Interpretable dimensionality reduction of single cell transcriptome data with deep generative models

অনুযায়ী Ding, Jiarui, Condon, Anne, Shah, Sohrab P.
প্রকাশিত Nat Commun (2018)

Observing Clonal Dynamics across Spatiotemporal Axes: A Prelude to Quantitative Fitness Models for Cancer

অনুযায়ী McPherson, Andrew W., Chan, Fong Chun, Shah, Sohrab P.
প্রকাশিত Cold Spring Harb Perspect Med (2018)

Somatic mutation detection and classification through probabilistic integration of clonal population information

অনুযায়ী Dorri, Fatemeh, Jewell, Sean, Bouchard-Côté, Alexandre, Shah, Sohrab P.
প্রকাশিত Commun Biol (2019)

ddClone: joint statistical inference of clonal populations from single cell and bulk tumour sequencing data

অনুযায়ী Salehi, Sohrab, Steif, Adi, Roth, Andrew, Aparicio, Samuel, Bouchard-Côté, Alexandre, Shah, Sohrab P.
প্রকাশিত Genome Biol (2017)

Atlas – a data warehouse for integrative bioinformatics

অনুযায়ী Shah, Sohrab P, Huang, Yong, Xu, Tao, Yuen, Macaire MS, Ling, John, Ouellette, BF Francis
প্রকাশিত 2005

Cis-regulatory somatic mutations and gene-expression alteration in B-cell lymphomas

অনুযায়ী Mathelier, Anthony, Lefebvre, Calvin, Zhang, Allen W, Arenillas, David J, Ding, Jiarui, Wasserman, Wyeth W, Shah, Sohrab P
প্রকাশিত Genome Biol (2015)

Integrated structural variation and point mutation signatures in cancer genomes using correlated topic models

অনুযায়ী Funnell, Tyler, Zhang, Allen W., Grewal, Diljot, McKinney, Steven, Bashashati, Ali, Wang, Yi Kan, Shah, Sohrab P.
প্রকাশিত PLoS Comput Biol (2019)

Model-based clustering of array CGH data

অনুযায়ী Shah, Sohrab P., Cheung, K-John, Johnson, Nathalie A., Alain, Guillaume, Gascoyne, Randy D., Horsman, Douglas E., Ng, Raymond T., Murphy, Kevin P.
প্রকাশিত 2009

PyClone: Statistical inference of clonal population structure in cancer

অনুযায়ী Roth, Andrew, Khattra, Jaswinder, Yap, Damian, Wan, Adrian, Laks, Emma, Biele, Justina, Ha, Gavin, Aparicio, Samuel, Bouchard-Côté, Alexandre, Shah, Sohrab P.
প্রকাশিত Nat Methods (2014)

DriverNet: uncovering the impact of somatic driver mutations on transcriptional networks in cancer

অনুযায়ী Bashashati, Ali, Haffari, Gholamreza, Ding, Jiarui, Ha, Gavin, Lui, Kenneth, Rosner, Jamie, Huntsman, David G, Caldas, Carlos, Aparicio, Samuel A, Shah, Sohrab P
প্রকাশিত 2012

Pegasys: software for executing and integrating analyses of biological sequences

অনুযায়ী Shah, Sohrab P, He, David YM, Sawkins, Jessica N, Druce, Jeffrey C, Quon, Gerald, Lett, Drew, Zheng, Grace XY, Xu, Tao, Ouellette, BF Francis
প্রকাশিত 2004

Ulysses - an application for the projection of molecular interactions across species

অনুযায়ী Kemmer, Danielle, Huang, Yong, Shah, Sohrab P, Lim, Jonathan, Brumm, Jochen, Yuen, Macaire MS, Ling, John, Xu, Tao, Wasserman, Wyeth W, Ouellette, BF Francis
প্রকাশিত 2005

Kronos: a workflow assembler for genome analytics and informatics

অনুযায়ী Taghiyar, M. Jafar, Rosner, Jamie, Grewal, Diljot, Grande, Bruno M., Aniba, Radhouane, Grewal, Jasleen, Boutros, Paul C., Morin, Ryan D., Bashashati, Ali, Shah, Sohrab P.
প্রকাশিত Gigascience (2017)

Feature-based classifiers for somatic mutation detection in tumour–normal paired sequencing data

অনুযায়ী Ding, Jiarui, Bashashati, Ali, Roth, Andrew, Oloumi, Arusha, Tse, Kane, Zeng, Thomas, Haffari, Gholamreza, Hirst, Martin, Marra, Marco A., Condon, Anne, Aparicio, Samuel, Shah, Sohrab P.
প্রকাশিত 2012

Enhancing knowledge discovery from cancer genomics data with Galaxy

অনুযায়ী Albuquerque, Marco A., Grande, Bruno M., Ritch, Elie J., Pararajalingam, Prasath, Jessa, Selin, Krzywinski, Martin, Grewal, Jasleen K., Shah, Sohrab P., Boutros, Paul C., Morin, Ryan D.
প্রকাশিত Gigascience (2017)

JointSNVMix: a probabilistic model for accurate detection of somatic mutations in normal/tumour paired next-generation sequencing data

অনুযায়ী Roth, Andrew, Ding, Jiarui, Morin, Ryan, Crisan, Anamaria, Ha, Gavin, Giuliany, Ryan, Bashashati, Ali, Hirst, Martin, Turashvili, Gulisa, Oloumi, Arusha, Marra, Marco A., Aparicio, Samuel, Shah, Sohrab P.
প্রকাশিত 2012

ReMixT: clone-specific genomic structure estimation in cancer

অনুযায়ী McPherson, Andrew W., Roth, Andrew, Ha, Gavin, Chauve, Cedric, Steif, Adi, de Souza, Camila P. E., Eirew, Peter, Bouchard-Côté, Alexandre, Aparicio, Sam, Sahinalp, S. Cenk, Shah, Sohrab P.
প্রকাশিত Genome Biol (2017)

Correction to: ReMixT: clone-specific genomic structure estimation in cancer

অনুযায়ী McPherson, Andrew W., Roth, Andrew, Ha, Gavin, Chauve, Cedric, Steif, Adi, de Souza, Camila P. E., Eirew, Peter, Bouchard-Côté, Alexandre, Aparicio, Sam, Sahinalp, S. Cenk, Shah, Sohrab P.
প্রকাশিত Genome Biol (2017)

Overexpression screens identify conserved dosage chromosome instability genes in yeast and human cancer

অনুযায়ী Duffy, Supipi, Fam, Hok Khim, Wang, Yi Kan, Styles, Erin B., Kim, Jung-Hyun, Ang, J. Sidney, Singh, Tejomayee, Larionov, Vladimir, Shah, Sohrab P., Andrews, Brenda, Boerkoel, Cornelius F., Hieter, Philip
প্রকাশিত Proc Natl Acad Sci U S A (2016)

Molecular profiling and molecular classification of endometrioid ovarian carcinomas

অনুযায়ী Cybulska, Paulina, Paula, Arnaud Da Cruz, Tseng, Jill, Leitao, Mario M, Bashashati, Ali, Huntsman, David G, Nazeran, Tayyebeh M, Aghajanian, Carol, Abu-Rustum, Nadeem R, DeLair, Deborah F, Shah, Sohrab P, Weigelt, Britta
প্রকাশিত Gynecol Oncol (2019)