Alternative Splicing DB:
MAASE


>> More info


     

Dr. Fu's lab





Publications

2013

  • Yoshioka, N., Gris, E., Li, H-R., Kumar, S., Deacon, D., Maron, C., Muotri A. R., Chi, N., Fu, X-D., Yu, B.D., and Dowdy, S.F. (2013). Eifficient generation of human iPC cells by a synthetic self-replicative RNA. Cell Stem Cell, in press.
  • Zhou, Y., Li, H-R., Huang, J., Jin, G., and Fu, X-D. (2013). Multiplex analysis of polyA-linked sequences (MAPS): an RNA-seq technology to profile poly(A+) RNA. Methods Mole Biol in press.
  • Aubol, B.E., Polcinik, R.M., Hagopian, J.C., Ma, C-T., McGlone, M.L., Bandyopadhyay, R., Fu, X-D. and Adams, J.A. (2103). Partitioning RS domain phosphorylation in An SR protein through the CLK and SRPK protein kinases. J Mol Biol Epub ahead of print, May 23.
  • Zhou, Z., Fu, X-D (2013). Regulation of splicing by SR proteins and SR protein-specific kinases. Chromosoma, 122:191--207 [PubMed]
  • Ji, X., Zhou, Y., Pandit, S., Huang, J., Li, H., Lin, C.Y., Xiao, R., Burge, C.B., Fu, X-D (2013). SR proteins collaborate with 7SK and promoter-associated nascent RNA to release paused polymerase. Cell, 153:855--868 [PubMed]
  • Wang, Y., Jiang, L., Ji, X., Yang, B., Zhang, Y., Fu, X-D (2013). Hepatitis B Viral RNA Directly Mediates Down-regulation of the Tumor Suppressor MicroRNA miR-15a/miR-16-1 in Hepatocytes. J Biol Chem, 288:18484--18493 [PubMed]
  • Pandit, S., Zhou, Y., Shiue, L., Coutinho-Mansfield, G., Li, H., Qiu, J., Huang, J., Yeo, G.W., Ares, J.M., Fu, X-D (2013). Genome-wide analysis reveals SR protein cooperation and competition in regulated splicing. Mol Cell, 50:223--235 [PubMed]
  • Xue, Y., Ouyang, K., Huang, J., Zhou, Y., Ouyang, H., Li, H., Wang, G., Wu, Q., Wei, C., Bi, Y., Jiang, L., Cai, Z., Sun, H., Zhang, K., Zhang, Y., Chen, J., Fu, X-D (2013). Direct conversion of fibroblasts to neurons by reprogramming PTB-regulated microRNA circuits. Cell, 152:82--96 [PubMed]

