2019-2021 Instructor, Stanford University School of Medicine (PI: Christina Curtis)
2014-2019 Postdoctoral Research Scholar, Stanford University School of Medicine (PI: Christina Curtis)
2012-2014 Postdoctoral Research Assistant in Bioinformatics, University of Bristol (PI: Tom Gaunt)
2012 PhD in Computer Science, Universidade da Coruña
2010 MSc in Statistical Learning and Data Mining, UNED
2008 MSc in Computer Science, Universidade da Coruña
2004 Degree in Computer Engineering, Universidade da Coruña
Research areas
Multi-omic data integration
Epigenetic alterations in cancer
Biomedical data science
Awards and scholarships
Ramón y Cajal Grant (2021-2025)
Susan G. Komen PDF – Basic and Translational Grant (2016-2019)
2012 Extraordinary PhD award in Mathematics and Computer Science
Projects
Targeting synthetic lethality in Chromatin Regulatory Genes for gastrointestinal cancer treatment. Ref PID2020-115097RA-I00. Agencia Estatal de Investigación. 9/2021-8/2025. PI: Jose A. Seoane
Publications
Inter-cellular CRISPR screens reveal regulators of cancer cell phagocytosis
Roarke A. Kamber, Yoko Nishiga, Bhek Morton, Allison M. Banuelos, Amira A. Barkal, Felipe Vences-Catalán, Mingxin Gu, Daniel Fernandez, Jose A. Seoane, David Yao, Katherine Liu, Sijie Lin, Kaitlyn Spees, Christina Curtis, Livnat Jerby-Arnon, Irving L. Weissman, Julien Sage and Michael C. Bassik Nature, September 2021
https://doi.org/10.1038/s41586-021-03879-4
DCIS genomic signatures define biology and correlate with clinical outcome: a Human Tumor Atlas Network (HTAN) analysis of TBCRC 038 and RAHBT cohorts
Siri H. Strand, Belén Rivero-Gutiérrez, Kathleen E. Houlahan, Jose A. Seoane, Lorraine King, Christina Curtis, Rob Tibshirani, Robert Michael Angelo, Allison Hall, Kouros Owzar, Kornelia Polyak, Carlo Maley, Jeffrey R. Marks, Graham A. Colditz, E. Shelley Hwang, Robert B. West
bioRxiv, June 2021
10.1101/2021.06.16.448585
The AMBRA1 E3 ligase adaptor regulates the stability of cyclin D
Andrea C. Chaikovsky, Chuan Li, Edwin E, Jeng, Samuel Loebell, Myung Chang Lee, Christopher W. Murray, Ran Cheng, Janos Demeter, Danielle L. Swaney, Si-Han Chen, Billy W. Newton, Jeffrey R. Johnson, Alexandros P. Drainas, Yan Ting Shue, Jose A Seoane, Preethi Srinivasan, Andy He, Akihiro Yoshida, Susan Q. Hipkins, Edel McCrea, Carson D. Poltorack, Nevan J. Krogan, J. Alan Diehl, Christina Kong, Peter K. Jackson, Christina Curtis, Dmitri A. Petrov, Michael C. Bassik, Monte M. Winslow, Julien Sage Nature, 592:794-798, April 2021
URL: https://www.nature.com/articles/s41586-021-03474-7
Cell of Origin Influences Pancreatic Cancer Subtype
Brittany M. Flowers, Hang Xu, Abigail S. Mulligan, Kathryn J. Hanson, Jose A. Seoane, Hannes Vogel, Christina Curtis, Laura D. Wood, Laura D. Attardi
Cancer Discovery, 11(3):660-677, March 2021
URL: https://cancerdiscovery.aacrjournals.org/content/11/3/660.abstract
A CRISPR/Cas9-engineered ARID1A-deficient human gastric cancer organoid model reveals essential and non-essential modes of oncogenic transformation
