Xiang-Dong Fu

InstitutionUniversity of California San Diego
DepartmentCellular and Molecular Medicine
Address9500 Gilman Drive #0651
La Jolla CA 92093
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    Our laboratory is interested in molecular and cell biology of RNA processing; focus on SR proteins, SR protein kinases, and microarray analysis of alternative splicing in development and disease.

    Research Focus Areas:

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    Synergestic roles of SRSF2 and RUNX1 in blood cell development and pathology
    NIH/NIDDK R01DK098808Sep 16, 2013 - Jun 30, 2018
    Role: Principal Investigator
    Illumina Genome Analyzer II
    NIH/NCRR S10RR025547Feb 15, 2009 - Feb 14, 2010
    Role: Principal Investigator
    Functional RNA elements in the human genome
    NIH/NHGRI R01HG004659Jun 1, 2008 - Jun 30, 2020
    Role: Principal Investigator
    Typing the Transcriptome in Cancer Using Splicing Array
    NIH/NCI R33CA114184Jun 1, 2005 - May 31, 2009
    Role: Principal Investigator
    A novel ChIP-on-Chip technology for ENCODE
    NIH/NHGRI R01HG003119Sep 30, 2003 - Jul 31, 2007
    Role: Principal Investigator
    NIH/NCI R33CA088351Sep 1, 2000 - Aug 31, 2005
    Role: Principal Investigator
    NIH/NCI R21CA088351Sep 1, 2000 - Aug 31, 2001
    Role: Principal Investigator
    Regulation of RNA metabolism and cell growth control by SR protein kinases
    NIH/NIGMS R01GM052872May 1, 1996 - Apr 30, 2020
    Role: Principal Investigator
    NIH P41RR008605Apr 15, 1994 - Apr 30, 2014
    Role: Co-Investigator
    Function and regulation of the human splicing factor SC35
    NIH/NIGMS R01GM049369May 1, 1993 - Jun 30, 2019
    Role: Principal Investigator

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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help.
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    1. Liang Y, Feng Y, Zong M, Wei XF, Lee J, Feng Y, Li H, Yang GS, Wu ZJ, Fu XD, Feng GS. ß-catenin deficiency in hepatocytes aggravates hepatocarcinogenesis driven by oncogenic ß-catenin and MET. Hepatology. 2018 May; 67(5):1807-1822. PMID: 29152756.
      View in: PubMed
    2. 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. Mol Cell. 2018 Feb 01; 69(3):412-425.e6. PMID: 29395063.
      View in: PubMed
    3. 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. Mol Cell. 2017 Nov 16; 68(4):745-757.e5. PMID: 29104020.
      View in: PubMed
    4. Fu XD. Exploiting the Hidden Treasure of Detained Introns. Cancer Cell. 2017 Oct 09; 32(4):393-395. PMID: 29017049.
      View in: PubMed
    5. Li X, Zhou B, Chen L, Gou LT, Li H, Fu XD. GRID-seq reveals the global RNA-chromatin interactome. Nat Biotechnol. 2017 Oct; 35(10):940-950. PMID: 28922346.
      View in: PubMed
    6. Gou LT, Kang JY, Dai P, Wang X, Li F, Zhao S, Zhang M, Hua MM, Lu Y, Zhu Y, Li Z, Chen H, Wu LG, Li D, Fu XD, Li J, Shi HJ, Liu MF. Ubiquitination-Deficient Mutations in Human Piwi Cause Male Infertility by Impairing Histone-to-Protamine Exchange during Spermiogenesis. Cell. 2017 Jun 01; 169(6):1090-1104.e13. PMID: 28552346.
      View in: PubMed
    7. Fu XD. Both sides of the same coin: Rac1 splicing regulating by EGF signaling. Cell Res. 2017 Apr; 27(4):455-456. PMID: 28186082.
      View in: PubMed
    8. Li H, Zhang X, Wang F, Zhou L, Yin Z, Fan J, Nie X, Wang P, Fu XD, Chen C, Wang DW. MicroRNA-21 Lowers Blood Pressure in Spontaneous Hypertensive Rats by Upregulating Mitochondrial Translation. Circulation. 2016 Sep 06; 134(10):734-51. PMID: 27542393.
