Benjamin P. Berman
Affiliations: | 2019- | Faculty of Medicine | Hebrew University, Jerusalem, Jerusalem, Israel |
Area:
Regulation of gene expression, DNA methylationWebsite:
http://methylgrammar.orgGoogle:
"https://scholar.google.com/citations?user=GnZNoE4AAAAJ"Parents
Sign in to add mentor| Michael B. Eisen | grad student | 2000-2006 | UC Berkeley | |
| (Gene expression diversity and cis-regulatory sequence models in the transcriptional network of Drosophila embryogenesis.) | ||||
| Gerald M. Rubin | grad student | 2000-2006 | UC Berkeley | |
| (Gene expression diversity and cis-regulatory sequence models in the transcriptional network of Drosophila embryogenesis.) | ||||
| Peter W. Laird | research scientist | 2007-2011 | USC (Cell Biology Tree) | |
Children
Sign in to add trainee| Yaping Liu | grad student | 2009-2014 | USC Keck School of Medicine (Computational Biology Tree) |
Collaborators
Sign in to add collaborator| Michael Levine | collaborator | 2000-2001 | UC Berkeley |
| Edward B. Lewis | collaborator | 2000-2001 | UC Berkeley |
| Volker Hartenstein | collaborator | 2002-2004 | UCLA |
| Susan Celniker | collaborator | 2000-2005 | LBNL |
| Pavel Tomancak | collaborator | 2000-2005 | UC Berkeley |
BETA: Related publications
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Publications
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| Zhou W, Johnson BK, Morrison J, et al. (2024) BISCUIT: an efficient, standards-compliant tool suite for simultaneous genetic and epigenetic inference in bulk and single-cell studies. Nucleic Acids Research |
| Katsman E, Orlanski S, Martignano F, et al. (2022) Detecting cell-of-origin and cancer-specific methylation features of cell-free DNA from Nanopore sequencing. Genome Biology. 23: 158 |
| Unterman I, Bloch I, Cazacu S, et al. (2021) Expanding the MECP2 network using comparative genomics reveals potential therapeutic targets for Rett syndrome. Elife. 10 |
| Zheng Y, Huang G, Silva TC, et al. (2021) A pan-cancer analysis of CpG Island gene regulation reveals extensive plasticity within Polycomb target genes. Nature Communications. 12: 2485 |
| Carrot-Zhang J, Yao X, Devarakonda S, et al. (2021) Whole-genome characterization of lung adenocarcinomas lacking alterations in the RTK/RAS/RAF pathway. Cell Reports. 34: 108784 |
| Carrot-Zhang J, Yao X, Devarakonda S, et al. (2021) Whole-genome characterization of lung adenocarcinomas lacking the RTK/RAS/RAF pathway. Cell Reports. 34: 108707 |
| Jones MR, Peng PC, Coetzee SG, et al. (2020) Ovarian Cancer Risk Variants Are Enriched in Histotype-Specific Enhancers and Disrupt Transcription Factor Binding Sites. American Journal of Human Genetics |
| Corona RI, Seo JH, Lin X, et al. (2020) Non-coding somatic mutations converge on the PAX8 pathway in ovarian cancer. Nature Communications. 11: 2020 |
| Pan J, Silva TC, Gull N, et al. (2020) Lineage-specific epigenomic and genomic activation of oncogene HNF4A promotes gastrointestinal adenocarcinomas. Cancer Research |
| Reyes ALP, Silva TC, Coetzee SG, et al. (2019) GENAVi: a shiny web application for gene expression normalization, analysis and visualization. Bmc Genomics. 20: 745 |