Origin and evolution of the octoploid strawberry genome
Edger, Patrick P., Poorten, Thomas J., VanBuren, Robert, Hardigan, Michael A., Colle, Marivi, McKain, Michael R., Smith, Ronald D., Teresi, Scott J., Nelson, Andrew D. L., Wai, Ching Man, Alger, Elizabeth I., Bird, Kevin A., Yocca, Alan E., Pumplin, Nathan, Ou, Shujun, Ben-Zvi, Gil, Brodt, Avital, Baruch, Kobi, Swale, Thomas, Shiue, Lily, Acharya, Charlotte B., Cole, Glenn S., Mower, Jeffrey P., Childs, Kevin L., Jiang, Ning, Lyons, Eric, Freeling, Michael, Puzey, Joshua R., Knapp, Steven J.
Published in Nature genetics (01.03.2019)
Published in Nature genetics (01.03.2019)
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Long pre-mRNA depletion and RNA missplicing contribute to neuronal vulnerability from loss of TDP-43
Yeo, Gene W, Cleveland, Don W, Polymenidou, Magdalini, Lagier-Tourenne, Clotilde, Hutt, Kasey R, Huelga, Stephanie C, Moran, Jacqueline, Liang, Tiffany Y, Ling, Shuo-Chien, Sun, Eveline, Wancewicz, Edward, Mazur, Curt, Kordasiewicz, Holly, Sedaghat, Yalda, Donohue, John Paul, Shiue, Lily, Bennett, C Frank
Published in Nature neuroscience (01.04.2011)
Published in Nature neuroscience (01.04.2011)
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The splicing regulator Rbfox1 (A2BP1) controls neuronal excitation in the mammalian brain
Black, Douglas L, Gehman, Lauren T, Stoilov, Peter, Maguire, Jamie, Damianov, Andrey, Lin, Chia-Ho, Shiue, Lily, Ares, Manuel, Mody, Istvan
Published in Nature genetics (01.07.2011)
Published in Nature genetics (01.07.2011)
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The splicing regulator Rbfox2 is required for both cerebellar development and mature motor function
Gehman, Lauren T, Meera, Pratap, Stoilov, Peter, Shiue, Lily, O'Brien, Janelle E, Meisler, Miriam H, Ares, Jr, Manuel, Otis, Thomas S, Black, Douglas L
Published in Genes & development (01.03.2012)
Published in Genes & development (01.03.2012)
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Autogenous cross-regulation of Quaking mRNA processing and translation balances Quaking functions in splicing and translation
Fagg, W Samuel, Liu, Naiyou, Fair, Jeffrey Haskell, Shiue, Lily, Katzman, Sol, Donohue, John Paul, Ares, Jr, Manuel
Published in Genes & development (15.09.2017)
Published in Genes & development (15.09.2017)
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Distinct and shared functions of ALS-associated proteins TDP-43, FUS and TAF15 revealed by multisystem analyses
Kapeli, Katannya, Pratt, Gabriel A., Vu, Anthony Q., Hutt, Kasey R., Martinez, Fernando J., Sundararaman, Balaji, Batra, Ranjan, Freese, Peter, Lambert, Nicole J., Huelga, Stephanie C., Chun, Seung J., Liang, Tiffany Y., Chang, Jeremy, Donohue, John P., Shiue, Lily, Zhang, Jiayu, Zhu, Haining, Cambi, Franca, Kasarskis, Edward, Hoon, Shawn, Ares Jr, Manuel, Burge, Christopher B., Ravits, John, Rigo, Frank, Yeo, Gene W.
Published in Nature communications (05.07.2016)
Published in Nature communications (05.07.2016)
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Integrative Genome-wide Analysis Reveals Cooperative Regulation of Alternative Splicing by hnRNP Proteins
Huelga, Stephanie C., Vu, Anthony Q., Arnold, Justin D., Liang, Tiffany Y., Liu, Patrick P., Yan, Bernice Y., Donohue, John Paul, Shiue, Lily, Hoon, Shawn, Brenner, Sydney, Ares, Manuel, Yeo, Gene W.
Published in Cell reports (Cambridge) (23.02.2012)
Published in Cell reports (Cambridge) (23.02.2012)
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A post-transcriptional regulatory switch in polypyrimidine tract-binding proteins reprograms alternative splicing in developing neurons
Boutz, Paul L, Stoilov, Peter, Li, Qin, Lin, Chia-Ho, Chawla, Geetanjali, Ostrow, Kristin, Shiue, Lily, Ares, Jr, Manuel, Black, Douglas L
Published in Genes & development (01.07.2007)
Published in Genes & development (01.07.2007)
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Evidence for convergent evolution of SINE-directed Staufen-mediated mRNA decay
Lucas, Bronwyn A., Lavi, Eitan, Shiue, Lily, Cho, Hana, Katzman, Sol, Miyoshi, Keita, Siomi, Mikiko C., Carmel, Liran, Ares, Manuel, Maquat, Lynne E.