      View in: PubMed
    9. Qiu J, Zhou B, Thol F, Zhou Y, Chen L, Shao C, DeBoever C, Hou J, Li H, Chaturvedi A, Ganser A, Bejar R, Zhang DE, Fu XD, Heuser M. Distinct splicing signatures affect converged pathways in myelodysplastic syndrome patients carrying mutations in different splicing regulators. RNA. 2016 10; 22(10):1535-49. PMID: 27492256.
      View in: PubMed
    10. Aubol BE, Wu G, Keshwani MM, Movassat M, Fattet L, Hertel KJ, Fu XD, Adams JA. Release of SR Proteins from CLK1 by SRPK1: A Symbiotic Kinase System for Phosphorylation Control of Pre-mRNA Splicing. Mol Cell. 2016 07 21; 63(2):218-228. PMID: 27397683.
      View in: PubMed
    11. Chen L, Liu Z, Zhou B, Wei C, Zhou Y, Rosenfeld MG, Fu XD, Chisholm AD, Jin Y. CELF RNA binding proteins promote axon regeneration in C. elegans and mammals through alternative splicing of Syntaxins. Elife. 2016 06 02; 5. PMID: 27253061; PMCID: PMC4946901.
    12. 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. Mol Cell. 2016 06 16; 62(6):875-889. PMID: 27211866.
      View in: PubMed
    13. Zhang ZN, Freitas BC, Qian H, Lux J, Acab A, Trujillo CA, Herai RH, Nguyen Huu VA, Wen JH, Joshi-Barr S, Karpiak JV, Engler AJ, Fu XD, Muotri AR, Almutairi A. Layered hydrogels accelerate iPSC-derived neuronal maturation and reveal migration defects caused by MeCP2 dysfunction. Proc Natl Acad Sci U S A. 2016 Mar 22; 113(12):3185-90. PMID: 26944080; PMCID: PMC4812712.
    14. Marina RJ, Fu XD. Diabetic Insult-Induced Redistribution of MicroRNA in Spatially Organized Mitochondria in Cardiac Muscle. Circ Cardiovasc Genet. 2015 Dec; 8(6):747-8. PMID: 26671968; PMCID: PMC4683416 [Available on 12/01/16].
    15. Chen F, Zhou Y, Qi YB, Khivansara V, Li H, Chun SY, Kim JK, Fu XD, Jin Y. Context-dependent modulation of Pol II CTD phosphatase SSUP-72 regulates alternative polyadenylation in neuronal development. Genes Dev. 2015 Nov 15; 29(22):2377-90. PMID: 26588990; PMCID: PMC4691892.
    16. Wang L, Zhou Y, Xu L, Xiao R, Lu X, Chen L, Chong J, Li H, He C, Fu XD, Wang D. Molecular basis for 5-carboxycytosine recognition by RNA polymerase II elongation complex. Nature. 2015 Jul 30; 523(7562):621-5. PMID: 26123024; PMCID: PMC4521995.
    17. Komeno Y, Huang YJ, Qiu J, Lin L, Xu Y, Zhou Y, Chen L, Monterroza DD, Li H, DeKelver RC, Yan M, Fu XD, Zhang DE. SRSF2 Is Essential for Hematopoiesis, and Its Myelodysplastic Syndrome-Related Mutations Dysregulate Alternative Pre-mRNA Splicing. Mol Cell Biol. 2015 Sep 01; 35(17):3071-82. PMID: 26124281; PMCID: PMC4525309.
    18. Fu XD. Yes, SiR. RNA. 2015 Apr; 21(4):619-21. PMID: 25780164; PMCID: PMC4371306.
    19. Chang AT, Liu Y, Ayyanathan K, Benner C, Jiang Y, Prokop JW, Paz H, Wang D, Li HR, Fu XD, Rauscher FJ, Yang J. An evolutionarily conserved DNA architecture determines target specificity of the TWIST family bHLH transcription factors. Genes Dev. 2015 Mar 15; 29(6):603-16. PMID: 25762439; PMCID: PMC4378193.
