Graim Lab

Research

The Graim lab develops computational genomics tools to study cancer causality and progression, patient-specific therapeutic response, and hidden molecular subtypes that are often disguised by noisy data and low sampling rates. We incorporate data from many species, allowing us to leverage significantly more data from which we discover hidden evolutionary patterns of cancer development and cellular response. Our overarching goals are to identify mechanisms of human diseases and to enable development of personalized therapies.

2024

James A. Cahill, Leslie A. Smith, Soumya Gottipati, Tina Salehi Torabi, Kiley Graim
Annual Review of Biomedical Data Science  ·  23 Aug 2024
Halie M. Rando, Kiley Graim, Greg Hampikian, Casey S. Greene
Journal of the American Veterinary Medical Association  ·  01 May 2024
Daniel Stribling, Yuxing Xia, Maha K. Amer, Kiley S. Graim, Connie J. Mulligan, Rolf Renne
Scientific Reports  ·  07 Mar 2024
Dawoud Sulaiman, Dongyuan Wu, Lauren Page Black, Kevin J. Williams, Kiley Graim, Susmita Datta, Srinivasa T. Reddy, Faheem W. Guirgis
Clinical and Translational Science  ·  01 Mar 2024
Zachary F. Greenberg, Samantha Ali, Thomas D. Schmittgen, Song Han, Steven J. Hughes, Kiley S. Graim, Mei He
Bioengineering  ·  08 Feb 2024

2023

Zachary F. Greenberg, Kiley S. Graim, Mei He
Advanced Drug Delivery Reviews  ·  01 Aug 2023
Faheem W. Guirgis, Vinitha Jacob, Dongyuan Wu, Morgan Henson, Kimberly Daly-Crews, Charlotte Hopson, Lauren Page Black, Elizabeth L. DeVos, Dawoud Sulaiman, Guillaume Labilloy, Todd M. Brusko, Jordan A. Shavit, Andrew Bertrand, Matthew Feldhammer, Brett Baskovich, Kiley Graim, Susmita Datta, Srinivasa T. Reddy
Critical Care Explorations  ·  14 Jun 2023

2022

Nathan D. Seligson, Joy Tang, Dexter X. Jin, Monica P. Bennett, Julia A. Elvin, Kiley Graim, John L. Hays, Sherri Z. Millis, Wayne O. Miles, James L. Chen
npj Precision Oncology  ·  01 Dec 2022
Sabyasachi Bandyopadhyay, Tyler J. Loftus, Ying-Chih Peng, Maria-Cecilia Lopez, Henry V. Baker, Mark S. Segal, Kiley Graim, Tezcan Ozrazgat-Baslanti, Parisa Rashidi, Azra Bihorac
Shock  ·  01 Jul 2022

2021

Kiley Graim, Dmitriy Gorenshteyn, David G. Robinson, Nicholas J. Carriero, James A. Cahill, Rumela Chakrabarti, Michael H. Goldschmidt, Amy C. Durham, Julien Funk, John D. Storey, Vessela N. Kristensen, Chandra L. Theesfeld, Karin U. Sorenmo, Olga G. Troyanskaya
Genome Research  ·  01 Feb 2021

2019

Kiley Graim, Verena Friedl, Kathleen E Houlahan, Joshua M Stuart
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing  ·  01 Jan 2019

