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Publications

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Fairbrother, W.G., and Chasin, L.A. (2000). Human genomic sequences that inhibit splicing. Mol. Cell. Biol. 20, 6816-6825. (PMID: 10958678; PMCID: PMC86212)

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Fairbrother, W.G., Yeh, R.F., Sharp, P.A., and Burge, C.B. (2002). Predictive identification of exonic splicing enhancers in human genes. Science 297, 1007-1013. (PMID: 12114529; PMCID: Not available)

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Fairbrother, W.G., Holste, D., Burge, C.B., and Sharp, P.A. (2004a). Single nucleotide polymorphism-based validation of exonic splicing enhancers. PLoS Biol. 2, e268. (PMID: 15340491; PMCID: PMC514884)

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Fairbrother, W.G., Yeo, G.W., Yeh, R., Goldstein, P., Mawson, M., Sharp, P.A., and Burge, C.B. (2004b). RESCUE-ESE identifies candidate exonic splicing enhancers in vertebrate exons. Nucleic Acids Res. 32, W187-190. (PMID: 15215377; PMCID: PMC441531)

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Pfarr, N., Prawitt, D., Kirschfink, M., Schroff, C., Knuf, M., Habermehl, P., Mannhardt, W., Zepp, F., Fairbrother, W.G., Loos, M., Burge, C.B., and Pohlenz, J. (2005). Linking C5 deficiency to an exonic splicing enhancer mutation. J. Immunol. 174, 4172-4177. (PMID: 15778377; PMCID: Not available)

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Fairbrother, W.G., and Lipscombe, D. (2008). Repressing the neuron within. BioEssays 30, 1-4. (PMID: 18081004; PMCID: PMC2593115)

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Tantin, D., Gemberling, M., Callister, C., and Fairbrother, W.G. (2008). High-throughput biochemical analysis of in vivo location data reveals novel distinct classes of POU5F1(Oct4)/DNA complexes. Genome Res. 18, 631-639. (PMID: 18212089; PMCID: PMC2279250)

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Kang, J., Gemberling, M., Nakamura, M., Whitby, F.G., Handa, H., Fairbrother, W.G., and Tantin, D. (2009). A general mechanism for transcription regulation by Oct1 and Oct4 in response to genotoxic and oxidative stress. Genes Dev. 23, 208-222. (PMID: 19171782; PMCID: PMC2648538)

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Reid, D.C., Chang, B.L., Gunderson, S.I., Alpert, L., Thompson, W.A., and Fairbrother, W.G. (2009). Next-generation SELEX identifies sequence and structural determinants of splicing factor binding in human pre-mRNA sequence. RNA 15, 2385-2397. (PMID: 19861426; PMCID: PMC2779669)

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Watkins, K.H., Stewart, A., and Fairbrother, W. (2009). A rapid high-throughput method for mapping ribonucleoproteins (RNPs) on human pre-mRNA. J. Vis. Exp. 34, pii622. (PMID: 19956082; PMCID: PMC3152247)

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Chang, B., Levin, J., Thompson, W.A., and Fairbrother, W.G. (2010). High-throughput binding analysis determines the binding specificity of ASF/SF2 on alternatively spliced human pre-mRNAs. Comb. Chem. High Throughput Screen. 13, 242-252. (PMID: 20015017; PMCID: PMC3427726)

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Ferraris, L., Stewart, A.P., Gemberling, M.P., Reid, D.C., Lapadula, M.J., Thompson, W.A., and Fairbrother, W.G. (2011a). High-throughput mapping of protein occupancy identifies functional elements without the restriction of a candidate factor approach. Nucleic Acids Res. 39, e33. (PMID: 21169336; PMCID: PMC3064794)

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Ferraris, L., Stewart, A.P., Kang, J., DeSimone, A.M., Gemberling, M., Tantin, D., and Fairbrother, W.G. (2011b). Combinatorial binding of transcription factors in the pluripotency control regions of the genome. Genome Res. 21, 1055-1064. (PMID: 21527551; PMCID: PMC3129248)

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Lim, K.H., Ferraris, L., Filloux, M.E., Raphael, B.J., and Fairbrother, W.G. (2011). Using positional distribution to identify splicing elements and predict pre-mRNA processing defects in human genes. Proc. Natl. Acad. Sci. USA 108, 11093-11098. (PMID: 21685335; PMCID: PMC3131313)

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Waugh, J.L., Celver, J., Sharma, M., Dufresne, R.L., Terzi, D., Risch, S.C., Fairbrother, W.G., Neve, R.L., Kane, J.P., Malloy, M.J., Pullinger, C.R., Gu, H.F., Tsatsanis, C., Hamilton, S P., Gold, S.J., Zachariou, V., and Kovoor, A. (2011). Association between regulator of G protein signaling 9-2 and body weight. PLoS One 6, e27984. (PMID: 22132185; PMCID: PMC3223194)

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Lim, K.H., and Fairbrother, W.G. (2012). Spliceman--a computational web server that predicts sequence variations in pre-mRNA splicing. Bioinformatics 28, 1031-1032. (PMID: 22328782; PMCID: PMC3315715)

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Taggart, A.J., DeSimone, A.M., Shih, J.S., Filloux, M.E., and Fairbrother, W.G. (2012). Large-scale mapping of branchpoints in human pre-mRNA transcripts in vivo. Nat. Struct. Mol. Biol. 19, 719-721. (PMID: 22705790; PMCID: PMC3465671)

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Yajima, M., Fairbrother, W.G., and Wessel, G.M. (2012). ISWI contributes to ArsI insulator function in development of the sea urchin. Development 139, 3613-3622. (PMID: 22949616; PMCID: PMC3436113)

