 Van Nostrand EL, Freese P, Pratt GA, Wang X, Wei X, Xiao R, Blue SM, Chen JY, Cody NAL, Dominguez D, Olson S, Sundararaman B, Zhan L, Bazile C, Bouvrette LPB, ... ... Fu XD, et al. Author Correction: A large-scale binding and functional map of human RNA-binding proteins. Nature. PMID 33402748 DOI: 10.1038/s41586-020-03067-w  0.462
2020 Hao Y, Wang D, Wu S, Li X, Shao C, Zhang P, Chen JY, Lim DH, Fu XD, Chen R, He S. Active retrotransposons help maintain pericentromeric heterochromatin required for faithful cell division. Genome Research. PMID 33060173 DOI: 10.1101/gr.256131.119  0.502
2020 Xu J, Wang W, Xu L, Chen JY, Chong J, Oh J, Leschziner AE, Fu XD, Wang D. Cockayne syndrome B protein acts as an ATP-dependent processivity factor that helps RNA polymerase II overcome nucleosome barriers. Proceedings of the National Academy of Sciences of the United States of America. PMID 32989164 DOI: 10.1073/pnas.2013379117  0.466
2020 Gao K, Cheng M, Zuo X, Lin J, Hoogewijs K, Murphy MP, Fu XD, Zhang X. Active RNA interference in mitochondria. Cell Research. PMID 32807841 DOI: 10.1038/S41422-020-00394-5  0.317
2020 Van Nostrand EL, Freese P, Pratt GA, Wang X, Wei X, Xiao R, Blue SM, Chen JY, Cody NAL, Dominguez D, Olson S, Sundararaman B, Zhan L, Bazile C, Bouvrette LPB, ... ... Fu XD, et al. A large-scale binding and functional map of human RNA-binding proteins. Nature. 583: 711-719. PMID 32728246 DOI: 10.1038/S41586-020-2077-3  0.541
2020 Van Nostrand EL, Pratt GA, Yee BA, Wheeler EC, Blue SM, Mueller J, Park SS, Garcia KE, Gelboin-Burkhart C, Nguyen TB, Rabano I, Stanton R, Sundararaman B, Wang R, Fu XD, et al. Principles of RNA processing from analysis of enhanced CLIP maps for 150 RNA binding proteins. Genome Biology. 21: 90. PMID 32252787 DOI: 10.1186/S13059-020-01982-9  0.34
2020 Fu XD. RNA helicases regulate RNA condensates. Cell Research. PMID 32152418 DOI: 10.1038/S41422-020-0296-7  0.326
2020 Chen JY, Lim DH, Fu XD. Mechanistic Dissection of RNA-Binding Proteins in Regulated Gene Expression at Chromatin Levels. Cold Spring Harbor Symposia On Quantitative Biology. PMID 31900328 DOI: 10.1101/Sqb.2019.84.039222  0.556
2019 Xiao R, Chen JY, Liang Z, Luo D, Chen G, Lu ZJ, Chen Y, Zhou B, Li H, Du X, Yang Y, San M, Wei X, Liu W, Lécuyer E, ... ... Fu XD, et al. Pervasive Chromatin-RNA Binding Protein Interactions Enable RNA-Based Regulation of Transcription. Cell. 178: 107-121.e18. PMID 31251911 DOI: 10.1016/J.Cell.2019.06.001  0.557
2019 Zhou B, Li X, Luo D, Lim DH, Zhou Y, Fu XD. GRID-seq for comprehensive analysis of global RNA-chromatin interactions. Nature Protocols. PMID 31175345 DOI: 10.1038/S41596-019-0172-4  0.355
2019 Li X, Fu XD. Chromatin-associated RNAs as facilitators of functional genomic interactions. Nature Reviews. Genetics. PMID 31160792 DOI: 10.1038/S41576-019-0135-1  0.388
