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2020 – today
- 2023
[j12]Megan M. Sperry
, Tomiko Oskotsky, Ivana Maric, Shruti Kaushal, Takako Takeda, Viktor Horvath, Rani K. Powers, Melissa Rodas, Brooke Furlong, Mercy Soong, Pranav Prabhala, Girija Goyal, Kenneth E. Carlson, Ronald J. Wong, Idit Kosti, Brian L. Le, James Logue, Holly Hammond, Matthew Frieman, David K. Stevenson, Donald E. Ingber, Marina Sirota, Richard Novák:
Target-agnostic drug prediction integrated with medical record analysis uncovers differential associations of statins with increased survival in COVID-19 patients. PLoS Comput. Biol. 19(5) (2023)- 2022
- [j11]Tomiko Oskotsky, Ruchika Bajaj, Jillian Burchard, Taylor Cavazos, Ina Chen, William T. Connell, Stephanie Eaneff, Tianna Grant, Ishan Kanungo, Karla Lindquist, Douglas Myers-Turnbull, Zun Zar Chi Naing, Alice Tang, Bianca Vora, Jon Wang, Isha Karim, Claire Swadling, Janice Yang, AI4ALL Student Cohort, Bill Lindstaedt, Marina Sirota:
Nurturing diversity and inclusion in AI in Biomedicine through a virtual summer program for high school students. PLoS Comput. Biol. 18(1) (2022) - 2021
- [j10]Daniel G. Bunis, Jared M. Andrews, Gabriela K. Fragiadakis, Trevor D. Burt, Marina Sirota:
dittoSeq: universal user-friendly single-cell and bulk RNA sequencing visualization toolkit. Bioinform. 36(22-23): 5535-5536 (2021) - 2020
- [j9]Dimitri Panagopoulos Abrahamsson, June-Soo Park, Randolph R. Singh, Marina Sirota, Tracey J. Woodruff:
Applications of Machine Learning to In Silico Quantification of Chemicals without Analytical Standards. J. Chem. Inf. Model. 60(6): 2718-2727 (2020) - [j8]Beau Norgeot, Kathleen Muenzen, Thomas A. Peterson, Xuancheng Fan, Benjamin S. Glicksberg, Gundolf Schenk, Eugenia Rutenberg, Boris Oskotsky, Marina Sirota, Jinoos Yazdany, Gabriela Schmajuk, Dana Ludwig, Theodore C. Goldstein, Atul J. Butte:
Protected Health Information filter (Philter): accurately and securely de-identifying free-text clinical notes. npj Digit. Medicine 3 (2020)
2010 – 2019
- 2019
- [j7]Mohammad Sajjad Ghaemi, Daniel B. DiGiulio, Kévin Contrepois, Benjamin J. Callahan, Thuy T. M. Ngo, Brittany Lee-McMullen, Benoit Lehallier, Anna Robaczewska, David Mcilwain, Yael Rosenberg-Hasson, Ronald J. Wong, Cecele Quaintance, Anthony Culos, Natalie Stanley, Athena Tanada, Amy Tsai, Dyani Gaudilliere, Edward Ganio, Xiaoyuan Han, Kazuo Ando, Leslie McNeil, Martha Tingle, Paul H. Wise, Ivana Maric, Marina Sirota, Tony Wyss-Coray, Virginia D. Winn, Maurice L. Druzin, Ronald Gibbs, Gary L. Darmstadt, David B. Lewis, Vahid Partovi Nia, Bruno Agard, Robert Tibshirani, Garry P. Nolan, Michael P. Snyder, David A. Relman, Stephen R. Quake, Gary M. Shaw, David K. Stevenson, Martin S. Angst, Brice Gaudilliere, Nima Aghaeepour:
Multiomics modeling of the immunome, transcriptome, microbiome, proteome and metabolome adaptations during human pregnancy. Bioinform. 35(1): 95-103 (2019) - 2017
- [j6]Yen S. Low, Aaron C. Daugherty, Elizabeth A. Schroeder, William Chen, Tina Seto, Susan C. Weber, Michael Lim, Trevor Hastie, Maya Mathur, Manisha Desai, Carl Farrington, Andrew A. Radin, Marina Sirota, Pragati Kenkare, Caroline A. Thompson, Peter P. Yu, Scarlett L. Gomez, George W. Sledge, Allison W. Kurian, Nigam H. Shah:
Synergistic drug combinations from electronic health records and gene expression. J. Am. Medical Informatics Assoc. 24(3): 565-576 (2017) - [c4]Jieming Chen, Sanchita Bhattacharya, Marina Sirota, Minnie M. Sarwal, Atul J. Butte:
Ethnic and gender disparity in organ transplant clinical trials and electronic health records. CRI 2017 - 2016
- [j5]Steven C. Bagley, Marina Sirota, Richard O. Chen, Atul J. Butte, Russ B. Altman:
Constraints on Biological Mechanism from Disease Comorbidity Using Electronic Medical Records and Database of Genetic Variants. PLoS Comput. Biol. 12(4) (2016) - 2015
- [j4]Marina Sirota, Bin Chen:
Fighting disease with data. XRDS 21(4): 28-33 (2015) - [c3]Dexter Hadley, James Pan, Osama M. El-Sayed, Jihad Al-Jabban, Imad Al-Jabban, Tej Azad, Shuaib Raza, Mohamed Hadied, Bin Chen, Hyojung Paik, Sanchita Bhattacharya, Marina Sirota, Atul J. Butte:
Human Computation of Big Data in Biomedicine: Making STAR annotations for large scale functional characterization of disease. AMIA 2015 - [c2]Menghua Wu, Marina Sirota, Atul J. Butte, Bin Chen:
Characteristics of Drug Combination Therapy in Oncology by Analyzing Clinical Trial Data on Clinicaltrials.Gov. Pacific Symposium on Biocomputing 2015: 68-79 - [c1]Hua Fan-Minogue, Bin Chen, Weronika Sikora-Wohlfeld, Marina Sirota, Atul J. Butte:
A Systematic Assessment of Linking Gene Expression with Genetic Variants for Prioritizing Candidate Targets. Pacific Symposium on Biocomputing 2015: 383-394 - 2012
- [j3]Purvesh Khatri, Marina Sirota, Atul J. Butte:
Ten Years of Pathway Analysis: Current Approaches and Outstanding Challenges. PLoS Comput. Biol. 8(2) (2012) - 2010
- [j2]Eugene Davydov, David L. Goode, Marina Sirota, Gregory M. Cooper, Arend Sidow, Serafim Batzoglou:
Identifying a High Fraction of the Human Genome to be under Selective Constraint Using GERP++. PLoS Comput. Biol. 6(12) (2010)
2000 – 2009
- 2009
- [j1]Marc A. Schaub, Irene M. Kaplow, Marina Sirota, Chuong B. Do, Atul J. Butte, Serafim Batzoglou:
A Classifier-based approach to identify genetic similarities between diseases. Bioinform. 25(12) (2009)
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