2012

  • Zhou, Z., Qiu, J., Liu, W., Zhou, Y., Plocinik, R.M., Li, H., Hu, Q., Ghosh, G., Adams, J.A., Rosenfeld, M.G., Fu, X-D (2012). The Akt-SRPK-SR axis constitutes a major pathway in transducing EGF signaling to regulate alternative splicing in the nucleus. Mol Cell, 47:422--433 [PubMed]
  • Dembowski, J.A., An, P., Scoulos-Hanson, M., Yeo, G., Han, J., Fu, X-D, Grabowski, P.J. (2012). Alternative Splicing of a Novel Inducible Exon Diversifies the CASK Guanylate Kinase Domain. J Nucleic Acids, 2012:816237 [PubMed]
  • Li, H., Qiu, J., Fu, X-D (2012). RASL-seq for massively parallel and quantitative analysis of gene expression. Curr Protoc Mol Biol, Chapter 4:Unit 4.13.1--Unit 4.13.9 [PubMed]
  • Yu, F-X, Zhao, B., Panupinthu, N., Jewell, J.L., Lian, I., Wang, L.H., Zhao, J., Yuan, H., Tumaneng, K., Li, H., Fu, X-D, Mills, G.B., Guan, K-L (2012). Regulation of the Hippo-YAP pathway by G-protein-coupled receptor signaling. Cell, 150:780--791 [PubMed]
  • Chow, M.L., Winn, M.E., Li, H-R, April, C., Wynshaw-Boris, A., Fan, J-B, Fu, X-D, Courchesne, E., Schork, N.J. (2012). Preprocessing and Quality Control Strategies for Illumina DASL Assay-Based Brain Gene Expression Studies with Semi-Degraded Samples. Front Genet, 3:11 [PubMed]
  • Ji, X., Fu, X-D (2012). The mediator couples transcription and splicing. Mol Cell, 45:433--434 [PubMed]
  • Tripathi, V., Song, D.Y., Zong, X., Shevtsov, S.P., Hearn, S., Fu, X-D, Dundr, M., Prasanth, K.V. (2012). SRSF1 regulates the assembly of pre-mRNA processing factors in nuclear speckles. Mol Biol Cell, 23:3694--3706 [PubMed]
  • Xiao, R., Tang, P., Yang, B., Huang, J., Zhou, Y., Shao, C., Li, H., Sun, H., Zhang, Y., Fu, X-D (2012). Nuclear matrix factor hnRNP U/SAF-A exerts a global control of alternative splicing by regulating U2 snRNP maturation. Mol Cell, 45:656--668 [PubMed]
  • Chow, M.L., Pramparo, T., Winn, M.E., Barnes, C.C., Li, H-R, Weiss, L., Fan, J-B, Murray, S., April, C., Belinson, H., Fu, X-D*, Wynshaw-Boris, A.*, Schork, N.J.*, Courchesne, E.* (2012). Age-dependent brain gene expression and copy number anomalies in autism suggest distinct pathological processes at young versus mature ages. PLoS Genet, 8:e1002592 (*co-corresponding authors) [PubMed]
  • Li, H., Zhou, H., Wang, D., Qiu, J., Zhou, Y., Li, X., Rosenfeld, M.G., Ding, S., Fu, X-D (2012). Versatile pathway-centric approach based on high-throughput sequencing to anticancer drug discovery. Proc Natl Acad Sci U S A, 109:4609--4614 [PubMed]

2011

  • Harismendy, O., Notani, D., Song, X., Rahim, N.G., Tanasa, B., Heintzman, N., Ren, B., Fu, X-D, Topol, E.J., Rosenfeld, M.G., Frazer, K.A. (2011). 9p21 DNA variants associated with coronary artery disease impair interferon- signalling response. Nature, 470:264--268 [PubMed]
  • Han, J., Xiong, J., Wang, D., Fu, X-D (2011). Pre-mRNA splicing: where and when in the nucleus. Trends Cell Biol, 21:336--343 [PubMed]
  • Wang, W., Barnaby, J.Y., Tada, Y., Li, H., Tr, M., Caldelari, D., Lee, D-U, Fu, X-D, Dong, X. (2011). Timing of plant immune responses by a central circadian regulator. Nature, 470:110--114 [PubMed]
  • Fox-Walsh, K., Davis-Turak, J., Zhou, Y., Li, H., Fu, X-D (2011). A multiplex RNA-seq strategy to profile poly(A+) RNA: application to analysis of transcription response and 3' end formation. Genomics, 98:266--271 [PubMed]
  • Ahn, E-Y, DeKelver, R.C., Lo, M-C, Nguyen, T.A., Matsuura, S., Boyapati, A., Pandit, S., Fu, X-D*, Zhang, D-E* (2011). SON controls cell-cycle progression by coordinated regulation of RNA splicing. Mol Cell, 42:185--198 (*co-corresponding authors) [PubMed]
  • Cho, S., Hoang, A., Sinha, R., Zhong, X-Y, Fu, X-D, Krainer, A.R., Ghosh, G. (2011). 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, 108:8233--8238 [PubMed]
  • Wang, D., Garcia-Bassets, I., Benner, C., Li, W., Su, X., Zhou, Y., Qiu, J., Liu, W., Kaikkonen, M.U., Ohgi, K.A., Glass, C.K., Rosenfeld, M.G., Fu, X-D (2011). Reprogramming transcription by distinct classes of enhancers functionally defined by eRNA. Nature, 474:390--394 [PubMed]
  • Lovci, M.T., Li, H-R, Fu, X-D, Yeo, G.W. (2011). RNA-seq analysis of gene expression and alternative splicing by double-random priming strategy. Methods Mol Biol, 729:247--255 [PubMed]
  • Plocinik, R.M., Li, S., Liu, T., Hailey, K.L., Whitesides, J., Whitehouse, J., Ma, C-T, Fu, X-D, Gosh, G., Woods, J.V.L., Jennings, P.A., Adams, J.A. (2011). Regulating SR protein phosphorylation through regions outside the kinase domain of SRPK1. J Mol Biol, 410:131--145 [PubMed]
  • Hamilton, B.A., Fu, X-D (2011). Tracking intron removal in real time. Dev Cell, 21:979--980 [PubMed]
  • Chow, M.L., Li, H-R, Winn, M.E., April, C., Barnes, C.C., Wynshaw-Boris, A., Fan, J-B, Fu, X-D*, Courchesne, E.*, Schork, N.J.* (2011). Genome-wide expression assay comparison across frozen and fixed postmortem brain tissue samples. BMC Genomics, 12:449 (*co-corresponding authors) [PubMed]

