CauseMap: fast inference of causality from complex time series

by M. Cyrus Maher, Ryan D. Hernandez
Published 2015-03-01

Correction: Human demographic history has amplified the effects of background selection across the genome.

by Raul Torres, Zachary A Szpiech, Ryan D Hernandez
Published 2019-01-01

Human demographic history has amplified the effects of background selection across the genome.

by Raul Torres, Zachary A Szpiech, Ryan D Hernandez
Published 2018-06-01

A population genetics-phylogenetics approach to inferring natural selection in coding sequences.

by Daniel J Wilson, Ryan D Hernandez, Peter Andolfatto, Molly Przeworski
Published 2011-12-01

Inferring the joint demographic history of multiple populations from multidimensional SNP frequency data.

by Ryan N Gutenkunst, Ryan D Hernandez, Scott H Williamson, Carlos D Bustamante
Published 2009-10-01

Recent shifts in the genomic ancestry of Mexican Americans may alter the genetic architecture of biomedical traits

by Melissa L Spear, Alex Diaz-Papkovich, Elad Ziv, Joseph M Yracheta, Simon Gravel, Dara G Torgerson, Ryan D Hernandez
Published 2020-12-01

Prominent features of the amino acid mutation landscape in cancer.

by Zachary A Szpiech, Nicolas B Strauli, Katharine A White, Diego Garrido Ruiz, Matthew P Jacobson, Diane L Barber, Ryan D Hernandez
Published 2017-01-01

Evolutionary processes acting on candidate cis-regulatory regions in humans inferred from patterns of polymorphism and divergence.

by Dara G Torgerson, Adam R Boyko, Ryan D Hernandez, Amit Indap, Xiaolan Hu, Thomas J White, John J Sninsky, Michele Cargill, Mark D Adams, Carlos D Bustamante, Andrew G Clark
Published 2009-08-01

Genome-wide patterns of nucleotide polymorphism in domesticated rice.

by Ana L Caicedo, Scott H Williamson, Ryan D Hernandez, Adam Boyko, Adi Fledel-Alon, Thomas L York, Nicholas R Polato, Kenneth M Olsen, Rasmus Nielsen, Susan R McCouch, Carlos D Bustamante, Michael D Purugganan
Published 2007-09-01

Assessing the evolutionary impact of amino acid mutations in the human genome.

by Adam R Boyko, Scott H Williamson, Amit R Indap, Jeremiah D Degenhardt, Ryan D Hernandez, Kirk E Lohmueller, Mark D Adams, Steffen Schmidt, John J Sninsky, Shamil R Sunyaev, Thomas J White, Rasmus Nielsen, Andrew G Clark, Carlos D Bustamante
Published 2008-05-01

Pooled Sequencing of Candidate Genes Implicates Rare Variants in the Development of Asthma Following Severe RSV Bronchiolitis in Infancy.

by Dara G Torgerson, Tusar Giri, Todd E Druley, Jie Zheng, Scott Huntsman, Max A Seibold, Andrew L Young, Toni Schweiger, Huiqing Yin-Declue, Geneline D Sajol, Kenneth B Schechtman, Ryan D Hernandez, Adrienne G Randolph, Leonard B Bacharier, Mario Castro
Published 2015-01-01

ROP: dumpster diving in RNA-sequencing to find the source of 1 trillion reads across diverse adult human tissues

by Serghei Mangul, Harry Taegyun Yang, Nicolas Strauli, Franziska Gruhl, Hagit T. Porath, Kevin Hsieh, Linus Chen, Timothy Daley, Stephanie Christenson, Agata Wesolowska-Andersen, Roberto Spreafico, Cydney Rios, Celeste Eng, Andrew D. Smith, Ryan D. Hernandez, Roel A. Ophoff, Jose Rodriguez Santana, Erez Y. Levanon, Prescott G. Woodruff, Esteban Burchard, Max A. Seibold, Sagiv Shifman, Eleazar Eskin, Noah Zaitlen
Published 2018-02-01

Association study in African-admixed populations across the Americas recapitulates asthma risk loci in non-African populations