    20. Wei C, Qiu J, Zhou Y, Xue Y, Hu J, Ouyang K, Banerjee I, Zhang C, Chen B, Li H, Chen J, Song LS, Fu XD. Repression of the Central Splicing Regulator RBFox2 Is Functionally Linked to Pressure Overload-Induced Heart Failure. Cell Rep. 2015 Mar 03. PMID: 25753418.
      View in: PubMed
    21. Keshwani MM, Aubol BE, Fattet L, Ma CT, Qiu J, Jennings PA, Fu XD, Adams JA. Conserved proline-directed phosphorylation regulates SR protein conformation and splicing function. Biochem J. 2015 Mar 01; 466(2):311-22. PMID: 25529026.
      View in: PubMed
    22. Sun S, Ling SC, Qiu J, Albuquerque CP, Zhou Y, Tokunaga S, Li H, Qiu H, Bui A, Yeo GW, Huang EJ, Eggan K, Zhou H, Fu XD, Lagier-Tourenne C, Cleveland DW. ALS-causative mutations in FUS/TLS confer gain and loss of function by altered association with SMN and U1-snRNP. Nat Commun. 2015 Jan 27; 6:6171. PMID: 25625564.
      View in: PubMed
    23. Wu T, Fu XD. Genomic functions of U2AF in constitutive and regulated splicing. RNA Biol. 2015; 12(5):479-85. PMID: 25901584; PMCID: PMC4615725.
    24. Aubol BE, Plocinik RM, Keshwani MM, McGlone ML, Hagopian JC, Ghosh G, Fu XD, Adams JA. N-terminus of the protein kinase CLK1 induces SR protein hyperphosphorylation. Biochem J. 2014 Aug 15; 462(1):143-52. PMID: 24869919.
      View in: PubMed
    25. Fu XD, Ares M. Context-dependent control of alternative splicing by RNA-binding proteins. Nat Rev Genet. 2014 Oct; 15(10):689-701. PMID: 25112293; PMCID: PMC4440546.
    26. Ouyang H, Xue Y, Lin Y, Zhang X, Xi L, Patel S, Cai H, Luo J, Zhang M, Zhang M, Yang Y, Li G, Li H, Jiang W, Yeh E, Lin J, Pei M, Zhu J, Cao G, Zhang L, Yu B, Chen S, Fu XD, Liu Y, Zhang K. WNT7A and PAX6 define corneal epithelium homeostasis and pathogenesis. Nature. 2014 Jul 17; 511(7509):358-61. PMID: 25030175; PMCID: PMC4610745.
    27. Fu XD. Non-coding RNA: a new frontier in regulatory biology. Natl Sci Rev. 2014 Jun 01; 1(2):190-204. PMID: 25821635.
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    28. Schaffer AE, Eggens VR, Caglayan AO, Reuter MS, Scott E, Coufal NG, Silhavy JL, Xue Y, Kayserili H, Yasuno K, Rosti RO, Abdellateef M, Caglar C, Kasher PR, Cazemier JL, Weterman MA, Cantagrel V, Cai N, Zweier C, Altunoglu U, Satkin NB, Aktar F, Tuysuz B, Yalcinkaya C, Caksen H, Bilguvar K, Fu XD, Trotta CR, Gabriel S, Reis A, Gunel M, Baas F, Gleeson JG. CLP1 founder mutation links tRNA splicing and maturation to cerebellar development and neurodegeneration. Cell. 2014 Apr 24; 157(3):651-63. PMID: 24766810.
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    29. Wang P, Zhou Z, Hu A, Ponte de Albuquerque C, Zhou Y, Hong L, Sierecki E, Ajiro M, Kruhlak M, Harris C, Guan KL, Zheng ZM, Newton AC, Sun P, Zhou H, Fu XD. Both decreased and increased SRPK1 levels promote cancer by interfering with PHLPP-mediated dephosphorylation of Akt. Mol Cell. 2014 May 08; 54(3):378-91. PMID: 24703948; PMCID: PMC4019712.
    30. Zhou Y, Li HR, Huang J, Jin G, Fu XD. Multiplex analysis of polyA-linked sequences (MAPS): an RNA-seq strategy to profile poly(A+) RNA. Methods Mol Biol. 2014; 1125:169-78. PMID: 24590789; PMCID: PMC4445727.