1993 - 2010

  • Fox-Walsh, K., Fu, X-D (2010). Chromatin: the final frontier in splicing regulation? Dev Cell, 18:336--338 [PubMed]
  • Ma, C-T, Ghosh, G., Fu, X-D, Adams, J.A. (2010). Mechanism of dephosphorylation of the SR protein ASF/SF2 by protein phosphatase 1. J Mol Biol, 403:386--404 [PubMed]
  • Liu, W., Zhou, Y., Hu, Z., Sun, T., Denise, A., Fu, X-D, Zhang, Y. (2010). Regulation of splicing enhancer activities by RNA secondary structures. FEBS Lett., 584:4401-7
  • Zhong, X-Y, Wang, P., Han, J., Rosenfeld, M.G., Fu, X-D (2009). SR proteins in vertical integration of gene expression from transcription to RNA processing to translation. Mol Cell, 35:1--10 [PubMed]
  • Wang, F., Fu, X-D, Zhou, Y., Zhang, Y. (2009). Down-regulation of the cyclin E1 oncogene expression by microRNA-16-1 induces cell cycle arrest in human cancer cells. BMB Rep, 42:725--730 [PubMed]
  • Fu, X-D (2009). Lewin's Genes X 573-617
  • Zhong, X-Y, Ding, J-H, Adams, J.A., Ghosh, G., Fu, X-D (2009). Regulation of SR protein phosphorylation and alternative splicing by modulating kinetic interactions of SRPK1 with molecular chaperones. Genes Dev, 23:482--495 [PubMed]
  • Wang, D., Fu, X-D (2009). DNA interaction networks: an information highway for regulated gene expression in the 3-dimentional space of the nucleus. Cell Res, 19:1316--1319 [PubMed]
  • Yeo, G.W.*, Coufal, N.G., Liang, T.Y., Peng, G.E., Fu, X-D*, Gage, F.H.* (2009). An RNA code for the FOX2 splicing regulator revealed by mapping RNA-protein interactions in stem cells. Nat Struct Mol Biol, 16:130--137 (*co-corresponding authors) [PubMed]
  • Lin, C., Yang, L., Tanasa, B., Hutt, K., Ju, B-G, Ohgi, K., Zhang, J., Rose, D.W., Fu, X-D, Glass, C.K., Rosenfeld, M.G. (2009). Nuclear receptor-induced chromosomal proximity and DNA breaks underlie specific translocations in cancer. Cell, 139:1069--1083 [PubMed]
  • Nunez, E., Fu, X-D, Rosenfeld, M.G. (2009). Nuclear organization in the 3D space of the nucleus - cause or consequence? Curr Opin Genet Dev, 19:424--436 [PubMed]
  • Ma, C-T, Hagopian, J.C., Ghosh, G., Fu, X-D, Adams, J.A. (2009). Regiospecific phosphorylation control of the SR protein ASF/SF2 by SRPK1. J Mol Biol, 390:618--634 [PubMed]
  • Xue, Y., Zhou, Y., Wu, T., Zhu, T., Ji, X., Kwon, Y-S, Zhang, C., Yeo, G., Black, D.L., Sun, H., Fu, X-D*, Zhang, Y.* (2009). Genome-wide analysis of PTB-RNA interactions reveals a strategy used by the general splicing repressor to modulate exon inclusion or skipping. Mol Cell, 36:996--1006 (*co-corresponding authors) [PubMed]
  • Hu, Q., Kwon, Y-S, Nunez, E., Cardamone, M.D., Hutt, K.R., Ohgi, K.A., Garcia-Bassets, I., Rose, D.W., Glass, C.K., Rosenfeld, M.G., Fu, X-D (2008). Enhancing nuclear receptor-induced transcription requires nuclear motor and LSD1-dependent gene networking in interchromatin granules. Proc Natl Acad Sci U S A, 105:19199--19204 [PubMed]
  • Ngo, J.C.K., Giang, K., Chakrabarti, S., Ma, C-T, Huynh, N., Hagopian, J.C., Dorrestein, P.C., Fu, X-D, Adams, J.A., Ghosh, G. (2008). A sliding docking interaction is essential for sequential and processive phosphorylation of an SR protein by SRPK1. Mol Cell, 29:563--576 [PubMed]
  • Pandit, S., Wang, D., Fu, X-D (2008). Functional integration of transcriptional and RNA processing machineries. Curr Opin Cell Biol, 20:260--265 [PubMed]
  • Hagopian, J.C., Ma, C-T, Meade, B.R., Albuquerque, C.P., Ngo, J.C.K., Ghosh, G., Jennings, P.A., Fu, X-D, Adams, J.A. (2008). Adaptable molecular interactions guide phosphorylation of the SR protein ASF/SF2 by SRPK1. J Mol Biol, 382:894--909 [PubMed]
  • Lin, S., Coutinho-Mansfield, G., Wang, D., Pandit, S., Fu, X-D (2008). The splicing factor SC35 has an active role in transcriptional elongation. Nat Struct Mol Biol, 15:819--826 [PubMed]
  • Li, H., Lovci, M.T., Kwon, Y-S, Rosenfeld, M.G., Fu, X-D*, Yeo, G.W.* (2008). Determination of tag density required for digital transcriptome analysis: application to an androgen-sensitive prostate cancer model. Proc Natl Acad Sci U S A, 105:20179--20184 (*co-corresponding authors) [PubMed]
