High-throughput characterization of protein–RNA interactions

per Cook, Kate B., Hughes, Timothy R., Morris, Quaid D.
Publicat a Brief Funct Genomics (2015)

Finding the target sites of RNA-binding proteins

per Li, Xiao, Kazan, Hilal, Lipshitz, Howard D, Morris, Quaid D
Publicat a Wiley Interdiscip Rev RNA (2014)

RNAcompete methodology and application to determine sequence preferences of unconventional RNA-binding proteins

per Ray, Debashish, Ha, Kevin C.H., Nie, Kate, Zheng, Hong, Hughes, Timothy R., Morris, Quaid D.
Publicat a Methods (2016)

Detection and discovery of RNA modifications using microarrays

per Hiley, Shawna L., Jackman, Jane, Babak, Tomas, Trochesset, Miles, Morris, Quaid D., Phizicky, Eric, Hughes, Timothy R.
Publicat 2005

ISOpureR: an R implementation of a computational purification algorithm of mixed tumour profiles

per Anghel, Catalina V, Quon, Gerald, Haider, Syed, Nguyen, Francis, Deshwar, Amit G, Morris, Quaid D, Boutros, Paul C
Publicat a BMC Bioinformatics (2015)

Genome-wide analysis of Staufen-associated mRNAs identifies secondary structures that confer target specificity

per Laver, John D., Li, Xiao, Ancevicius, Kristin, Westwood, J. Timothy, Smibert, Craig A., Morris, Quaid D., Lipshitz, Howard D.
Publicat 2013

Reconstructing evolutionary trajectories of mutation signature activities in cancer using TrackSig

per Rubanova, Yulia, Shi, Ruian, Harrigan, Caitlin F., Li, Roujia, Wintersinger, Jeff, Sahin, Nil, Deshwar, Amit G., Morris, Quaid D.
Publicat a Nat Commun (2020)

Quantifying the influence of mutation detection on tumour subclonal reconstruction

per Liu, Lydia Y., Bhandari, Vinayak, Salcedo, Adriana, Espiritu, Shadrielle M. G., Morris, Quaid D., Kislinger, Thomas, Boutros, Paul C.
Publicat a Nat Commun (2020)

A unified model for yeast transcript definition

per de Boer, Carl G., van Bakel, Harm, Tsui, Kyle, Li, Joyce, Morris, Quaid D., Nislow, Corey, Greenblatt, Jack F., Hughes, Timothy R.
Publicat 2014

A practical guide to cancer subclonal reconstruction from DNA sequencing

per Tarabichi, Maxime, Salcedo, Adriana, Deshwar, Amit G., Leathlobhair, Máire Ni, Wintersinger, Jeff, Wedge, David C., Loo, Peter Van, Morris, Quaid D., Boutros, Paul C.
Publicat a Nat Methods (2021)

Identifying transcription factor functions and targets by phenotypic activation

per Chua, Gordon, Morris, Quaid D., Sopko, Richelle, Robinson, Mark D., Ryan, Owen, Chan, Esther T., Frey, Brendan J., Andrews, Brenda J., Boone, Charles, Hughes, Timothy R.
Publicat 2006

Neutral tumor evolution?

per Tarabichi, Maxime, Martincorena, Iñigo, Gerstung, Moritz, Leroi, Armand M., Markowetz, Florian, Spellman, Paul T., Morris, Quaid D., Lingjærde, Ole Christian, Wedge, David C., Van Loo, Peter
Publicat a Nat Genet (2018)

Oncogenic activation of the RNA binding protein NELFE and MYC signaling in hepatocellular carcinoma

per Dang, Hien, Takai, Atsushi, Forgues, Marshonna, Pomyen, Yotsowat, Mou, Haiwei, Xue, Wen, Ray, Debashish, Ha, Kevin C. H., Morris, Quaid D., Hughes, Timothy R., Wang, Xin Wei
Publicat a Cancer Cell (2017)

Predicting the binding preference of transcription factors to individual DNA k-mers

per Alleyne, Trevis M., Peña-Castillo, Lourdes, Badis, Gwenael, Talukder, Shaheynoor, Berger, Michael F., Gehrke, Andrew R., Philippakis, Anthony A., Bulyk, Martha L., Morris, Quaid D., Hughes, Timothy R.
Publicat 2009

Conservation of core gene expression in vertebrate tissues

per Chan, Esther T, Quon, Gerald T, Chua, Gordon, Babak, Tomas, Trochesset, Miles, Zirngibl, Ralph A, Aubin, Jane, Ratcliffe, Michael JH, Wilde, Andrew, Brudno, Michael, Morris, Quaid D, Hughes, Timothy R
Publicat 2009

A deep learning system accurately classifies primary and metastatic cancers using passenger mutation patterns

per Jiao, Wei, Atwal, Gurnit, Polak, Paz, Karlic, Rosa, Cuppen, Edwin, Danyi, Alexandra, de Ridder, Jeroen, van Herpen, Carla, Lolkema, Martijn P., Steeghs, Neeltje, Getz, Gad, Morris, Quaid D., Stein, Lincoln D.
Publicat a Nat Commun (2020)

Evaluation of methods for modeling transcription-factor sequence specificity

per Weirauch, Matthew T., Cote, Atina, Norel, Raquel, Annala, Matti, Zhao, Yue, Riley, Todd R., Saez-Rodriguez, Julio, Cokelaer, Thomas, Vedenko, Anastasia, Talukder, Shaheynoor, Bussemaker, Harmen J., Morris, Quaid D., Bulyk, Martha L., Stolovitzky, Gustavo, Hughes, Timothy R.
Publicat 2013

Variation in homeodomain DNA-binding revealed by high-resolution analysis of sequence preferences

per Berger, Michael F., Badis, Gwenael, Gehrke, Andrew R., Talukder, Shaheynoor, Philippakis, Anthony A., Peña-Castillo, Lourdes, Alleyne, Trevis M., Mnaimneh, Sanie, Botvinnik, Olga B., Chan, Esther T., Khalid, Faiqua, Zhang, Wen, Newburger, Daniel, Jaeger, Savina, Morris, Quaid D., Bulyk, Martha L., Hughes, Timothy R.
Publicat 2008

ARGLU1 is a transcriptional coactivator and splicing regulator important for stress hormone signaling and development

per Magomedova, Lilia, Tiefenbach, Jens, Zilberman, Emma, Le Billan, Florian, Voisin, Veronique, Saikali, Michael, Boivin, Vincent, Robitaille, Melanie, Gueroussov, Serge, Irimia, Manuel, Ray, Debashish, Patel, Rucha, Xu, ChangJiang, Jeyasuria, Pancharatnam, Bader, Gary D, Hughes, Timothy R, Morris, Quaid D, Scott, Michelle S, Krause, Henry, Angers, Stephane, Blencowe, Benjamin J, Cummins, Carolyn L
Publicat a Nucleic Acids Res (2019)

The TRIM-NHL protein NHL-2 is a co-factor in the nuclear and somatic RNAi pathways in C. elegans

per Davis, Gregory M, Tu, Shikui, Anderson, Joshua WT, Colson, Rhys N, Gunzburg, Menachem J, Francisco, Michelle A, Ray, Debashish, Shrubsole, Sean P, Sobotka, Julia A, Seroussi, Uri, Lao, Robert X, Maity, Tuhin, Wu, Monica Z, McJunkin, Katherine, Morris, Quaid D, Hughes, Timothy R, Wilce, Jacqueline A, Claycomb, Julie M, Weng, Zhiping, Boag, Peter R
Publicat a eLife (2018)