Yuan-Hung Lo, Kevin S. Kolahi, Yuhong Du, Chiung-Ying Chang, Andrey Krokhotin, Ajay Nair, Walter D. Sobba, Kasper Karlsson, Sunny J. Jones, Teri A. Longacre, Amanda T. Mah, Bahar Tercan, Alexandra Sockell, Hang Xu, Jose A. Seoane, Jin Chen, Ilya Shmulevich, Jonathan S. Weissman, Christina Curtis, Andrea Califano, Haian Fu, Gerald R. Crabtree, Calvin J. Kuo Cancer Discovery, January 2021
URL: https://cancerdiscovery.aacrjournals.org/content/early/2021/01/14/2159-8290.CD-20-1109
Zmat3 Is a Key Splicing Regulator in the p53 Tumor Suppression Program
Kathryn T. Bieging-Rolett, Alyssa M. Kaiser, David W. Morgens, Anthony M. Boutelle, Jose A. Seoane, Eric L. Van Nostrand, Changyu Zhu, Shauna L. Houlihan, Stephano S. Mello, Brian A. Yee, Jacob McClendon, Sarah E. Pierce, Ian P. Winters, Mengxiong Wang, Andrew J. Connolly, Scott W. Lowe, Christina Curtis, Gene W. Yeo, Monte M. Winslow, Michael C. Bassik, Laura D. Attardi Molecular Cell, 80(3):452-469.e9, November 2020
URL: www.sciencedirect.com/science/article/pii/S1097276520307292
The m6A RNA demethylase FTO is a HIF-independent synthetic lethal partner with the VHL tumor suppressor
Yiren Xiao, Kaushik N. Thakkar, Hongjuan Zhao, James Broughton, Yang Li, Jose A. Seoane, Anh N. Diep, Thomas J. Metzner, Rie von Eyben, David L. Dill, James D. Brooks, Christina Curtis, John T. Leppert, Jiangbin Ye, Donna M. Peehl, Amato J. Giaccia, Subarna Sinha, Erinn B. Rankin
Proceedings of the National Academy of Sciences, 117(35):21441-21449, September 2020
URL: www.pnas.org/content/117/35/21441.short
CRISPR screens in cancer spheroids identify 3D growth-specific vulnerabilities
Kyuho Han, Sarah E. Pierce, Amy Li, Kaitlyn Spees, Grace R. Anderson, Jose A. Seoane, Yuan-Hung Lo, Michael Dubreuil, Micah Olivas, Roarke A. Kamber, Michael Wainberg, Kaja Kostyrko, Marcus R. Kelly, Maryam Yousefi, Scott W. Simpkins, David Yao, Keonil Lee, Calvin J. Kuo, Peter K. Jackson, Alejandro Sweet-Cordero, Anshul Kundaje, Andrew J. Gentles, Christina Curtis, Monte M. Winslow, Michael C. Bassik Nature, 580(7801):136-141, April 2020
URL: www.nature.com/articles/s41586-020-2099-x
Metabolic profiling reveals a dependency of human metastatic breast cancer on mitochondrial serine and one-carbon unit metabolism
Albert M Li, Gregory S. Ducker, Yang Li, Jose A. Seoane, Yiren Xiao, Stavros Melemenidis, Yiren Zhou, Ling Liu, Sakari Vanharanta, Edward E. Graves, Erinn B. Rankin, Christina Curtis, Joan Massagué, Joshua D. Rabinowitz, Craig B. Thompson, Jiangbin Ye Molecular Cancer Research, 18(4):599-611, April 2020
URL: mcr.aacrjournals.org/content/18/4/599.abstract
Convergent mutations in tissue-specific regulatory regions reveal novel cancer drivers
Nasa Sinnott-Armstrong, Jose A. Seoane, Jonathan K. Pritchard, Christina Curtis, Michael P. Snyder
bioRxiv, November 2020
URL: https://www.biorxiv.org/content/10.1101/2020.08.21.239954v1.abstract
Chromatin regulators mediate anthracycline sensitivity in breast cancer
Jose A. Seoane, Jacob G. Kirkland, Jennifer L. Caswell-Jin, Gerald R. Crabtree, Christina Curtis Nature Medicine, 25(11):1721-1727, November 2019
URL: www.nature.com/articles/s41591-019-0638-5
Quantitative evidence for early metastatic seeding in colorectal cancer
Zheng Hu, Jie Ding, Zhicheng Ma, Ruping Sun, Jose A. Seoane, J. Scott Shaffer, Carlos J. Suarez, Anna S. Berghoff, Chiara Cremolini, Alfredo Falcone, Fotios Loupakis, Peter Birner, Matthias Preusser, Heinz-Josef Lenz, Christina Curtis Nature Genetics, 51(7):1113-1122, July 2019