2019 Chen JY, Zhang X, Fu XD, Chen L. R-ChIP for genome-wide mapping of R-loops by using catalytically inactive RNASEH1. Nature Protocols. PMID 30996261 DOI: 10.1038/S41596-019-0154-6  0.502
2019 Liu C, Spinozzi S, Chen JY, Fang X, Feng W, Perkins G, Cattaneo P, Guimarães-Camboa N, Dalton ND, Peterson KL, Wu T, Ouyang K, Fu XD, Evans SM, Chen J. Nexilin is a New Component of Junctional Membrane Complexes Required for Cardiac T-Tubule Formation. Circulation. PMID 30982350 DOI: 10.1161/Circulationaha.119.039751  0.36
2018 Bao X, Guo X, Yin M, Tariq M, Lai Y, Kanwal S, Zhou J, Li N, Lv Y, Pulido-Quetglas C, Wang X, Ji L, Khan MJ, Zhu X, Luo Z, ... ... Fu XD, et al. Capturing the interactome of newly transcribed RNA. Nature Methods. PMID 29431736 DOI: 10.1038/Nmeth.4595  0.346
2018 Chen L, Chen JY, Huang YJ, Gu Y, Qiu J, Qian H, Shao C, Zhang X, Hu J, Li H, He S, Zhou Y, Abdel-Wahab O, Zhang DE, Fu XD. The Augmented R-Loop Is a Unifying Mechanism for Myelodysplastic Syndromes Induced by High-Risk Splicing Factor Mutations. Molecular Cell. 69: 412-425.e6. PMID 29395063 DOI: 10.1016/J.Molcel.2017.12.029  0.511
2017 Chen L, Chen JY, Zhang X, Gu Y, Xiao R, Shao C, Tang P, Qian H, Luo D, Li H, Zhou Y, Zhang DE, Fu XD. R-ChIP Using Inactive RNase H Reveals Dynamic Coupling of R-loops with Transcriptional Pausing at Gene Promoters. Molecular Cell. PMID 29104020 DOI: 10.1016/J.Molcel.2017.10.008  0.519
2017 Li X, Zhou B, Chen L, Gou LT, Li H, Fu XD. GRID-seq reveals the global RNA-chromatin interactome. Nature Biotechnology. PMID 28922346 DOI: 10.1038/Nbt.3968  0.37
2016 Yi J, Shen HF, Qiu JS, Huang MF, Zhang WJ, Ding JC, Zhu XY, Zhou Y, Fu XD, Liu W. JMJD6 and U2AF65 co-regulate alternative splicing in both JMJD6 enzymatic activity dependent and independent manner. Nucleic Acids Research. PMID 27899633 DOI: 10.1093/Nar/Gkw1144  0.347
2016 Wei C, Xiao R, Chen L, Cui H, Zhou Y, Xue Y, Hu J, Zhou B, Tsutsui T, Qiu J, Li H, Tang L, Fu XD. RBFox2 Binds Nascent RNA to Globally Regulate Polycomb Complex 2 Targeting in Mammalian Genomes. Molecular Cell. 62: 982. PMID 27315558 DOI: 10.1016/j.molcel.2016.06.003  0.331
2016 Wei C, Xiao R, Chen L, Cui H, Zhou Y, Xue Y, Hu J, Zhou B, Tsutsui T, Qiu J, Li H, Fu XD. RBFox2 Binds Nascent RNA to Globally Regulate Polycomb Complex 2 Targeting in Mammalian Genomes. Molecular Cell. PMID 27211866 DOI: 10.1016/J.Molcel.2016.04.013  0.428
2015 Yarosh CA, Tapescu I, Thompson MG, Qiu J, Mallory MJ, Fu XD, Lynch KW. TRAP150 interacts with the RNA-binding domain of PSF and antagonizes splicing of numerous PSF-target genes in T cells. Nucleic Acids Research. PMID 26261210 DOI: 10.1093/Nar/Gkv816  0.354
2015 Wu T, Fu XD. Genomic functions of U2AF in constitutive and regulated splicing. Rna Biology. 12: 479-85. PMID 25901584 DOI: 10.1080/15476286.2015.1020272  0.346
2014 Fu XD. Non-coding RNA: a new frontier in regulatory biology. National Science Review. 1: 190-204. PMID 25821635 DOI: 10.1093/Nsr/Nwu008  0.324