  • Ma, C-T, Velazquez-Dones, A., Hagopian, J.C., Ghosh, G., Fu, X-D, Adams, J.A. (2008). Ordered multi-site phosphorylation of the splicing factor ASF/SF2 by SRPK1. J Mol Biol, 376:55--68 [PubMed]
  • Lukasiewicz, R., Velazquez-Dones, A., Huynh, N., Hagopian, J., Fu, X-D, Adams, J., Ghosh, G. (2007). Structurally unique yeast and mammalian serine-arginine protein kinases catalyze evolutionarily conserved phosphorylation reactions. J Biol Chem, 282:23036--23043 [PubMed]
  • Hu, A., Fu, X-D (2007). Splicing oncogenes. Nat Struct Mol Biol, 14:174--175 [PubMed]
  • Ngo, J.C.K., Gullingsrud, J., Giang, K., Yeh, M.J., Fu, X-D, Adams, J.A., McCammon, J.A., Ghosh, G. (2007). SR protein kinase 1 is resilient to inactivation. Structure, 15:123--133 [PubMed]
  • Wang, J., Scully, K., Zhu, X., Cai, L., Zhang, J., Prefontaine, G.G., Krones, A., Ohgi, K.A., Zhu, P., Garcia-Bassets, I., Liu, F., Taylor, H., Lozach, J., Jayes, F.L., Korach, K.S., Glass, C.K., Fu, X-D, Rosenfeld, M.G. (2007). Opposing LSD1 complexes function in developmental gene activation and repression programmes. Nature, 446:882--887 [PubMed]
  • Xiao, R., Sun, Y., Ding, J-H, Lin, S., Rose, D.W., Rosenfeld, M.G., Fu, X-D*, Li, X.* (2007). Splicing regulator SC35 is essential for genomic stability and cell proliferation during mammalian organogenesis. Mol Cell Biol, 27:5393--5402 (*co-corresponding authors) [PubMed]
  • Lin, S., Fu, X-D (2007). SR proteins and related factors in alternative splicing. Adv Exp Med Biol, 623:107--122 [PubMed]
  • Kwon, Y-S, Garcia-Bassets, I., Hutt, K.R., Cheng, C.S., Jin, M., Liu, D., Benner, C., Wang, D., Ye, Z., Bibikova, M., Fan, J-B, Duan, L., Glass, C.K., Rosenfeld, M.G., Fu, X-D (2007). Sensitive ChIP-DSL technology reveals an extensive estrogen receptor alpha-binding program on human gene promoters. Proc Natl Acad Sci U S A, 104:4852--4857 [PubMed]
  • Coutinho-Mansfield, G.C., Xue, Y., Zhang, Y., Fu, X-D (2007). PTB/nPTB switch: a post-transcriptional mechanism for programming neuronal differentiation. Genes Dev, 21:1573--1577 [PubMed]
  • Garcia-Bassets, I., Kwon, Y-S, Telese, F., Prefontaine, G.G., Hutt, K.R., Cheng, C.S., Ju, B-G, Ohgi, K.A., Wang, J., Escoubet-Lozach, L., Rose, D.W., Glass, C.K., Fu, X-D*, Rosenfeld, M.G.* (2007). Histone methylation-dependent mechanisms impose ligand dependency for gene activation by nuclear receptors. Cell, 128:505--518 (*co-corresponding authors) [PubMed]
  • Ding, J-H, Zhong, X-Y, Hagopian, J.C., Cruz, M.M., Ghosh, G., Feramisco, J., Adams, J.A., Fu, X-D (2006). Regulated cellular partitioning of SR protein-specific kinases in mammalian cells. Mol Biol Cell, 17:876--885 [PubMed]
  • Li, H-R, Wang-Rodriguez, J., Nair, T.M., Yeakley, J.M., Kwon, Y-S, Bibikova, M., Zheng, C., Zhou, L., Zhang, K., Downs, T., Fu, X-D*, Fan, J-B* (2006). Two-dimensional transcriptome profiling: identification of messenger RNA isoform signatures in prostate cancer from archived paraffin-embedded cancer specimens. Cancer Res, 66:4079--4088 (*co-corresponding authors) [PubMed]
  • Zhang, C., Li, H-R, Fan, J-B, Wang-Rodriguez, J., Downs, T., Fu, X-D, Zhang, M.Q. (2006). Profiling alternatively spliced mRNA isoforms for prostate cancer classification. BMC Bioinformatics, 7:202 [PubMed]
  • Ngo, J.C.K., Chakrabarti, S., Ding, J-H, Velazquez-Dones, A., Nolen, B., Aubol, B.E., Adams, J.A., Fu, X-D, Ghosh, G. (2005). 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, 20:77--89 [PubMed]
  • Velazquez-Dones, A., Hagopian, J.C., Ma, C-T, Zhong, X-Y, Zhou, H., Ghosh, G., Fu, X-D*, Adams, J.A.* (2005). Mass spectrometric and kinetic analysis of ASF/SF2 phosphorylation by SRPK1 and Clk/Sty. J Biol Chem, 280:41761--41768 (*co-corresponding authors) [PubMed]
  • Lin, S., Xiao, R., Sun, P., Xu, X., Fu, X-D (2005). Dephosphorylation-dependent sorting of SR splicing factors during mRNP maturation. Mol Cell, 20:413--425 [PubMed]
  • Xu, X., Yang, D., Ding, J-H, Wang, W., Chu, P-H, Dalton, N.D., Wang, H-Y, Bermingham, J.R., Ye, Z., Liu, F., Rosenfeld, M.G., Manley, J.L., Ross, J., Chen, J., Xiao, R-P, Cheng, H., Fu, X-D (2005). ASF/SF2-regulated CaMKIIdelta alternative splicing temporally reprograms excitation-contraction coupling in cardiac muscle. Cell, 120:59--72 [PubMed]
