Integrative deep models for alternative splicing

por Jha, Anupama, Gazzara, Matthew R, Barash, Yoseph
Publicado 2017

Mutator dynamics in sexual and asexual experimental populations of yeast

por Raynes, Yevgeniy, Gazzara, Matthew R, Sniegowski, Paul D
Publicado 2011

MAJIQ-SPEL: web-tool to interrogate classical and complex splicing variations from RNA-Seq data

por Green, Christopher J, Gazzara, Matthew R, Barash, Yoseph
Publicado 2018

Alternative splicing of apoptosis genes promotes human T cell survival

por Blake, Davia, Radens, Caleb M, Ferretti, Max B, Gazzara, Matthew R, Lynch, Kristen W
Publicado 2022

Position-dependent activity of CELF2 in the regulation of splicing and implications for signal-responsive regulation in T cells

por Ajith, Sandya, Gazzara, Matthew R., Cole, Brian S., Shankarling, Ganesh, Martinez, Nicole M., Mallory, Michael J., Lynch, Kristen W.
Publicado 2016

Ancient antagonism between CELF and RBFOX families tunes mRNA splicing outcomes

por Gazzara, Matthew R., Mallory, Michael J., Roytenberg, Renat, Lindberg, John P., Jha, Anupama, Lynch, Kristen W., Barash, Yoseph
Publicado 2017

Reciprocal regulation of hnRNP C and CELF2 through translation and transcription tunes splicing activity in T cells

por Mallory, Michael J, McClory, Sean P, Chatrikhi, Rakesh, Gazzara, Matthew R, Ontiveros, Robert J, Lynch, Kristen W
Publicado 2020

Deep profiling and custom databases improve detection of proteoforms generated by alternative splicing

por Agosto, Laura M., Gazzara, Matthew R., Radens, Caleb M., Sidoli, Simone, Baeza, Josue, Garcia, Benjamin A., Lynch, Kristen W.
Publicado 2019

Widespread JNK-dependent alternative splicing induces a positive feedback loop through CELF2-mediated regulation of MKK7 during T-cell activation

por Martinez, Nicole M., Agosto, Laura, Qiu, Jinsong, Mallory, Michael J., Gazzara, Matthew R., Barash, Yoseph, Fu, Xiang-dong, Lynch, Kristen W.
Publicado 2015

Alternative splicing of HDAC7 regulates its interaction with 14-3-3 proteins to alter histone marks and target gene expression

por Agosto, Laura M., Mallory, Michael J., Ferretti, Max B., Blake, Davia, Krick, Keegan S., Gazzara, Matthew R., Garcia, Benjamin A., Lynch, Kristen W.
Publicado 2023

A new view of transcriptome complexity and regulation through the lens of local splicing variations

por Vaquero-Garcia, Jorge, Barrera, Alejandro, Gazzara, Matthew R, González-Vallinas, Juan, Lahens, Nicholas F, Hogenesch, John B, Lynch, Kristen W, Barash, Yoseph
Publicado 2016

RNA Binding Protein CELF2 Regulates Signal-Induced Alternative Polyadenylation by Competing with Enhancers of the Polyadenylation Machinery

por Chatrikhi, Rakesh, Mallory, Michael J., Gazzara, Matthew R., Agosto, Laura M., Zhu, Wandi S., Litterman, Adam J., Ansel, K. Mark, Lynch, Kristen W.
Publicado 2019

RNA splicing analysis using heterogeneous and large RNA-seq datasets

por Vaquero-Garcia, Jorge, Aicher, Joseph K., Jewell, San, Gazzara, Matthew R., Radens, Caleb M., Jha, Anupama, Norton, Scott S., Lahens, Nicholas F., Grant, Gregory R., Barash, Yoseph
Publicado 2023

