A mechanistic pan-cancer pathway model informed by multi-omics data interprets stochastic cell fate responses to drugs and mitogens.

Autor: Mehdi Bouhaddou, Anne Marie Barrette, Alan D Stern, Rick J Koch, Matthew S DiStefano, Eric A Riesel, Luis C Santos, Annie L Tan, Alex E Mertz, Marc R Birtwistle

Publikováno v: PLoS Computational Biology, Vol 14, Iss 3, p e1005985 (2018)

Most cancer cells harbor multiple drivers whose epistasis and interactions with expression context clouds drug and drug combination sensitivity prediction. We constructed a mechanistic computational model that is context-tailored by omics data to cap

Externí odkaz: https://doaj.org/article/fc64f91ace0d4f0c94567b1b632ecc56

The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level Cataloging of Human Cells Response to Perturbations

Autor: Nicholas A. Clark, Marc R. Birtwistle, Jennifer E. Van Eyk, Moshe C. Silverstein, Caitlin E. Mills, Mario Niepel, Marcin Pilarczyk, Alexander Lachmann, Elizabeth H. Williams, Simon Koplev, Nathanael S. Gray, Uzma Hussain, Albert Lee, Ajay Pillai, Edward He, Mark A. Dane, Evren U. Azeloglu, Dusica Vidovic, Jeannette Osterloh, Maria G. Banuelos, Maxim V. Kuleshov, Rick J. Koch, Stephan C. Schürer, Karen Sachs, Damir Sudar, Divya Ramamoorthy, Dhruv Sareen, Shana White, Heidi S. Feiler, Siva Sivaganesan, Kathleen M. Jagodnik, Clive N. Svendsen, Mohammad Fallahi-Sichani, Miriam Adam, Jaroslaw Meller, Todd R. Golub, Ravi Iyengar, Jennifer Stocksdale, Amar Koleti, David Wrobel, Sherry L. Jenkins, Jacob D. Jaffe, Alexandra B Keenan, Renan Escalante-Chong, Daniel J. Cooper, Loren Ornelas, Joe W. Gray, Alexander LeNail, Ritchie Ho, Alyssa Coye, Avi Ma'ayan, Steve Finkbiener, Lixia Zhang, Andrea Matlock, Eric A. Sobie, Vidya Venkatraman, Anders B. Dohlman, Jeffrey D. Rothstein, Michele Forlin, Jonathan Z. Li, Rebecca Smith, Naim Al Mahi, Kaylyn Devlin, Caty Chung, Marc Hafner, Malvina Papanastasiou, Wen Niu, Michal Kouril, Ryan G. Lim, Yan Ren, Julia A. Kaye, Malcolm Casale, Jie Wu, Mario Medvedovic, Jeremy L. Muhlich, Victoria Dardov, Jouzas Vasiliauskas, Kelly Haston, Caroline E. Shamu, Raymond Terryn, John F. Reichard, Michel Nederlof, David Kilburn, Leslie M. Thompson, Jia-Ren Lin, Vasileios Stathias, Zichen Wang, Behrouz Shamsaei, James E. Korkola, Pamela Milani, Berhan Mandefro, Terri G. Thompson, Laura M. Heiser, Gavin Daigle, Denis Torre, Ron Margolis, Aravind Subramanian, Elmar Bucher, Sean D. Erickson, Ernest Fraenkel, Jaslin Kalra, Mark A. LaBarge, Gordon B. Mills, Peter K. Sorger, Sean M. Gross, Leslie Derr, Mehdi Fazel

Publikováno v: Cell Systems. 6:13-24

The Library of Integrated Network-Based Cellular Signatures (LINCS) is an NIH Common Fund program that catalogs how human cells globally respond to chemical, genetic, and disease perturbations. Resources generated by LINCS include experimental and co

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::f2e6db8bbc9afc2e0643a000d0253b2b
https://doi.org/10.1016/j.cels.2017.11.001

Validating Antibodies for Quantitative Western Blot Measurements with Microwestern Array

Autor: Anne Marie Barrette, Alan D Stern, Ravi Iyengar, Evren U. Azeloglu, Rick J. Koch, Bin Hu, Marc R. Birtwistle

Western blotting is often considered a semi-quantitative or even qualitative assay for assessing changes in protein or protein post-translational modification levels. Fluorescence-based measurement enables acquisition of quantitative data in principa

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::86286fd2b9a9b1b26db94029094eb307
https://doi.org/10.1101/221523

A mechanistic pan-cancer pathway model informed by multi-omics data interprets stochastic cell fate responses to drugs and mitogens

Autor: Rick J. Koch, Anne Marie Barrette, Matthew S. DiStefano, Eric A. Riesel, Marc R. Birtwistle, Luis C. Santos, Alan D Stern, Alex E. Mertz, Mehdi Bouhaddou, Annie L. Tan

Publikováno v: PLoS Computational Biology
PLoS Computational Biology, Vol 14, Iss 3, p e1005985 (2018)

Most cancer cells harbor multiple drivers whose epistasis and interactions with expression context clouds drug and drug combination sensitivity prediction. We constructed a mechanistic computational model that is context-tailored by omics data to cap

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::14e334fa198d21ec6e449140fbc019a2
https://doi.org/10.1371/journal.pcbi.1005985

Effects of subthalamic nucleus lesions and stimulation upon corticostriatal afferents in the 6-hydroxydopamine-lesioned rat

Autor: Cynthia Moore, Charles K. Meshul, Lisa B. Dirling, Rick J. Koch, Georgia Davies, Ruth H. Walker

Publikováno v: PLoS ONE
PLoS ONE, Vol 7, Iss 3, p e32919 (2012)

Abnormalities of striatal glutamate neurotransmission may play a role in the pathophysiology of Parkinson's disease and may respond to neurosurgical interventions, specifically stimulation or lesioning of the subthalamic nucleus (STN). The major glut

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::1b82d59d0ecf95f49664899866a033e8
https://pubmed.ncbi.nlm.nih.gov/22427909