  • Zheng, C.L., Kwon, Y-S, Li, H-R, Zhang, K., Coutinho-Mansfield, G., Yang, C., Nair, T.M., Gribskov, M., Fu, X-D (2005). MAASE: an alternative splicing database designed for supporting splicing microarray applications. RNA, 11:1767--1776 [PubMed]
  • Zheng, C.L., Fu, X-D*, Gribskov, M.* (2005). Characteristics and regulatory elements defining constitutive splicing and different modes of alternative splicing in human and mouse. RNA, 11:1777--1787 (*co-corresponding authors) [PubMed]
  • Xu, X., Fu, X-D (2005). Conditional knockout mice to study alternative splicing in vivo. Methods, 37:387--392 [PubMed]
  • ENCODE Project Consortium (2004). The ENCODE (ENCyclopedia Of DNA Elements) Project. Science, 306:636--640 [PubMed]
  • Fan, J-B, Yeakley, J.M., Bibikova, M., Chudin, E., Wickham, E., Chen, J., Doucet, D., Rigault, P., Zhang, B., Shen, R., McBride, C., Li, H-R, Fu, X-D, Oliphant, A., Barker, D.L., Chee, M.S. (2004). A versatile assay for high-throughput gene expression profiling on universal array matrices. Genome Res, 14:878--885 [PubMed]
  • Ding, J-H, Xu, X., Yang, D., Chu, P-H, Dalton, N.D., Ye, Z., Yeakley, J.M., Cheng, H., Xiao, R-P, Ross, J., Chen, J., Fu, X-D (2004). Dilated cardiomyopathy caused by tissue-specific ablation of SC35 in the heart. EMBO J, 23:885--896 [PubMed]
  • Fu, X-D (2004). Towards a splicing code. Cell, 119:736--738 [PubMed]
  • Zheng, C.L., Nair, T.M., Gribskov, M., Kwon, Y.S., Li, H.R., Fu, X-D (2004). A database designed to computationally aid an experimental approach to alternative splicing. Pac Symp Biocomput, 78--88 [PubMed]
  • Kwon, Y-S, Li, H., Fu, X-D (2004). Large-scale analysis of mRNA splice variants by microarray R. K Hartmann, A. Bindereif, A. Schon, E. Westhof, Wiley-Vch Verlag GmbH \& Co. KgaA, Weinheim. 655--663
  • Aubol, B.E., Chakrabarti, S., Ngo, J., Shaffer, J., Nolen, B., Fu, X-D, Ghosh, G., Adams, J.A. (2003). Processive phosphorylation of alternative splicing factor/splicing factor 2. Proc Natl Acad Sci U S A, 100:12601--12606 [PubMed]
  • Yun, C.Y., Velazquez-Dones, A.L., Lyman, S.K., Fu, X-D (2003). Phosphorylation-dependent and -independent nuclear import of RS domain-containing splicing factors and regulators. J Biol Chem, 278:18050--18055 [PubMed]
  • Yeakley, J.M., Fan, J-B, Doucet, D., Luo, L., Wickham, E., Ye, Z., Chee, M.S., Fu, X-D (2002). Profiling alternative splicing on fiber-optic arrays. Nat Biotechnol, 20:353--358 [PubMed]
  • Cmarko, D., Be, S-O, Scassellati, C., Szilvay, A.M., Davanger, S., Fu, X-D, Haukenes, G., Kalland, K-H, Fakan, S. (2002). Rev inhibition strongly affects intracellular distribution of human immunodeficiency virus type 1 RNAs. J Virol, 76:10473--10484 [PubMed]
  • Wang, H.Y., Xu, X., Ding, J.H., Bermingham, J.R., Fu, X-D (2001). SC35 plays a role in T cell development and alternative splicing of CD45. Mol Cell, 7:331--342 [PubMed]
  • Dagher, S.F., Fu, X-D (2001). Evidence for a role of Sky1p-mediated phosphorylation in 3' splice site recognition involving both Prp8 and Prp17/Slu4. RNA, 7:1284--1297 [PubMed]
  • Nolen, B., Yun, C.Y., Wong, C.F., McCammon, J.A., Fu, X-D, Ghosh, G. (2001). The structure of Sky1p reveals a novel mechanism for constitutive activity. Nat Struct Biol, 8:176--183 [PubMed]
  • Yun, C.Y., Fu, X-D (2000). Conserved SR protein kinase functions in nuclear import and its action is counteracted by arginine methylation in Saccharomyces cerevisiae. J Cell Biol, 150:707--718 [PubMed]
  • Wang, H.Y., Arden, K.C., Bermingham, J.R., Viars, C.S., Lin, W., Boyer, A.D., Fu, X-D (1999). Localization of serine kinases, SRPK1 (SFRSK1) and SRPK2 (SFRSK2), specific for the SR family of splicing factors in mouse and human chromosomes. Genomics, 57:310--315 [PubMed]
  • Yeakley, J.M., Tronchre, H., Olesen, J., Dyck, J.A., Wang, H.Y., Fu, X-D (1999). Phosphorylation regulates in vivo interaction and molecular targeting of serine/arginine-rich pre-mRNA splicing factors. J Cell Biol, 145:447--455 [PubMed]