2018

Julija Hmeljak, Francisco Sanchez-Vega, Katherine A Hoadley, Juliann Shih, Chip Stewart, David Heiman, Patrick Tarpey, Ludmila Danilova, Esther Drill, Ewan A Gibb, Reanne Bowlby, Rupa Kanchi, Hatice U Osmanbeyoglu, Yoshitaka Sekido, Jumpei Takeshita, Yulia Newton, Kiley Graim, Manaswi Gupta, Carl M Gay, Lixia Diao, David L Gibbs, Vesteinn Thorsson, Lisa Iype, Havish Kantheti, David T Severson, Gloria Ravegnini, Patrice Desmeules, Achim A Jungbluth, William D Travis, Sanja Dacic, Lucian R Chirieac, Françoise Galateau-Sallé, Junya Fujimoto, Aliya N Husain, Henrique C Silveira, Valerie W Rusch, Robert C Rintoul, Harvey Pass, Hedy Kindler, Marjorie G Zauderer, David J Kwiatkowski, Raphael Bueno, Anne S Tsao, Jenette Creaney, Tara Lichtenberg, Kristen Leraas, Jay Bowen, , Ina Felau, Jean Claude Zenklusen, Rehan Akbani, Andrew D Cherniack, Lauren A Byers, Michael S Noble, Jonathan A Fletcher, A Gordon Robertson, Ronglai Shen, Hiroyuki Aburatani, Bruce W Robinson, Peter Campbell, Marc Ladanyi
Cancer discovery  ·  15 Oct 2018
James A Cahill, Peter D Heintzman, Kelley Harris, Matthew D Teasdale, Joshua Kapp, Andre E R Soares, Ian Stirling, Daniel Bradley, Ceiridwen J Edwards, Kiley Graim, Aliaksandr A Kisleika, Alexander V Malev, Nigel Monaghan, Richard E Green, Beth Shapiro
Molecular biology and evolution  ·  01 May 2018

2017

Daniel E Carlin, Evan O Paull, Kiley Graim, Christopher K Wong, Adrian Bivol, Peter Ryabinin, Kyle Ellrott, Artem Sokolov, Joshua M Stuart
PloS one  ·  06 Dec 2017
Yulia Newton, Adam M Novak, Teresa Swatloski, Duncan C McColl, Sahil Chopra, Kiley Graim, Alana S Weinstein, Robert Baertsch, Sofie R Salama, Kyle Ellrott, Manu Chopra, Theodore C Goldstein, David Haussler, Olena Morozova, Joshua M Stuart
Cancer research  ·  01 Nov 2017
Mehmet Gönen, Barbara A Weir, Glenn S Cowley, Francisca Vazquez, Yuanfang Guan, Alok Jaiswal, Masayuki Karasuyama, Vladislav Uzunangelov, Tao Wang, Aviad Tsherniak, Sara Howell, Daniel Marbach, Bruce Hoff, Thea C Norman, Antti Airola, Adrian Bivol, Kerstin Bunte, Daniel Carlin, Sahil Chopra, Alden Deran, Kyle Ellrott, Peddinti Gopalacharyulu, Kiley Graim, Samuel Kaski, Suleiman A Khan, Yulia Newton, Sam Ng, Tapio Pahikkala, Evan Paull, Artem Sokolov, Hao Tang, Jing Tang, Krister Wennerberg, Yang Xie, Xiaowei Zhan, Fan Zhu, , Tero Aittokallio, Hiroshi Mamitsuka, Joshua M Stuart, Jesse S Boehm, David E Root, Guanghua Xiao, Gustavo Stolovitzky, William C Hahn, Adam A Margolin
Cell systems  ·  04 Oct 2017
Kiley Graim, Tiffany Ting Liu, Achal S Achrol, Evan O Paull, Yulia Newton, Steven D Chang, Griffith R Harsh, Sergio P Cordero, Daniel L Rubin, Joshua M Stuart
BMC medical genomics  ·  31 Mar 2017
Lauren Fishbein, Ignaty Leshchiner, Vonn Walter, Ludmila Danilova, A Gordon Robertson, Amy R Johnson, Tara M Lichtenberg, Bradley A Murray, Hans K Ghayee, Tobias Else, Shiyun Ling, Stuart R Jefferys, Aguirre A de Cubas, Brandon Wenz, Esther Korpershoek, Antonio L Amelio, Liza Makowski, W Kimryn Rathmell, Anne-Paule Gimenez-Roqueplo, Thomas J Giordano, Sylvia L Asa, Arthur S Tischler, , Karel Pacak, Katherine L Nathanson, Matthew D Wilkerson
Cancer cell  ·  02 Feb 2017

