基本信息
浏览量:42
职业迁徙
个人简介
My name is Sean Whalen. Here's my curriculum vitae and LinkedIn profile. I'm a research scientist applying machine learning to problems in computational biology and computer security, with recent emphasis on the former. I work with Katie Pollard at UCSF's Gladstone Institutes on genome-wide prediction of enhancer gene targets across diverse cell lines in order to disover causal SNPs and de novo mutations located within distal regulatory regions. Using this knowledge, we hope to identify the genes underlying poorly understood diseases as well as better understand the regulatory regions driving diseases where the causal genes are already known.
I was previously a postdoctoral fellow in computational biology at the Mount Sinai Institute for Genomics and Multiscale Biology headed by Eric Schadt. I worked with Gaurav Pandey primarily on applications of ensemble learning — combining multiple (often thousands) of machine learning classifiers — to build predictive models in various areas of genetics and genomics including genetic interactions, synergistic drug interactions, and protein function. As late entrants into the contest, we were the 4th place team in the 2013 DREAM Toxicogenetics Challenge.
I was also part of a team working on enhanced genotyping of the human leukocyte antigen (HLA) region using long read DNA sequencing technology in combination with error-correcting techniques utilizing short read technologies that make independent systematic errors. This work has several applications including improved compatibility between bone marrow donors and recipients. Our team recently pitched to a panel of venture capitalists and was awarded funding as part of a Sinai initiative to commercialize translational research.
I'm a recent transplant into the field, having finished a postdoctoral position during 2012 in the Intrusion Detection Systems lab at Columbia University with Salvatore Stolfo where I worked on anomaly detection and cloud security for DARPA's Mission-oriented Resilient Clouds initiative. In 2011 I finished my I3P postdoctoral fellowship at Lawrence Berkeley National Lab in the Computational Research Division where I developed several methods for anomaly detection in high performance computing systems with Sean Peisert and David Bailey.
I enjoy inter-disciplinary work involving machine learning, statistics, and network theory. I'm also interested in information visualization and virtual reality, having previously developed a complex networks visualization tool with head tracking and gesture recognition for the KeckCAVES project. I completed my Ph.D. at the University of California, Davis in 2010 and was fortunate to be jointly advised by Matt Bishop (Computer Security) and Jim Crutchfield (Physics).
My partner and frequent collaborator is Sophie Engle, currently an Assistant Professor of Computer Science at the University of San Francisco.
研究兴趣
论文共 56 篇作者统计合作学者相似作者
按年份排序按引用量排序主题筛选期刊级别筛选合作者筛选合作机构筛选
时间
引用量
主题
期刊级别
合作者
合作机构
Sean Whalen,Fumitaka Inoue, Hane Ryu,Tyler Fair,Eirene Markenscoff-Papadimitriou,Kathleen Keough,Martin Kircher,Beth Martin,Beatriz Alvarado, Orry Elor, Dianne Laboy Cintron,Alex Williams,
Neuronno. 6 (2023): 857-873.e8
Kathleen C Keough,Sean Whalen,Fumitaka Inoue,Pawel F Przytycki,Tyler Fair,Chengyu Deng,Marilyn Steyert, Hane Ryu,Kerstin Lindblad-Toh,Elinor Karlsson, Zoonomia Consortium§,Tomasz Nowakowski,
Science (New York, N.Y.)no. 6643 (2023): eabm1696-eabm1696
Chengyu Deng,Sean Whalen, Marilyn Steyert,Ryan Ziffra, Pawel F Przytycki,Fumitaka Inoue, Daniela A Pereira, Davide Capauto,Scott Norton, Flora M Vaccarino,Alex Pollen,Tomasz J Nowakowski,
bioRxiv : the preprint server for biology (2023)
biorxiv(2022)
Eirene Markenscoff-Papadimitriou,Fadya Binyameen,Sean Whalen,James D. Price,Lim K,Rinaldo Catta-Preta, Pai El, Xin Mu, Dongqing Xu, Pollard Ks,A. Nord, State Mw,
bioRxiv (Cold Spring Harbor Laboratory) (2021)
引用0浏览0引用
0
0
加载更多
作者统计
合作学者
合作机构
D-Core
- 合作者
- 学生
- 导师
数据免责声明
页面数据均来自互联网公开来源、合作出版商和通过AI技术自动分析结果,我们不对页面数据的有效性、准确性、正确性、可靠性、完整性和及时性做出任何承诺和保证。若有疑问,可以通过电子邮件方式联系我们:report@aminer.cn