Co-regulatory activity of hnRNP K and NS1-BP in influenza and human mRNA splicing

por Thompson, Matthew G., Muñoz-Moreno, Raquel, Bhat, Prasanna, Roytenberg, Renat, Lindberg, John, Gazzara, Matthew R., Mallory, Michael J., Zhang, Ke, García-Sastre, Adolfo, Fontoura, Beatriz M. A., Lynch, Kristen W.
Publicado 2018

An ancient germ cell-specific RNA-binding protein protects the germline from cryptic splice site poisoning

por Ehrmann, Ingrid, Crichton, James H, Gazzara, Matthew R, James, Katherine, Liu, Yilei, Grellscheid, Sushma Nagaraja, Curk, Tomaž, de Rooij, Dirk, Steyn, Jannetta S, Cockell, Simon, Adams, Ian R, Barash, Yoseph, Elliott, David J
Publicado 2019

Aberrant splicing in B-cell acute lymphoblastic leukemia

por Black, Kathryn L, Naqvi, Ammar S, Asnani, Mukta, Hayer, Katharina E, Yang, Scarlett Y, Gillespie, Elisabeth, Bagashev, Asen, Pillai, Vinodh, Tasian, Sarah K, Gazzara, Matthew R, Carroll, Martin, Taylor, Deanne, Lynch, Kristen W, Barash, Yoseph, Thomas-Tikhonenko, Andrei
Publicado 2018

Aberrant splicing in B-cell acute lymphoblastic leukemia

por Black, Kathryn L, Naqvi, Ammar S, Asnani, Mukta, Hayer, Katharina E, Yang, Scarlett Y, Gillespie, Elisabeth, Bagashev, Asen, Pillai, Vinodh, Tasian, Sarah K, Gazzara, Matthew R, Carroll, Martin, Taylor, Deanne, Lynch, Kristen W, Barash, Yoseph, Thomas-Tikhonenko, Andrei
Publicado 2019

Retention of CD19 intron 2 contributes to CART-19 resistance in leukemias with subclonal frameshift mutations in CD19

por Asnani, Mukta, Hayer, Katharina E., Naqvi, Ammar S., Zheng, Sisi, Yang, Scarlett Y., Oldridge, Derek, Ibrahim, Fadia, Maragkakis, Manolis, Gazzara, Matthew R., Black, Kathryn L., Bagashev, Asen, Taylor, Deanne, Mourelatos, Zissimos, Grupp, Stephan A., Barrett, David, Maris, John M., Sotillo, Elena, Barash, Yoseph, Thomas-Tikhonenko, Andrei
Publicado 2019

A SLM2 Feedback Pathway Controls Cortical Network Activity and Mouse Behavior

por Ehrmann, Ingrid, Gazzara, Matthew R., Pagliarini, Vittoria, Dalgliesh, Caroline, Kheirollahi-Chadegani, Mahsa, Xu, Yaobo, Cesari, Eleonora, Danilenko, Marina, Maclennan, Marie, Lowdon, Kate, Vogel, Tanja, Keskivali-Bond, Piia, Wells, Sara, Cater, Heather, Fort, Philippe, Santibanez-Koref, Mauro, Middei, Silvia, Sette, Claudio, Clowry, Gavin J., Barash, Yoseph, Cunningham, Mark O., Elliott, David J.
Publicado 2016

Extensible benchmarking of methods that identify and quantify polyadenylation sites from RNA-seq data

por Bryce-Smith, Sam, Burri, Dominik, Gazzara, Matthew R., Herrmann, Christina J., Danecka, Weronika, Fitzsimmons, Christina M., Wan, Yuk Kei, Zhuang, Farica, Fansler, Mervin M., Fernández, José M., Ferret, Meritxell, Gonzalez-Uriarte, Asier, Haynes, Samuel, Herdman, Chelsea, Kanitz, Alexander, Katsantoni, Maria, Marini, Federico, McDonnel, Euan, Nicolet, Ben, Poon, Chi-Lam, Rot, Gregor, Schärfen, Leonard, Wu, Pin-Jou, Yoon, Yoseop, Barash, Yoseph, Zavolan, Mihaela
Publicado 2023