2016

Steven M Hill, Laura M Heiser, Thomas Cokelaer, Michael Unger, Nicole K Nesser, Daniel E Carlin, Yang Zhang, Artem Sokolov, Evan O Paull, Chris K Wong, Kiley Graim, Adrian Bivol, Haizhou Wang, Fan Zhu, Bahman Afsari, Ludmila V Danilova, Alexander V Favorov, Wai Shing Lee, Dane Taylor, Chenyue W Hu, Byron L Long, David P Noren, Alexander J Bisberg, , Gordon B Mills, Joe W Gray, Michael Kellen, Thea Norman, Stephen Friend, Amina A Qutub, Elana J Fertig, Yuanfang Guan, Mingzhou Song, Joshua M Stuart, Paul T Spellman, Heinz Koeppl, Gustavo Stolovitzky, Julio Saez-Rodriguez, Sach Mukherjee
Nature methods  ·  22 Feb 2016

2015

Bryan A Smith, Artem Sokolov, Vladislav Uzunangelov, Robert Baertsch, Yulia Newton, Kiley Graim, Colleen Mathis, Donghui Cheng, Joshua M Stuart, Owen N Witte
Proceedings of the National Academy of Sciences of the United States of America  ·  12 Oct 2015

2013

Predrag Radivojac, Wyatt T Clark, Tal Ronnen Oron, Alexandra M Schnoes, Tobias Wittkop, Artem Sokolov, Kiley Graim, Christopher Funk, Karin Verspoor, Asa Ben-Hur, Gaurav Pandey, Jeffrey M Yunes, Ameet S Talwalkar, Susanna Repo, Michael L Souza, Damiano Piovesan, Rita Casadio, Zheng Wang, Jianlin Cheng, Hai Fang, Julian Gough, Patrik Koskinen, Petri Törönen, Jussi Nokso-Koivisto, Liisa Holm, Domenico Cozzetto, Daniel W A Buchan, Kevin Bryson, David T Jones, Bhakti Limaye, Harshal Inamdar, Avik Datta, Sunitha K Manjari, Rajendra Joshi, Meghana Chitale, Daisuke Kihara, Andreas M Lisewski, Serkan Erdin, Eric Venner, Olivier Lichtarge, Robert Rentzsch, Haixuan Yang, Alfonso E Romero, Prajwal Bhat, Alberto Paccanaro, Tobias Hamp, Rebecca Kaßner, Stefan Seemayer, Esmeralda Vicedo, Christian Schaefer, Dominik Achten, Florian Auer, Ariane Boehm, Tatjana Braun, Maximilian Hecht, Mark Heron, Peter Hönigschmid, Thomas A Hopf, Stefanie Kaufmann, Michael Kiening, Denis Krompass, Cedric Landerer, Yannick Mahlich, Manfred Roos, Jari Björne, Tapio Salakoski, Andrew Wong, Hagit Shatkay, Fanny Gatzmann, Ingolf Sommer, Mark N Wass, Michael J E Sternberg, Nives Škunca, Fran Supek, Matko Bošnjak, Panče Panov, Sašo Džeroski, Tomislav Šmuc, Yiannis A I Kourmpetis, Aalt D J Dijk, Cajo J F Braak, Yuanpeng Zhou, Qingtian Gong, Xinran Dong, Weidong Tian, Marco Falda, Paolo Fontana, Enrico Lavezzo, Barbara Di Camillo, Stefano Toppo, Liang Lan, Nemanja Djuric, Yuhong Guo, Slobodan Vucetic, Amos Bairoch, Michal Linial, Patricia C Babbitt, Steven E Brenner, Christine Orengo, Burkhard Rost, Sean D Mooney, Iddo Friedberg
Nature Methods  ·  01 Mar 2013
Artem Sokolov, Christopher Funk, Kiley Graim, Karin Verspoor, Asa Ben-Hur
BMC bioinformatics  ·  28 Feb 2013