  • Cmarko, D., Verschure, P.J., Martin, T.E., Dahmus, M.E., Krause, S., Fu, X-D, Driel, R.V., Fakan, S. (1999). Ultrastructural analysis of transcription and splicing in the cell nucleus after bromo-UTP microinjection. Mol Biol Cell, 10:211--223 [PubMed]
  • Siebel, C.W., Feng, L., Guthrie, C., Fu, X-D (1999). Conservation in budding yeast of a kinase specific for SR splicing factors. Proc Natl Acad Sci U S A, 96:5440--5445 [PubMed]
  • Mayeda, A., Screaton, G.R., Chandler, S.D., Fu, X-D, Krainer, A.R. (1999). Substrate specificities of SR proteins in constitutive splicing are determined by their RNA recognition motifs and composite pre-mRNA exonic elements. Mol Cell Biol, 19:1853--1863 [PubMed]
  • Wang, H.Y., Lin, W., Dyck, J.A., Yeakley, J.M., Songyang, Z., Cantley, L.C., Fu, X-D (1998). SRPK2: a differentially expressed SR protein-specific kinase involved in mediating the interaction and localization of pre-mRNA splicing factors in mammalian cells. J Cell Biol, 140:737--750 [PubMed]
  • Bouck, J., Fu, X-D, Skalka, A.M., Katz, R.A. (1998). Role of the constitutive splicing factors U2AF65 and SAP49 in suboptimal RNA splicing of novel retroviral mutants. J Biol Chem, 273:15169--15176 [PubMed]
  • Chandler, S.D., Mayeda, A., Yeakley, J.M., Krainer, A.R., Fu, X-D (1997). RNA splicing specificity determined by the coordinated action of RNA recognition motifs in SR proteins. Proc Natl Acad Sci U S A, 94:3596--3601 [PubMed]
  • Tronchre, H., Wang, J., Fu, X-D (1997). A protein related to splicing factor U2AF35 that interacts with U2AF65 and SR proteins in splicing of pre-mRNA. Nature, 388:397--400 [PubMed]
  • Yeakley, J.M., Morfin, J.P., Rosenfeld, M.G., Fu, X-D (1996). A complex of nuclear proteins mediates SR protein binding to a purine-rich splicing enhancer. Proc Natl Acad Sci U S A, 93:7582--7587 [PubMed]
  • Colwill, K., Feng, L.L., Yeakley, J.M., Gish, G.D., Cceres, J.F., Pawson, T., Fu, X-D (1996). SRPK1 and Clk/Sty protein kinases show distinct substrate specificities for serine/arginine-rich splicing factors. J Biol Chem, 271:24569--24575 [PubMed]
  • Tamburini, M., Malatesta, M., Zancanaro, C., Martin, T.E., Fu, X-D, Vogel, P., Fakan, S. (1996). Dense granular bodies: a novel nucleoplasmic structure in hibernating dormice. Histochem Cell Biol, 106:581--586 [PubMed]
  • Kopecny, V., Biggiogera, M., Laurincik, J., Pivko, J., Grafenau, P., Martin, T.E., Fu, X-D, Fakan, S. (1996). Fine structural cytochemical and immunocytochemical analysis of nucleic acids and ribonucleoprotein distribution in nuclei of pig oocytes and early preimplantation embryos. Chromosoma, 104:561--574 [PubMed]
  • Fu, X-D (1995). The superfamily of arginine/serine-rich splicing factors. RNA, 1:663--680 [PubMed]
  • Bouck, J., Fu, X-D, Skalka, A.M., Katz, R.A. (1995). Genetic selection for balanced retroviral splicing: novel regulation involving the second step can be mediated by transitions in the polypyrimidine tract. Mol Cell Biol, 15:2663--2671 [PubMed]
  • Bermingham, J.R., Arden, K.C., Naumova, A.K., Sapienza, C., Viars, C.S., Fu, X-D, Khotz, J., Manley, J.L., Rosenfeld, M.G. (1995). Chromosomal localization of mouse and human genes encoding the splicing factors ASF/SF2 (SFRS1) and SC-35 (SFRS2). Genomics, 29:70--79 [PubMed]
  • Malatesta, M., Zancanaro, C., Tamburini, M., Martin, T.E., Fu, X-D, Vogel, P., Fagan, S. (1995). Novel nuclear ribonucleoprotein structural components in the dormouse adrenal cortex during hibernation. Chromosoma, 104:121--128 [PubMed]
  • Gui, J.F., Lane, W.S., Fu, X-D (1994). A serine kinase regulates intracellular localization of splicing factors in the cell cycle. Nature, 369:678--682 [PubMed]
  • Gui, J.F., Tronchre, H., Chandler, S.D., Fu, X-D (1994). Purification and characterization of a kinase specific for the serine- and arginine-rich pre-mRNA splicing factors. Proc Natl Acad Sci U S A, 91:10824--10828 [PubMed]
  • Imai, H., Chan, E.K., Kiyosawa, K., Fu, X-D, Tan, E.M. (1993). Novel nuclear autoantigen with splicing factor motifs identified with antibody from hepatocellular carcinoma. J Clin Invest, 92:2419--2426 [PubMed]
  • Fu, X-D (1993). Specific commitment of different pre-mRNAs to splicing by single SR proteins. Nature, 365:82--85 [PubMed]