2014 Fong N, Kim H, Zhou Y, Ji X, Qiu J, Saldi T, Diener K, Jones K, Fu XD, Bentley DL. Pre-mRNA splicing is facilitated by an optimal RNA polymerase II elongation rate. Genes & Development. 28: 2663-76. PMID 25452276 DOI: 10.1101/Gad.252106.114  0.314
2014 Shao C, Yang B, Wu T, Huang J, Tang P, Zhou Y, Zhou J, Qiu J, Jiang L, Li H, Chen G, Sun H, Zhang Y, Denise A, Zhang DE, ... Fu XD, et al. Mechanisms for U2AF to define 3' splice sites and regulate alternative splicing in the human genome. Nature Structural & Molecular Biology. 21: 997-1005. PMID 25326705 DOI: 10.1038/Nsmb.2906  0.334
2014 Guo R, Zheng L, Park JW, Lv R, Chen H, Jiao F, Xu W, Mu S, Wen H, Qiu J, Wang Z, Yang P, Wu F, Hui J, Fu X, et al. BS69/ZMYND11 reads and connects histone H3.3 lysine 36 trimethylation-decorated chromatin to regulated pre-mRNA processing. Molecular Cell. 56: 298-310. PMID 25263594 DOI: 10.1016/J.Molcel.2014.08.022  0.323
2014 Fu XD, Ares M. Context-dependent control of alternative splicing by RNA-binding proteins. Nature Reviews. Genetics. 15: 689-701. PMID 25112293 DOI: 10.1038/Nrg3778  0.387
2013 Mo S, Ji X, Fu XD. Unique role of SRSF2 in transcription activation and diverse functions of the SR and hnRNP proteins in gene expression regulation. Transcription. 4: 251-9. PMID 24406341  0.401
2013 Lagier-Tourenne C, Baughn M, Rigo F, Sun S, Liu P, Li HR, Jiang J, Watt AT, Chun S, Katz M, Qiu J, Sun Y, Ling SC, Zhu Q, Polymenidou M, ... ... Fu XD, et al. Targeted degradation of sense and antisense C9orf72 RNA foci as therapy for ALS and frontotemporal degeneration. Proceedings of the National Academy of Sciences of the United States of America. 110: E4530-9. PMID 24170860 DOI: 10.1073/Pnas.1318835110  0.336
2013 Ji X, Zhou Y, Pandit S, Huang J, Li H, Lin CY, Xiao R, Burge CB, Fu XD. SR proteins collaborate with 7SK and promoter-associated nascent RNA to release paused polymerase. Cell. 153: 855-68. PMID 23663783 DOI: 10.1016/J.Cell.2013.04.028  0.365
2012 Tripathi V, Song DY, Zong X, Shevtsov SP, Hearn S, Fu XD, Dundr M, Prasanth KV. SRSF1 regulates the assembly of pre-mRNA processing factors in nuclear speckles. Molecular Biology of the Cell. 23: 3694-706. PMID 22855529 DOI: 10.1091/mbc.E12-03-0206  0.362
2012 Ji X, Fu XD. The mediator couples transcription and splicing. Molecular Cell. 45: 433-4. PMID 22365824 DOI: 10.1016/J.Molcel.2012.02.003  0.322
2012 Xiao R, Tang P, Yang B, Huang J, Zhou Y, Shao C, Li H, Sun H, Zhang Y, Fu XD. Nuclear matrix factor hnRNP U/SAF-A exerts a global control of alternative splicing by regulating U2 snRNP maturation. Molecular Cell. 45: 656-68. PMID 22325991 DOI: 10.1016/J.Molcel.2012.01.009  0.342
2011 Wang D, Garcia-Bassets I, Benner C, Li W, Su X, Zhou Y, Qiu J, Liu W, Kaikkonen MU, Ohgi KA, Glass CK, Rosenfeld MG, Fu XD. Reprogramming transcription by distinct classes of enhancers functionally defined by eRNA. Nature. 474: 390-4. PMID 21572438 DOI: 10.1038/Nature10006  0.329