by Michelle Daya, Nicholas Rafaels, Tonya M. Brunetti, Sameer Chavan, Albert M. Levin, Aniket Shetty, Christopher R. Gignoux, Meher Preethi Boorgula, Genevieve Wojcik, Monica Campbell, Candelaria Vergara, Dara G. Torgerson, Victor E. Ortega, Ayo Doumatey, Henry Richard Johnston, Nathalie Acevedo, Maria Ilma Araujo, Pedro C. Avila, Gillian Belbin, Eugene Bleecker, Carlos Bustamante, Luis Caraballo, Alvaro Cruz, Georgia M. Dunston, Celeste Eng, Mezbah U. Faruque, Trevor S. Ferguson, Camila Figueiredo, Jean G. Ford, Weiniu Gan, Pierre-Antoine Gourraud, Nadia N. Hansel, Ryan D. Hernandez, Edwin Francisco Herrera-Paz, Silvia Jiménez, Eimear E. Kenny, Jennifer Knight-Madden, Rajesh Kumar, Leslie A. Lange, Ethan M. Lange, Antoine Lizee, Pissamai Maul, Trevor Maul, Alvaro Mayorga, Deborah Meyers, Dan L. Nicolae, Timothy D. O’Connor, Ricardo Riccio Oliveira, Christopher O. Olopade, Olufunmilayo Olopade, Zhaohui S. Qin, Charles Rotimi, Nicolas Vince, Harold Watson, Rainford J. Wilks, James G. Wilson, Steven Salzberg, Carole Ober, Esteban G. Burchard, L. Keoki Williams, Terri H. Beaty, Margaret A. Taub, Ingo Ruczinski, Rasika A. Mathias, Kathleen C. Barnes, CAAPA
Published 2019-02-01

A continuum of admixture in the Western Hemisphere revealed by the African Diaspora genome

by Rasika Ann Mathias, Margaret A. Taub, Christopher R. Gignoux, Wenqing Fu, Shaila Musharoff, Timothy D. O'Connor, Candelaria Vergara, Dara G. Torgerson, Maria Pino-Yanes, Suyash S. Shringarpure, Lili Huang, Nicholas Rafaels, Meher Preethi Boorgula, Henry Richard Johnston, Victor E. Ortega, Albert M. Levin, Wei Song, Raul Torres, Badri Padhukasahasram, Celeste Eng, Delmy-Aracely Mejia-Mejia, Trevor Ferguson, Zhaohui S. Qin, Alan F. Scott, Maria Yazdanbakhsh, James G. Wilson, Javier Marrugo, Leslie A. Lange, Rajesh Kumar, Pedro C. Avila, L. Keoki Williams, Harold Watson, Lorraine B. Ware, Christopher Olopade, Olufunmilayo Olopade, Ricardo Oliveira, Carole Ober, Dan L. Nicolae, Deborah Meyers, Alvaro Mayorga, Jennifer Knight-Madden, Tina Hartert, Nadia N. Hansel, Marilyn G. Foreman, Jean G. Ford, Mezbah U. Faruque, Georgia M. Dunston, Luis Caraballo, Esteban G. Burchard, Eugene Bleecker, Maria Ilma Araujo, Edwin Francisco Herrera-Paz, Kimberly Gietzen, Wendy E. Grus, Michael Bamshad, Carlos D. Bustamante, Eimear E. Kenny, Ryan D. Hernandez, Terri H. Beaty, Ingo Ruczinski, Joshua Akey, CAAPA, Kathleen C. Barnes
Published 2016-10-01

Author Correction: Association study in African-admixed populations across the Americas recapitulates asthma risk loci in non-African populations

by Michelle Daya, Nicholas Rafaels, Tonya M. Brunetti, Sameer Chavan, Albert M. Levin, Aniket Shetty, Christopher R. Gignoux, Meher Preethi Boorgula, Genevieve Wojcik, Monica Campbell, Candelaria Vergara, Dara G. Torgerson, Victor E. Ortega, Ayo Doumatey, Henry Richard Johnston, Nathalie Acevedo, Maria Ilma Araujo, Pedro C. Avila, Gillian Belbin, Eugene Bleecker, Carlos Bustamante, Luis Caraballo, Alvaro Cruz, Georgia M. Dunston, Celeste Eng, Mezbah U. Faruque, Trevor S. Ferguson, Camila Figueiredo, Jean G. Ford, Weiniu Gan, Pierre-Antoine Gourraud, Nadia N. Hansel, Ryan D. Hernandez, Edwin Francisco Herrera-Paz, Silvia Jiménez, Eimear E. Kenny, Jennifer Knight-Madden, Rajesh Kumar, Leslie A. Lange, Ethan M. Lange, Antoine Lizee, Pissamai Maul, Trevor Maul, Alvaro Mayorga, Deborah Meyers, Dan L. Nicolae, Timothy D. O’Connor, Ricardo Riccio Oliveira, Christopher O. Olopade, Olufunmilayo Olopade, Zhaohui S. Qin, Charles Rotimi, Nicolas Vince, Harold Watson, Rainford J. Wilks, James G. Wilson, Steven Salzberg, Carole Ober, Esteban G. Burchard, L. Keoki Williams, Terri H. Beaty, Margaret A. Taub, Ingo Ruczinski, Rasika A. Mathias, Kathleen C. Barnes, CAAPA
Published 2019-09-01