1990 - 1992 (Postdoc work)

  • Fu, X-D, Mayeda, A., Maniatis, T., Krainer, A.R. (1992). General splicing factors SF2 and SC35 have equivalent activities in vitro, and both affect alternative 5' and 3' splice site selection. Proc Natl Acad Sci U S A, 89:11224--11228 [PubMed]
  • Fu, X-D, Maniatis, T. (1992). The 35-kDa mammalian splicing factor SC35 mediates specific interactions between U1 and U2 small nuclear ribonucleoprotein particles at the 3' splice site. Proc Natl Acad Sci U S A, 89:1725--1729 [PubMed]
  • Fu, X-D, Maniatis, T. (1992). Isolation of a complementary DNA that encodes the mammalian splicing factor SC35. Science, 256:535--538 [PubMed]
  • Spector, D.L., Fu, X-D, Maniatis, T. (1991). Associations between distinct pre-mRNA splicing components and the cell nucleus. EMBO J, 10:3467--3481 [PubMed]
  • Fu, X-D, Katz, R.A., Skalka, A.M., Maniatis, T. (1991). The role of branchpoint and 3'-exon sequences in the control of balanced splicing of avian retrovirus RNA. Genes Dev, 5:211--220 [PubMed]
  • Fu, X-D, Maniatis, T. (1990). Factor required for mammalian spliceosome assembly is localized to discrete regions in the nucleus. Nature, 343:437--441 [PubMed]