URL: www.nature.com/articles/s41588-019-0423-x
Dynamics of breast-cancer relapse reveal late-recurring ER-positive genomic subgroups
Oscar M. Rueda, Stephen-John Sammut, Jose A. Seoane, Suet-Feung Chin, Jennifer L. Caswell-Jin, Maurizio Callari, Rajbir Batra, Bernard Pereira, Alejandra Bruna, H. Raza Ali, Elena Provenzano, Bin Liu, Michelle Parisien, Cheryl Gillett, Steven McKinney, Andrew R. Green, Leigh Murphy, Arnie Purushotham, Ian O. Ellis, Paul D. Pharoah, Cristina Rueda, Samuel Aparicio, Carlos Caldas, Christina Curtis Nature, 567(7748):399-404, March 2019
URL: www.nature.com/articles/s41586-019-1007-8
Assessment of ERBB2/HER2 status in HER2-equivocal breast cancers by FISH and 2013/2014 ASCO-CAP guidelines
Michael F. Press, Jose A. Seoane, Christina Curtis, Emmanuel Quinaux, Roberta Guzman, Guido Sauter, Wolfgang Eiermann, John R. Mackey, Nicholas Robert, Tadeusz Pienkowski, John Crown, Miguel Martin, Vicente Valero, Valerie Bee, Yanling Ma, Ivonne Villalobos, Dennis J. Slamon JAMA Oncology, 5(3):366-375, March 2019
URL: jamanetwork.com/journals/jamaoncology/article-abstract/2718266
The chromatin accessibility landscape of primary human cancers
Ryan Corces, Jeffrey M. Granja, Shadi Shams, Bryan H. Louie, Jose A. Seoane, Wanding Zhou, Tiago C. Silva, Clarice Groeneveld, Christopher K. Wong, Seung Woo Cho, Ansuman T. Satpathy, Maxwell R. Mumbach, Katherine A. Hoadley, A. Gordon Robertson, Nathan C. Sheffield, Ina Felau, Mauro A. A. Castro, Benjamin P. Berman, Louis M. Staudt, Jean C. Zenklusen, Peter W. Laird, Christina Curtis, William J. Greenleaf, Howard Y. Chang Science, 362(6413), October 2018
URL: https://science.sciencemag.org/content/362/6413/eaav1898.abstract
Comparative molecular analysis of gastrointestinal adenocarcinomas
Yang Liu, Nilay S. Sethi, Toshinori Hinoue, Barbara G. Schneider, Andrew D. Cherniack, Francisco Sanchez-Vega, Jose A. Seoane, Farshad Farshidfar, Reanne Bowlby, Mirazul Islam, Jaegil Kim, Walid Chatila, Rehan Akbani, Rupa S. Kanchi, Charles S. Rabkin, Joseph E. Willis, Kenneth K. Wang, Shannon J. McCall, Lopa Mishra, Akinyemi I. Ojesina, Susan Bullman, Chandra Sekhar Pedamallu, Alexander J. Lazar, Ryo Sakai, TCGA consortium, Vésteinn Thorsson, Adam J. Bass and Peter W. Laird Cancer Cell, 33(4):721-735, April 2018
URL: https://www.sciencedirect.com/science/article/pii/S1535610818301144
Integrated genomic characterization of oesophageal carcinoma
The Cancer Genome Atlas Research Network Nature, 541(7636), January 2017
URL: https://www.nature.com/articles/nature20805
Canonical correlation analysis for gene-based pleiotropy discovery
Jose A. Seoane, Colin Campbell, Ian N. M. Day, Juan P. Casas, Tom R. Gaunt PLoS Computational Biology, 10(10), October 2014
URL: https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1003876
A pathway-based data integration framework for prediction of disease progression
Jose A. Seoane, Ian N. M. Day, Tom R. Gaunt, Colin Campbell Bioinformatics, 30(6):838-845, March 2014
URL: https://academic.oup.com/bioinformatics/article-abstract/30/6/838/285849