    31. 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, Drenner K, Artates JW, McAlonis-Downes M, Markmiller S, Hutt KR, Pizzo DP, Cady J, Harms MB, Baloh RH, Vandenberg SR, Yeo GW, Fu XD, Bennett CF, Cleveland DW, Ravits J. Targeted degradation of sense and antisense C9orf72 RNA foci as therapy for ALS and frontotemporal degeneration. Proc Natl Acad Sci U S A. 2013 Nov 19; 110(47):E4530-9. PMID: 24170860.
      View in: PubMed
    32. Yoshioka N, Gros E, Li HR, Kumar S, Deacon DC, Maron C, Muotri AR, Chi NC, Fu XD, Yu BD, Dowdy SF. Efficient generation of human iPSCs by a synthetic self-replicative RNA. Cell Stem Cell. 2013 Aug 01; 13(2):246-54. PMID: 23910086; PMCID: PMC3845961.
    33. Aubol BE, Plocinik RM, Hagopian JC, Ma CT, McGlone ML, Bandyopadhyay R, Fu XD, Adams JA. Partitioning RS domain phosphorylation in an SR protein through the CLK and SRPK protein kinases. J Mol Biol. 2013 Aug 23; 425(16):2894-909. PMID: 23707382; PMCID: PMC3860265.
    34. Pandit S, Zhou Y, Shiue L, Coutinho-Mansfield G, Li H, Qiu J, Huang J, Yeo GW, Ares M, Fu XD. Genome-wide analysis reveals SR protein cooperation and competition in regulated splicing. Mol Cell. 2013 Apr 25; 50(2):223-35. PMID: 23562324; PMCID: PMC3640356.
    35. Zhou Z, Fu XD. Regulation of splicing by SR proteins and SR protein-specific kinases. Chromosoma. 2013 Jun; 122(3):191-207. PMID: 23525660; PMCID: PMC3660409.
    36. Yu FX, Zhao B, Panupinthu N, Jewell JL, Lian I, Wang LH, Zhao J, Yuan H, Tumaneng K, Li H, Fu XD, Mills GB, Guan KL. Regulation of the Hippo-YAP pathway by G-protein-coupled receptor signaling. Cell. 2012 Aug 17; 150(4):780-91. PMID: 22863277; PMCID: PMC3433174.
    37. Zhou Z, Qiu J, Liu W, Zhou Y, Plocinik RM, Li H, Hu Q, Ghosh G, Adams JA, Rosenfeld MG, Fu XD. The Akt-SRPK-SR axis constitutes a major pathway in transducing EGF signaling to regulate alternative splicing in the nucleus. Mol Cell. 2012 Aug 10; 47(3):422-33. PMID: 22727668; PMCID: PMC3418396.
    38. Li H, Qiu J, Fu XD. RASL-seq for massively parallel and quantitative analysis of gene expression. Curr Protoc Mol Biol. 2012 Apr; Chapter 4:Unit 4.13.1-9. PMID: 22470064; PMCID: PMC3325489.
    39. Chow ML, Pramparo T, Winn ME, Barnes CC, Li HR, Weiss L, Fan JB, Murray S, April C, Belinson H, Fu XD, Wynshaw-Boris A, Schork NJ, Courchesne E. Age-dependent brain gene expression and copy number anomalies in autism suggest distinct pathological processes at young versus mature ages. PLoS Genet. 2012; 8(3):e1002592. PMID: 22457638.
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    40. Li H, Zhou H, Wang D, Qiu J, Zhou Y, Li X, Rosenfeld MG, Ding S, Fu XD. Versatile pathway-centric approach based on high-throughput sequencing to anticancer drug discovery. Proc Natl Acad Sci U S A. 2012 Mar 20; 109(12):4609-14. PMID: 22396588; PMCID: PMC3311343.
    41. Chow ML, Winn ME, Li HR, April C, Wynshaw-Boris A, Fan JB, Fu XD, Courchesne E, Schork NJ. Preprocessing and Quality Control Strategies for Illumina DASL Assay-Based Brain Gene Expression Studies with Semi-Degraded Samples. Front Genet. 2012; 3:11. PMID: 22375143.
