Ernst, Jason - University of California, Los Angeles - Department of Biological Chemistry

个人简介

Jason joined the faculty at UCLA in the Department of Biological Chemistry, the Computer Science Department, and the Bioinformatics Program in 2012. Prior to that, he was a postdoctoral fellow in Manolis Kellis' Computational Biology Group in the Computer Science and Artificial Intelligence Laboratory at MIT and affiliated with the Broad Institute. In 2008, Jason completed a PhD advised by Ziv Bar-Joseph where he was part of the Systems Biology Group, Machine Learning Department, and School of Computer Science at Carnegie Mellon University. Jason also earned BS degrees in Computer Science and Mathematics from the University of Maryland College Park in 2002. Jason’s research focuses on developing and applying computational methods to address problems in epigenomics and gene-regulation. Jason serves on the editorial board at Genome Research and has been a program co-chair for the Regulatory Genomics Special Interest Group meeting at ISMB. He is a recipient of a Sloan Fellowship, NSF CAREER Award, NSF Postdoctoral Fellowship, a Siebel Scholarship, and a Goldwater Scholarship.

研究领域

Jason’s research interests are in computational biology and bioinformatics. He is interested in developing and applying computational methods, in particular machine learning methods, for the analysis of high-throughput experimental data to address problems in epigenomics and gene regulation. A primary interest of his is developing computational approaches to use epigenomic and other high-throughput datasets to better understand the non-coding portions of the human genome and its role in disease. Jason pioneered computational approaches to learn chromatin states from genome-wide maps of multiple epigenetic marks to systematically annotate the human genome. His research is often conducted in close collaboration with experimental groups.

近期论文

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Fiziev P*, Akdemir KC*, Miller JP, Keung EZ, Samant NS, Sharma S, Natale CA, Terranova CJ, Maitituoheti M, Amin SB, Martinez-Ledesma E, Dhamdhere M, Axelrad JB, Shah A, Cheng CS, Mahadeshwar H, Seth S, Barton MC, Protopopov A, Tsai KY, Davies MA, Garcia BA, Amit I, Chin L#, Ernst J#, Rai K#. Systematic Epigenomic Analysis Reveals Chromatin States Associated with Melanoma Progression. Cell Reports. 19:875-889, 2017. Chronis C*, Fiziev P*, Papp B, Butz S, Bonora G, Sabri S, Ernst J#, Plath K#. Cooperative Binding of Transcription Factors Orchestrates Reprogramming. Cell, 168:442-459, 2017. Ernst J#, Melnikov A, Zhang X, Wang L, Rogov P, Mikkelsen T, Kellis M#. Genome-scale high-resolution mapping of activating and repressive nucleotides in regulatory regions. Nature Biotechnology, 34:1180-1190, 2016. (# - denotes co-corresponding authors) Won H, de la Torre-Ubieta L, Stein JL, Parikshak NN, Huang J, Opland CK, Gandal MJ, Sutton GJ, Hormozdiari F, Lu D, Lee C, Eskin E, Voineagu I, Ernst J, Geschwind DH. Chromosome conformation elucidates regulatory relationships in developing human brain. Nature, 538:523-527, 2016. Rakshit K, Qian J, Ernst J, Matveyenko A. Circadian variation of the pancreatic islet transcriptome. Physiological Genomics, 48:677-687, 2016. Duong D, Zou J, Hormozdiari F, Sul JS, Ernst J, Han B, and Eskin E. Using genomic annotations increases statistical power to detect eGenes. Bioinformatics (Proceedings of ISMB 2016), 32: i156-i163, 2016. Rai K, Akdemir KC, Kwong LN, Fiziev P, Wu CJ, Keung EZ, Sharma S, Samant NS, Williams M, Axelrad JB, Shah A, Yang D, Grimm EA, Barton MC, Milton DR, Heffernan TP, Horner JW, Ekmekcioglu S, Lazar A, Ernst J, Chin L. Dual Roles of RNF2 in Melanoma Progression. Cancer Discovery, 5:1314-1327, 2015.