Eric E. Allen

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Jillian BANFIELDUniversity of California BerkeleyVerified email at berkeley.edu
Sheila PodellScripps Institution of OceanographyVerified email at ucsd.edu
Gene W. TysonProfessor, Centre for Microbiome Research, Queensland University of TechnologyVerified email at qut.edu.au
Jeremiah J. Minich, PhDSalkVerified email at salk.edu
Philip HugenholtzAustralian Centre for Ecogenomics, SCMB, The University of QueenslandVerified email at uq.edu.au
Paul M RichardsonMicroTrek IncorporatedVerified email at microtrek.net
Rob KnightWolfe Family Chair at Rady Children's; Director, Center for Microbiome Innovation; Professor, UCSDVerified email at ucsd.edu
Dr. Karla HeidelbergDepartment of Biology, University of Southern CaliforniaVerified email at usc.edu
Bradley Scott MooreUCSDVerified email at ucsd.edu
Juan A. UgaldeCenter for Bioinformatics and Integrative Biology, Universidad Andres BelloVerified email at unab.cl
Joanne B. EmersonAssistant Professor, University of California, DavisVerified email at ucdavis.edu
Vinayak AgarwalAssistant Professor, Chemistry & Biochemistry, Biological Sciences. Georgia TechVerified email at gatech.edu
Priya NarasingaraoScripps Institution of OceanographyVerified email at ucsd.edu
Paul JensenScripps Institution of Oceanography, University of California San DiegoVerified email at ucsd.edu
Jochen J. BrocksProfessor of Geobiology, Research School of Earth Sciences, The Australian National UniversityVerified email at anu.edu.au
Andrew E. AllenJ. Craig Venter Institute, Scripps Insitutuon of Oceanography (UCSD)Verified email at jcvi.org
Christine ShulseLos Medanos CollegeVerified email at lbl.gov
Victor SolovyevVP of Data Science, Auransa Inc.Verified email at softberry.com
Ian PaulsenProfessor, Macquarie UniversityVerified email at mq.edu.au
Brian C. ThomasCEO/Founder, Metagenomi.coVerified email at metagenomi.co

Eric E. Allen

Professor of Marine Microbiology, University of California San Diego

Verified email at ucsd.edu

Metagenomics Microbial Genetics Bioinformatics


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Community structure and metabolism through reconstruction of microbial genomes from the environment GW Tyson, J Chapman, P Hugenholtz, EE Allen, RJ Ram, PM Richardson, ... Nature 428 (6978), 37-43, 2004	2658	2004
The Marine Microbial Eukaryote Transcriptome Sequencing Project (MMETSP): illuminating the functional diversity of eukaryotic life in the oceans through transcriptome sequencing PJ Keeling, F Burki, HM Wilcox, B Allam, EE Allen, LA Amaral-Zettler, ... PLoS biology 12 (6), e1001889, 2014	864	2014
The genome of a motile marine Synechococcus B Palenik, B Brahamsha, FW Larimer, M Land, L Hauser, P Chain, ... Nature 424 (6952), 1037-1042, 2003	746	2003
The yeast genome directory AEA Goffeau, R Aert, ML Agostini-Carbone, A Ahmed, M Aigle, ... Nature 387 (6632), 5-6, 1997	514	1997
Complete mitochondrial genome phylogeographic analysis of killer whales (Orcinus orca) indicates multiple species PA Morin, FI Archer, AD Foote, J Vilstrup, EE Allen, P Wade, J Durban, ... Genome research 20 (7), 908-916, 2010	454	2010
The natural product domain seeker NaPDoS: a phylogeny based bioinformatic tool to classify secondary metabolite gene diversity N Ziemert, S Podell, K Penn, JH Badger, E Allen, PR Jensen PloS one 7 (3), e34064, 2012	422	2012
Community cyberinfrastructure for advanced microbial ecology research and analysis: the CAMERA resource S Sun, J Chen, W Li, I Altintas, A Lin, S Peltier, K Stocks, EE Allen, ... Nucleic acids research 39 (suppl_1), D546-D551, 2010	383	2010
De novo metagenomic assembly reveals abundant novel major lineage of Archaea in hypersaline microbial communities P Narasingarao, S Podell, JA Ugalde, C Brochier-Armanet, JB Emerson, ... The ISME journal 6 (1), 81-93, 2012	343	2012
Community genomics in microbial ecology and evolution EE Allen, JF Banfield Nature reviews microbiology 3 (6), 489-498, 2005	288	2005
Genome-Directed Isolation of the Key Nitrogen Fixer Leptospirillum ferrodiazotrophum sp. nov. from an Acidophilic Microbial Community GW Tyson, I Lo, BJ Baker, EE Allen, P Hugenholtz, JF Banfield Applied and environmental microbiology 71 (10), 6319-6324, 2005	284	2005
Monounsaturated but Not Polyunsaturated Fatty Acids Are Required for Growth of the Deep-Sea BacteriumPhotobacterium profundum SS9 at High Pressure and … EE Allen, D Facciotti, DH Bartlett Applied and Environmental Microbiology 65 (4), 1710-1720, 1999	266	1999
Strain-resolved community proteomics reveals recombining genomes of acidophilic bacteria I Lo, VJ Denef, NC VerBerkmoes, MB Shah, D Goltsman, G DiBartolo, ... Nature 446 (7135), 537-541, 2007	253	2007
Biosynthesis of polybrominated aromatic organic compounds by marine bacteria V Agarwal, AA El Gamal, K Yamanaka, D Poth, RD Kersten, M Schorn, ... Nature chemical biology 10 (8), 640-647, 2014	247	2014
Structure and regulation of the omega-3 polyunsaturated fatty acid synthase genes from the deep-sea bacterium Photobacterium profundum strain SS9 EE Allen, DH Bartlett Microbiology 148 (6), 1903-1913, 2002	231	2002
Lineages of acidophilic archaea revealed by community genomic analysis BJ Baker, GW Tyson, RI Webb, J Flanagan, P Hugenholtz, EE Allen, ... Science 314 (5807), 1933-1935, 2006	222	2006
Genomic islands link secondary metabolism to functional adaptation in marine Actinobacteria K Penn, C Jenkins, M Nett, DW Udwary, EA Gontang, RP McGlinchey, ... The ISME journal 3 (10), 1193-1203, 2009	200	2009
Compositional differences in particle‐associated and free‐living microbial assemblages from an extreme deep‐ocean environment EA Eloe, CN Shulse, DW Fadrosh, SJ Williamson, EE Allen, DH Bartlett Environmental microbiology reports 3 (4), 449-458, 2011	168	2011
Characterization of cyanobacterial hydrocarbon composition and distribution of biosynthetic pathways RC Coates, S Podell, A Korobeynikov, A Lapidus, P Pevzner, ... PloS one 9 (1), e85140, 2014	163	2014
Genome dynamics in a natural archaeal population EE Allen, GW Tyson, RJ Whitaker, JC Detter, PM Richardson, JF Banfield Proceedings of the National Academy of Sciences 104 (6), 1883-1888, 2007	145	2007
Metabolic versatility of the Riftia pachyptila endosymbiont revealed through metagenomics JC Robidart, SR Bench, RA Feldman, A Novoradovsky, SB Podell, ... Environmental Microbiology 10 (3), 727-737, 2008	143	2008

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