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    42. Hamilton BA, Fu XD. Tracking intron removal in real time. Dev Cell. 2011 Dec 13; 21(6):979-80. PMID: 22172665; PMCID: PMC4442631.
    43. Chow ML, Li HR, Winn ME, April C, Barnes CC, Wynshaw-Boris A, Fan JB, Fu XD, Courchesne E, Schork NJ. Genome-wide expression assay comparison across frozen and fixed postmortem brain tissue samples. BMC Genomics. 2011 Sep 10; 12:449. PMID: 21906392.
      View in: PubMed
    44. 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. 2011 May 15; 474(7351):390-4. PMID: 21572438; PMCID: PMC3117022.
    45. Plocinik RM, Li S, Liu T, Hailey KL, Whitesides J, Whitehouse J, Ma CT, Fu XD, Gosh G, Woods VL, Jennings PA, Adams JA. Regulating SR protein phosphorylation through regions outside the kinase domain of SRPK1. J Mol Biol. 2011 Jul 01; 410(1):131-45. PMID: 21600902; PMCID: PMC3121894.
    46. Cho S, Hoang A, Sinha R, Zhong XY, Fu XD, Krainer AR, Ghosh G. Interaction between the RNA binding domains of Ser-Arg splicing factor 1 and U1-70K snRNP protein determines early spliceosome assembly. Proc Natl Acad Sci U S A. 2011 May 17; 108(20):8233-8. PMID: 21536904; PMCID: PMC3100968.
    47. 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. Mol Cell. 2011 Apr 22; 42(2):185-98. PMID: 21504830; PMCID: PMC3137374.
    48. Han J, Xiong J, Wang D, Fu XD. Pre-mRNA splicing: where and when in the nucleus. Trends Cell Biol. 2011 Jun; 21(6):336-43. PMID: 21514162.
      View in: PubMed
    49. 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. 2011 Oct; 98(4):266-71. PMID: 21515359; PMCID: PMC3160523.
    50. Harismendy O, Notani D, Song X, Rahim NG, Tanasa B, Heintzman N, Ren B, Fu XD, Topol EJ, Rosenfeld MG, Frazer KA. 9p21 DNA variants associated with coronary artery disease impair interferon-? signalling response. Nature. 2011 Feb 10; 470(7333):264-8. PMID: 21307941; PMCID: PMC3079517.
    51. Lovci MT, Li HR, Fu XD, Yeo GW. RNA-seq analysis of gene expression and alternative splicing by double-random priming strategy. Methods Mol Biol. 2011; 729:247-55. PMID: 21365495; PMCID: PMC3918474.
    52. Han J, Ding JH, Byeon CW, Kim JH, Hertel KJ, Jeong S, Fu XD. SR proteins induce alternative exon skipping through their activities on the flanking constitutive exons. Mol Cell Biol. 2011 Feb; 31(4):793-802. PMID: 21135118; PMCID: PMC3028638.
    53. Ma CT, Ghosh G, Fu XD, Adams JA. Mechanism of dephosphorylation of the SR protein ASF/SF2 by protein phosphatase 1. J Mol Biol. 2010 Oct 29; 403(3):386-404. PMID: 20826166; PMCID: PMC2994579.
    54. Fox-Walsh K, Fu XD. Chromatin: the final frontier in splicing regulation? Dev Cell. 2010 Mar 16; 18(3):336-8. PMID: 20230741.
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    55. Lin C, Yang L, Tanasa B, Hutt K, Ju BG, Ohgi K, Zhang J, Rose DW, Fu XD, Glass CK, Rosenfeld MG. Nuclear receptor-induced chromosomal proximity and DNA breaks underlie specific translocations in cancer. Cell. 2009 Dec 11; 139(6):1069-83. PMID: 19962179; PMCID: PMC2812435.
    56. Wang D, Fu XD. DNA interaction networks: an information highway for regulated gene expression in the 3-dimentional space of the nucleus. Cell Res. 2009 Dec; 19(12):1316-9. PMID: 19956184.
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    57. Nunez E, Fu XD, Rosenfeld MG. Nuclear organization in the 3D space of the nucleus - cause or consequence? Curr Opin Genet Dev. 2009 Oct; 19(5):424-36. PMID: 19846290; PMCID: PMC2796509.