2011 Fox-Walsh K, Davis-Turak J, Zhou Y, Li H, Fu XD. A multiplex RNA-seq strategy to profile poly(A+) RNA: application to analysis of transcription response and 3' end formation. Genomics. 98: 266-71. PMID 21515359 DOI: 10.1016/J.Ygeno.2011.04.003  0.342
2011 Han J, Xiong J, Wang D, Fu XD. Pre-mRNA splicing: where and when in the nucleus. Trends in Cell Biology. 21: 336-43. PMID 21514162 DOI: 10.1016/J.Tcb.2011.03.003  0.378
2011 Ahn EY, DeKelver RC, Lo MC, Nguyen TA, Matsuura S, Boyapati A, Pandit S, Fu XD, Zhang DE. SON controls cell-cycle progression by coordinated regulation of RNA splicing. Molecular Cell. 42: 185-98. PMID 21504830 DOI: 10.1016/j.molcel.2011.03.014  0.368
2011 Huang C, Xie MH, Liu W, Yang B, Yang F, Huang J, Huang J, Wu Q, Fu XD, Zhang Y. A structured RNA in hepatitis B virus post-transcriptional regulatory element represses alternative splicing in a sequence-independent and position-dependent manner. The Febs Journal. 278: 1533-46. PMID 21371260 DOI: 10.1111/J.1742-4658.2011.08077.X  0.339
2011 Lovci MT, Li HR, Fu XD, Yeo GW. RNA-seq analysis of gene expression and alternative splicing by double-random priming strategy. Methods in Molecular Biology (Clifton, N.J.). 729: 247-55. PMID 21365495 DOI: 10.1007/978-1-61779-065-2_16  0.317
2009 Xue Y, Zhou Y, Wu T, Zhu T, Ji X, Kwon YS, Zhang C, Yeo G, Black DL, Sun H, Fu XD, Zhang Y. Genome-wide analysis of PTB-RNA interactions reveals a strategy used by the general splicing repressor to modulate exon inclusion or skipping. Molecular Cell. 36: 996-1006. PMID 20064465 DOI: 10.1016/J.Molcel.2009.12.003  0.404
2009 Zhong XY, Wang P, Han J, Rosenfeld MG, Fu XD. SR proteins in vertical integration of gene expression from transcription to RNA processing to translation. Molecular Cell. 35: 1-10. PMID 19595711 DOI: 10.1016/J.Molcel.2009.06.016  0.396
2009 Yeo GW, Coufal NG, Liang TY, Peng GE, Fu XD, Gage FH. An RNA code for the FOX2 splicing regulator revealed by mapping RNA-protein interactions in stem cells. Nature Structural & Molecular Biology. 16: 130-7. PMID 19136955 DOI: 10.1038/Nsmb.1545  0.369
2008 Lin S, Coutinho-Mansfield G, Wang D, Pandit S, Fu XD. The splicing factor SC35 has an active role in transcriptional elongation. Nature Structural & Molecular Biology. 15: 819-26. PMID 18641664 DOI: 10.1038/Nsmb.1461  0.378
2008 Pandit S, Wang D, Fu XD. Functional integration of transcriptional and RNA processing machineries. Current Opinion in Cell Biology. 20: 260-5. PMID 18436438 DOI: 10.1016/J.Ceb.2008.03.001  0.361
2007 Xiao R, Sun Y, Ding JH, Lin S, Rose DW, Rosenfeld MG, Fu XD, Li X. Splicing regulator SC35 is essential for genomic stability and cell proliferation during mammalian organogenesis. Molecular and Cellular Biology. 27: 5393-402. PMID 17526736 DOI: 10.1128/Mcb.00288-07  0.321
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