1985 - 1989 (Graduate work)

  • Leis, J., Phillips, N., Fu, X., Tuazon, P.T., Traugh, J.A. (1989). Phosphorylation of avian retrovirus matrix protein by Ca2+/phospholipid-dependent protein kinase. Eur J Biochem, 179:415--422 [PubMed]
  • Jentoft, J.E., Smith, L.M., Fu, X-D, Johnson, M., Leis, J. (1988). Conserved cysteine and histidine residues of the avian myeloblastosis virus nucleocapsid protein are essential for viral replication but are not "zinc-binding fingers". Proc Natl Acad Sci U S A, 85:7094--7098 [PubMed]
  • Fu, X-D, Tuazon, P.T., Traugh, J.A., Leis, J. (1988). Site-directed mutagenesis of the avian retrovirus nucleocapsid protein, pp 12, at Serine 40, the primary site of phosphorylation in vivo. J Biol Chem, 263:2134--2139 [PubMed]
  • Fu, X-D, Katz, R.A., Skalka, A.M., Leis, J. (1988). Site-directed mutagenesis of the avian retrovirus nucleocapsid protein, pp 12. Mutation which affects RNA binding in vitro blocks viral replication. J Biol Chem, 263:2140--2145 [PubMed]
  • Katz, R.A., Fu, X-D, Skalka, A.M., Leis, J. (1986). Avian retrovirus nucleocapsid protein, pp12, produced in Escherichia coli has biochemical properties identical to unphosphorylated viral protein. Gene, 50:361--369 [PubMed]
  • Fu, X., Phillips, N., Jentoft, J., Tuazon, P.T., Traugh, J.A., Leis, J. (1985). Site-specific phosphorylation of avian retrovirus nucleocapsid protein pp12 regulates binding to viral RNA. Evidence for different protein conformations. J Biol Chem, 260:9941--9947 [PubMed]
   © 2013. Fu lab at the University of California in San Diego