    58. 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. Mol Cell. 2009 Jul 10; 35(1):1-10. PMID: 19595711; PMCID: PMC2744344.
    59. Zhong XY, Ding JH, Adams JA, Ghosh G, Fu XD. Regulation of SR protein phosphorylation and alternative splicing by modulating kinetic interactions of SRPK1 with molecular chaperones. Genes Dev. 2009 Feb 15; 23(4):482-95. PMID: 19240134; PMCID: PMC2648651.
    60. 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. Nat Struct Mol Biol. 2009 Feb; 16(2):130-7. PMID: 19136955; PMCID: PMC2735254.
    61. Li H, Lovci MT, Kwon YS, Rosenfeld MG, Fu XD, Yeo GW. Determination of tag density required for digital transcriptome analysis: application to an androgen-sensitive prostate cancer model. Proc Natl Acad Sci U S A. 2008 Dec 23; 105(51):20179-84. PMID: 19088194.
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    62. Hagopian JC, Ma CT, Meade BR, Albuquerque CP, Ngo JC, Ghosh G, Jennings PA, Fu XD, Adams JA. Adaptable molecular interactions guide phosphorylation of the SR protein ASF/SF2 by SRPK1. J Mol Biol. 2008 Oct 17; 382(4):894-909. PMID: 18687337; PMCID: PMC2741138.
    63. Lin S, Coutinho-Mansfield G, Wang D, Pandit S, Fu XD. The splicing factor SC35 has an active role in transcriptional elongation. Nat Struct Mol Biol. 2008 Aug; 15(8):819-26. PMID: 18641664; PMCID: PMC2574591.
    64. Pandit S, Wang D, Fu XD. Functional integration of transcriptional and RNA processing machineries. Curr Opin Cell Biol. 2008 Jun; 20(3):260-5. PMID: 18436438; PMCID: PMC2701685.
    65. Nunez E, Kwon YS, Hutt KR, Hu Q, Cardamone MD, Ohgi KA, Garcia-Bassets I, Rose DW, Glass CK, Rosenfeld MG, Fu XD. Nuclear receptor-enhanced transcription requires motor- and LSD1-dependent gene networking in interchromatin granules. Cell. 2008 Mar 21; 132(6):996-1010. PMID: 18358812.
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    66. Ngo JC, Giang K, Chakrabarti S, Ma CT, Huynh N, Hagopian JC, Dorrestein PC, Fu XD, Adams JA, Ghosh G. A sliding docking interaction is essential for sequential and processive phosphorylation of an SR protein by SRPK1. Mol Cell. 2008 Mar 14; 29(5):563-76. PMID: 18342604; PMCID: PMC2852395.
    67. Ma CT, Velazquez-Dones A, Hagopian JC, Ghosh G, Fu XD, Adams JA. Ordered multi-site phosphorylation of the splicing factor ASF/SF2 by SRPK1. J Mol Biol. 2008 Feb 08; 376(1):55-68. PMID: 18155240.
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    68. Coutinho-Mansfield GC, Xue Y, Zhang Y, Fu XD. PTB/nPTB switch: a post-transcriptional mechanism for programming neuronal differentiation. Genes Dev. 2007 Jul 01; 21(13):1573-7. PMID: 17606635.
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    69. Lukasiewicz R, Velazquez-Dones A, Huynh N, Hagopian J, Fu XD, Adams J, Ghosh G. Structurally unique yeast and mammalian serine-arginine protein kinases catalyze evolutionarily conserved phosphorylation reactions. J Biol Chem. 2007 Aug 10; 282(32):23036-43. PMID: 17517895.
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    70. Wang J, Scully K, Zhu X, Cai L, Zhang J, Prefontaine GG, Krones A, Ohgi KA, Zhu P, Garcia-Bassets I, Liu F, Taylor H, Lozach J, Jayes FL, Korach KS, Glass CK, Fu XD, Rosenfeld MG. Opposing LSD1 complexes function in developmental gene activation and repression programmes. Nature. 2007 Apr 19; 446(7138):882-7. PMID: 17392792.