Published in Proceedings of the National Academy of Sciences - PNAS (30.01.2018)
Published in Proceedings of the National Academy of Sciences - PNAS (30.01.2018)
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Aberrant alternative splicing and extracellular matrix gene expression in mouse models of myotonic dystrophy
Osborne, Robert J, Shiue, Lily, Swanson, Maurice S, Du, Hongqing, Cline, Melissa S, Tuttle, Daniel L, Clark, Tyson A, Donohue, John Paul, Thornton, Charles A, Hall, Megan P, Ares, Manuel
Published in Nature structural & molecular biology (01.02.2010)
Published in Nature structural & molecular biology (01.02.2010)
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Competition between Pre-mRNAs for the Splicing Machinery Drives Global Regulation of Splicing
Munding, Elizabeth M., Shiue, Lily, Katzman, Sol, Donohue, John Paul, Ares, Manuel
Published in Molecular cell (08.08.2013)
Published in Molecular cell (08.08.2013)
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Quaking and PTB control overlapping splicing regulatory networks during muscle cell differentiation
Hall, Megan P, Nagel, Roland J, Fagg, W Samuel, Shiue, Lily, Cline, Melissa S, Perriman, Rhonda J, Donohue, John Paul, Ares, Jr, Manuel
Published in RNA (Cambridge) (01.05.2013)
Published in RNA (Cambridge) (01.05.2013)
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Journal Article
Rapidly evolving protointrons in Saccharomyces genomes revealed by a hungry spliceosome
Talkish, Jason, Igel, Haller, Perriman, Rhonda J, Shiue, Lily, Katzman, Sol, Munding, Elizabeth M, Shelansky, Robert, Donohue, John Paul, Ares, Jr, Manuel
Published in PLoS genetics (22.08.2019)
Published in PLoS genetics (22.08.2019)
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Journal Article
Correction: Rapidly evolving protointrons in Saccharomyces genomes revealed by a hungry spliceosome
Talkish, Jason, Igel, Haller, Perriman, Rhonda J, Shiue, Lily, Katzman, Sol, Munding, Elizabeth M, Shelansky, Robert, Donohue, John Paul, Ares, Jr, Manuel
Published in PLoS genetics (27.05.2020)
Published in PLoS genetics (27.05.2020)
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Journal Article
Sam68 Regulates a Set of Alternatively Spliced Exons during Neurogenesis
Chawla, Geetanjali, Lin, Chia-Ho, Han, Areum, Shiue, Lily, Ares, Manuel, Black, Douglas L.
Published in Molecular and Cellular Biology (01.01.2009)
Published in Molecular and Cellular Biology (01.01.2009)
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Journal Article
Rbfox1 downregulation and altered calpain 3 splicing by FRG1 in a mouse model of Facioscapulohumeral muscular dystrophy (FSHD)
Pistoni, Mariaelena, Shiue, Lily, Cline, Melissa S, Bortolanza, Sergia, Neguembor, Maria Victoria, Xynos, Alexandros, Ares, Jr, Manuel, Gabellini, Davide
Published in PLoS genetics (01.01.2013)
Published in PLoS genetics (01.01.2013)
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Haplotype-phased genome and evolution of phytonutrient pathways of tetraploid blueberry
Colle, Marivi, Leisner, Courtney P, Wai, Ching Man, Ou, Shujun, Bird, Kevin A, Wang, Jie, Wisecaver, Jennifer H, Yocca, Alan E, Alger, Elizabeth I, Tang, Haibao, Xiong, Zhiyong, Callow, Pete, Ben-Zvi, Gil, Brodt, Avital, Baruch, Kobi, Swale, Thomas, Shiue, Lily, Song, Guo-qing, Childs, Kevin L, Schilmiller, Anthony, Vorsa, Nicholi, Buell, C Robin, VanBuren, Robert, Jiang, Ning, Edger, Patrick P
Published in Gigascience (31.01.2019)
Published in Gigascience (31.01.2019)
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Journal Article
Detection and measurement of alternative splicing using splicing-sensitive microarrays
Srinivasan, Karpagam, Shiue, Lily, Hayes, Justin D., Centers, Ross, Fitzwater, Sean, Loewen, Rebecca, Edmondson, Lillian R., Bryant, Jessica, Smith, Michael, Rommelfanger, Claire, Welch, Valerie, Clark, Tyson A., Sugnet, Charles W., Howe, Kenneth J., Mandel-Gutfreund, Yael, Ares, Manuel
Published in Methods (San Diego, Calif.) (01.12.2005)
Published in Methods (San Diego, Calif.) (01.12.2005)
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Journal Article
Developmental expression profile of quaking, a candidate gene for schizophrenia, and its target genes in human prefrontal cortex and hippocampus shows regional specificity
Lauriat, Tara L., Shiue, Lily, Haroutunian, Vahram, Verbitsky, Miguel, Ares Jr, Manuel, Ospina, Luz, McInnes, L. Alison
Published in Journal of neuroscience research (01.03.2008)
Published in Journal of neuroscience research (01.03.2008)
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