GC-biased evolution near human accelerated regions.

by Sol Katzman, Andrew D Kern, Katherine S Pollard, Sofie R Salama, David Haussler
Published 2010-05-01

ProTECT—Prediction of T-Cell Epitopes for Cancer Therapy

by Arjun A. Rao, Arjun A. Rao, Arjun A. Rao, Ada A. Madejska, Ada A. Madejska, Jacob Pfeil, Jacob Pfeil, Jacob Pfeil, Benedict Paten, Benedict Paten, Benedict Paten, Sofie R. Salama, Sofie R. Salama, Sofie R. Salama, David Haussler, David Haussler, David Haussler, David Haussler
Published 2020-11-01

Gene isoform specificity through enhancer-associated antisense transcription.

by Courtney S Onodera, Jason G Underwood, Sol Katzman, Frank Jacobs, David Greenberg, Sofie R Salama, David Haussler
Published 2012-01-01

The UCSC repeat browser allows discovery and visualization of evolutionary conflict across repeat families

by Jason D. Fernandes, Armando Zamudio-Hurtado, Hiram Clawson, W. James Kent, David Haussler, Sofie R. Salama, Maximilian Haeussler
Published 2020-03-01

A Recurrent Mutation in Anaplastic Lymphoma Kinase with Distinct Neoepitope Conformations

by Jugmohit S. Toor, Arjun A. Rao, Andrew C. McShan, Mark Yarmarkovich, Santrupti Nerli, Santrupti Nerli, Karissa Yamaguchi, Ada A. Madejska, Son Nguyen, Sarvind Tripathi, John M. Maris, Sofie R. Salama, Sofie R. Salama, David Haussler, David Haussler, Nikolaos G. Sgourakis
Published 2018-01-01

Forces shaping the fastest evolving regions in the human genome.

by Katherine S Pollard, Sofie R Salama, Bryan King, Andrew D Kern, Tim Dreszer, Sol Katzman, Adam Siepel, Jakob S Pedersen, Gill Bejerano, Robert Baertsch, Kate R Rosenbloom, Jim Kent, David Haussler
Published 2006-10-01

Structurally Conserved Primate LncRNAs Are Transiently Expressed during Human Cortical Differentiation and Influence Cell-Type-Specific Genes

by Andrew R. Field, Frank M.J. Jacobs, Ian T. Fiddes, Alex P.R. Phillips, Andrea M. Reyes-Ortiz, Erin LaMontagne, Lila Whitehead, Vincent Meng, Jimi L. Rosenkrantz, Mari Olsen, Max Hauessler, Sol Katzman, Sofie R. Salama, David Haussler
Published 2019-02-01

Hydra: A mixture modeling framework for subtyping pediatric cancer cohorts using multimodal gene expression signatures.

by Jacob Pfeil, Lauren M Sanders, Ioannis Anastopoulos, A Geoffrey Lyle, Alana S Weinstein, Yuanqing Xue, Andrew Blair, Holly C Beale, Alex Lee, Stanley G Leung, Phuong T Dinh, Avanthi Tayi Shah, Marcus R Breese, W Patrick Devine, Isabel Bjork, Sofie R Salama, E Alejandro Sweet-Cordero, David Haussler, Olena Morozova Vaske
Published 2020-04-01

A Distinct DNA Methylation Shift in a Subset of Glioma CpG Island Methylator Phenotypes during Tumor Recurrence

by Camila Ferreira de Souza, Thais S. Sabedot, Tathiane M. Malta, Lindsay Stetson, Olena Morozova, Artem Sokolov, Peter W. Laird, Maciej Wiznerowicz, Antonio Iavarone, James Snyder, Ana deCarvalho, Zachary Sanborn, Kerrie L. McDonald, William A. Friedman, Daniela Tirapelli, Laila Poisson, Tom Mikkelsen, Carlos G. Carlotti, Jr., Steven Kalkanis, Jean Zenklusen, Sofie R. Salama, Jill S. Barnholtz-Sloan, Houtan Noushmehr
Published 2018-04-01