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    71. Kwon YS, Garcia-Bassets I, Hutt KR, Cheng CS, Jin M, Liu D, Benner C, Wang D, Ye Z, Bibikova M, Fan JB, Duan L, Glass CK, Rosenfeld MG, Fu XD. Sensitive ChIP-DSL technology reveals an extensive estrogen receptor alpha-binding program on human gene promoters. Proc Natl Acad Sci U S A. 2007 Mar 20; 104(12):4852-7. PMID: 17360330; PMCID: PMC1821125.
    72. Garcia-Bassets I, Kwon YS, Telese F, Prefontaine GG, Hutt KR, Cheng CS, Ju BG, Ohgi KA, Wang J, Escoubet-Lozach L, Rose DW, Glass CK, Fu XD, Rosenfeld MG. Histone methylation-dependent mechanisms impose ligand dependency for gene activation by nuclear receptors. Cell. 2007 Feb 09; 128(3):505-518. PMID: 17289570; PMCID: PMC1994663.
    73. Ngo JC, Gullingsrud J, Giang K, Yeh MJ, Fu XD, Adams JA, McCammon JA, Ghosh G. SR protein kinase 1 is resilient to inactivation. Structure. 2007 Jan; 15(1):123-33. PMID: 17223538.
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    74. Lin S, Fu XD. SR proteins and related factors in alternative splicing. Adv Exp Med Biol. 2007; 623:107-22. PMID: 18380343.
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    75. Li HR, Wang-Rodriguez J, Nair TM, Yeakley JM, Kwon YS, Bibikova M, Zheng C, Zhou L, Zhang K, Downs T, Fu XD, Fan JB. Two-dimensional transcriptome profiling: identification of messenger RNA isoform signatures in prostate cancer from archived paraffin-embedded cancer specimens. Cancer Res. 2006 Apr 15; 66(8):4079-88. PMID: 16618727.
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    76. Xu X, Fu XD. Conditional knockout mice to study alternative splicing in vivo. Methods. 2005 Dec; 37(4):387-92. PMID: 16314268.
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    77. Ding JH, Zhong XY, Hagopian JC, Cruz MM, Ghosh G, Feramisco J, Adams JA, Fu XD. Regulated cellular partitioning of SR protein-specific kinases in mammalian cells. Mol Biol Cell. 2006 Feb; 17(2):876-85. PMID: 16319169; PMCID: PMC1356596.
    78. Lin S, Xiao R, Sun P, Xu X, Fu XD. Dephosphorylation-dependent sorting of SR splicing factors during mRNP maturation. Mol Cell. 2005 Nov 11; 20(3):413-25. PMID: 16285923.
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    79. Zheng CL, Fu XD, Gribskov M. Characteristics and regulatory elements defining constitutive splicing and different modes of alternative splicing in human and mouse. RNA. 2005 Dec; 11(12):1777-87. PMID: 16251388; PMCID: PMC1370866.
    80. Zheng CL, Kwon YS, Li HR, Zhang K, Coutinho-Mansfield G, Yang C, Nair TM, Gribskov M, Fu XD. MAASE: an alternative splicing database designed for supporting splicing microarray applications. RNA. 2005 Dec; 11(12):1767-76. PMID: 16251387; PMCID: PMC1370865.
    81. Velazquez-Dones A, Hagopian JC, Ma CT, Zhong XY, Zhou H, Ghosh G, Fu XD, Adams JA. Mass spectrometric and kinetic analysis of ASF/SF2 phosphorylation by SRPK1 and Clk/Sty. J Biol Chem. 2005 Dec 16; 280(50):41761-8. PMID: 16223727.
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    82. Ngo JC, Chakrabarti S, Ding JH, Velazquez-Dones A, Nolen B, Aubol BE, Adams JA, Fu XD, Ghosh G. Interplay between SRPK and Clk/Sty kinases in phosphorylation of the splicing factor ASF/SF2 is regulated by a docking motif in ASF/SF2. Mol Cell. 2005 Oct 07; 20(1):77-89. PMID: 16209947.
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    84. Fu XD. Towards a splicing code. Cell. 2004 Dec 17; 119(6):736-8. PMID: 15607969.
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