The Encyclopedia of DNA elements (ENCODE): data portal update CA Davis, BC Hitz, CA Sloan, ET Chan, JM Davidson, I Gabdank, ... Nucleic acids research 46 (D1), D794-D801, 2017 | 1704 | 2017 |
The International Human Epigenome Consortium: a blueprint for scientific collaboration and discovery HG Stunnenberg, S Abrignani, D Adams, M de Almeida, L Altucci, V Amin, ... Cell 167 (5), 1145-1149, 2016 | 510 | 2016 |
New developments on the Encyclopedia of DNA Elements (ENCODE) data portal Y Luo, BC Hitz, I Gabdank, JA Hilton, MS Kagda, B Lam, Z Myers, P Sud, ... Nucleic acids research, 2019 | 431 | 2019 |
Targeted metagenomics and ecology of globally important uncultured eukaryotic phytoplankton ML Cuvelier, AE Allen, A Monier, JP McCrow, M Messié, SG Tringe, ... Proceedings of the National Academy of Sciences 107 (33), 14679-14684, 2010 | 306 | 2010 |
Genomic deletions disrupt nitrogen metabolism pathways of a cyanobacterial diatom symbiont JA Hilton, RA Foster, HJ Tripp, BJ Carter, JP Zehr, TA Villareal Nature communications 4, 1767, 2013 | 115 | 2013 |
Nitrogen fixation in the South Atlantic Gyre and the Benguela upwelling system JA Sohm, JA Hilton, AE Noble, JP Zehr, MA Saito, EA Webb Geophysical Research Letters 38 (16), 2011 | 97 | 2011 |
Principles of metadata organization at the ENCODE data coordination center EL Hong, CA Sloan, ET Chan, JM Davidson, VS Malladi, JS Strattan, ... Database 2016, 2016 | 59 | 2016 |
Mondo: Unifying diseases for the world, by the world NA Vasilevsky, NA Matentzoglu, S Toro, JE Flack IV, H Hegde, DR Unni, ... medRxiv, 2022.04. 13.22273750, 2022 | 35 | 2022 |
Metatranscriptomics of N2-fixing cyanobacteria in the Amazon River plume JA Hilton, BM Satinsky, M Doherty, B Zielinski, JP Zehr The ISME journal 9 (7), 1557-1569, 2015 | 34 | 2015 |
The ENCODE portal as an epigenomics resource J Jou, I Gabdank, Y Luo, K Lin, P Sud, Z Myers, JA Hilton, MS Kagda, ... Current protocols in bioinformatics 68 (1), e89, 2019 | 25 | 2019 |
Ecology and evolution of diatom-associated cyanobacteria through genetic analyses JA Hilton University of California, Santa Cruz, 2014 | 22 | 2014 |
Surveying DNA Elements within Functional Genes of Heterocyst-Forming Cyanobacteria JA Hilton, JC Meeks, JP Zehr PloS one 11 (5), e0156034, 2016 | 17 | 2016 |
SnoVault and encodeD: A novel object-based storage system and applications to ENCODE metadata BC Hitz, LD Rowe, NR Podduturi, DI Glick, UK Baymuradov, VS Malladi, ... PloS one 12 (4), e0175310, 2017 | 16 | 2017 |
CZ CELLxGENE Discover: A single-cell data platform for scalable exploration, analysis and modeling of aggregated data CZI Single-Cell Biology, S Abdulla, B Aevermann, P Assis, S Badajoz, ... bioRxiv, 2023.10. 30.563174, 2023 | 10 | 2023 |
Prevention of data duplication for high throughput sequencing repositories I Gabdank, ET Chan, JM Davidson, JA Hilton, CA Davis, UK Baymuradov, ... Database 2018, 2018 | 9 | 2018 |
Matrix and analysis metadata standards (MAMS) to facilitate harmonization and reproducibility of single-cell data Y Wang, I Sarfraz, WK Teh, A Sokolov, BR Herb, HH Creasy, I Virshup, ... bioRxiv, 2023.03. 06.531314, 2023 | 2 | 2023 |
Ecological aspects of nitrogen-fixing cyanobacteria illuminated by genomics and metagenomics JP Zehr, HJ Tripp, J Hilton, PH Moisander, R Foster Journal of Phycology 47 (Suppl. 2 Sp. Iss. SI), S1-S1, 2011 | 1 | 2011 |
ENCODE data standards maximize quality and use of high-throughput genomic data Y Luo, I Gabdank, JA Hilton, WW Zhong, KZ Lin, J Jou, P Sud, ZA Myers, ... F1000Research 8, 2019 | | 2019 |
The ENCODE Annotation Pipeline: Standard analyses for ChIP-seq, RNA-seq, DNase-seq, and whole-genome bisulfite experiments JS Strattan, TR Dreszer, BC Hitz, ET Chan, JM Davidson, I Gabdank, ... F1000Research 6, 2017 | | 2017 |
A searchable catalogue of validated antibodies used in the ENCODE project ET Chan, JA Hilton, KC Onate, I Gabdank, M Ho, AK Narayanan, ... F1000Research 6, 2017 | | 2017 |