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Ceyhan-Birsoy, O., Agrawal, P.B., Hidalgo, C., Schmitz-Abe, K., Dechene, E.T., Swanson, L.C., Soemedi, R., Vasli, N., Iannaccone, S.T., Shieh, P.B., Shur, N., Dennison, J.M., Lawlor, M.W., Laporte, J., Markianos, K., Fairbrother, W.G., Granzier, H., and Beggs, A.H. (2013). Recessive truncating titin gene, TTN, mutations presenting as centronuclear myopathy. Neurology 81, 1205-1214. (PMID: 23975875; PMCID: PMC3795603)

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Brownstein, C.A., Beggs, A.H., Homer, N., Merriman, B., Yu, T.W., Flannery, K.C., DeChene, E.T., Towne, M.C., Savage, S.K., Price, E.N., Holm, I.A., Luquette, L.J., Lyon, E., Majzoub, J., Neupert, P., McCallie, D. Jr., Szolovits, P., Willard, H.F., Mendelsohn, N.J., Temme, R., Finkel, R.S., Yum, S.W., Medne, L., Sunyaev, S.R., Adzhubey, I., Cassa, C.A., de Bakker, P.I., Duzkale, H., Dworzyński, P., Fairbrother, W., Francioli, L., Funke, B.H., Giovanni, M.A., Handsaker, R.E., Lage, K., Lebo, M.S., Lek, M., Leshchiner, I., MacArthur, D.G., McLaughlin, H.M., Murray, M.F., Pers, T.H., Polak, P.P., Raychaudhuri, S., Rehm, H.L., Soemedi, R., Stitziel, N.O., Vestecka, S., Supper, J., Gugenmus, C., Klocke, B., Hahn, A., Schubach, M., Menzel, M., Biskup, S., Freisinger, P., Deng, M., Braun, M., Perner, S., Smith, R.J., Andorf, J.L., Huang, J., Ryckman, K., Sheffield, V.C., Stone, E.M., Bair, T., Black-Ziegelbein, E.A., Braun, T.A., Darbro, B., DeLuca, A.P., Kolbe, D.L., Scheetz, T.E., Shearer, A.E., Sompallae, R., Wang, K., Bassuk, A.G., Edens, E., Mathews, K., Moore, S.A., Shchelochkov, O.A., Trapane, P., Bossler, A., Campbell, C.A., Heusel, J.W., Kwitek, A., Maga, T., Panzer, K., Wassink, T., Van Daele, D., Azaiez, H., Booth, K., Meyer, N., Segal, M.M., Williams, M.S., Tromp, G., White, P., Corsmeier, D., Fitzgerald-Butt, S., Herman, G., Lamb-Thrush, D., McBride, K.L., Newsom, D., Pierson, C.R., Rakowsky, A.T., Maver, A., Lovrečić, L., Palandačić, A., Peterlin, B., Torkamani, A., Wedell, A., Huss, M., Alexeyenko, A., Lindvall, J.M., Magnusson, M., Nilsson, D., Stranneheim, H., Taylan, F., Gilissen, C., Hoischen, A., van Bon, B., Yntema, H., Nelen, M., Zhang, W., Sager, J., Zhang, L., Blair, K., Kural, D., Cariaso, M., Lennon, G.G., Javed, A., Agrawal, S., Ng, P.C., Sandhu, K.S., Krishna, S., Veeramachaneni, V., Isakov, O., Halperin, E., Friedman, E., Shomron, N., Glusman, G., Roach, J.C., Caballero, J., Cox, H.C., Mauldin, D., Ament, S.A., Rowen, L., Richards, D.R., San Lucas, F.A., Gonzalez-Garay, M.L., Caskey, C.T., Bai, Y., Huang, Y., Fang, F., Zhang, Y., Wang, Z., Barrera, J., Garcia-Lobo, J.M., González-Lamuño, D., Llorca, J., Rodriguez, M.C., Varela, I., Reese, M.G., De La Vega, F.M., Kiruluta, E., Cargill, M., Hart, R.K., Sorenson, J.M., Lyon, G.J., Stevenson, D.A., Bray, B.E., Moore, B.M., Eilbeck, K., Yandell, M., Zhao, H., Hou, L., Chen, X., Yan, X., Chen, M., Li, C., Yang, C., Gunel, M., Li, P., Kong, Y., Alexander, A.C., Albertyn, Z.I., Boycott, K.M., Bulman, D.E., Gordon, P.M., Innes, A.M., Knoppers, B.M., Majewski, J., Marshall, C.R., Parboosingh, J.S., Sawyer, S.L., Samuels, M.E., Schwartzentruber, J., Kohane, I.S., and Margulies, D.M. (2014). An international effort towards developing standards for best practices in analysis, interpretation and reporting of clinical genome sequencing results in the CLARITY Challenge. Genome Biol. 15, R53. (PMID: 24667040; PMCID: PMC4073084)

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Soemedi, R., Vega, H., Belmont, J.M., Ramachandran, S., and Fairbrother, W.G. (2014). Genetic variation and RNA binding proteins: tools and techniques to detect functional polymorphisms. Adv. Exp. Med. Biol. 825, 227-266. (PMID: 25201108)

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Shen, C., Sharma, M., Reid, D.C., Li, P., Celver, J., Seman, N.A., Chen, J., Vasan, S.K., Wang, H., Gu, T., Liu, Y., Nazaimoon, W., Mohamud, W., Shen, H., Brismar, K., Fairbrother, W.G., Kovoor, A., and Gu, H.F. (2014). A polymorphic microdeletion in the RGS9 gene suppresses PTB binding and associates with obesity. J. Diabetes Metab. 5, 437. doi:10.4172/2155-6156.1000437

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