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I-Min A. Chen · SciRah

Researcher profile · Semantic Scholar

I-Min A. Chen

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I-Min A. Chen — researcher profile on SciRah

h-index: 34
Works: 69
Citations: 23K

Most-cited papers

Structure, Function and Diversity of the Healthy Human Microbiome
C. Huttenhower, D. Gevers, R. Knight, Sahar Abubucker +244 more
2012Nature11K citations Open access
Semantic Scholar
A framework for human microbiome research
B. Methé, K. Nelson, Mihai Pop, H. Creasy +244 more
2012Nature2,439 citations Open access
Semantic Scholar
IMG: the integrated microbial genomes database and comparative analysis system
V. Markowitz, I-Min A. Chen, K. Palaniappan, K. Chu +11 more
2011Nucleic Acids Res.1,362 citations Open access
Semantic Scholar
A genomic catalog of Earth’s microbiomes
Stephen Nayfach, S. Roux, R. Seshadri, D. Udwary +263 more
2020Nature Biotechnology783 citations Open access
Semantic Scholar
IMG/M v.5.0: an integrated data management and comparative analysis system for microbial genomes and microbiomes
I-Min A. Chen, K. Chu, K. Palaniappan, M. Pillay +13 more
2018Nucleic Acids Res.771 citations Open access
Semantic Scholar
IMG ER: a system for microbial genome annotation expert review and curation
V. Markowitz, K. Mavromatis, Natalia N. Ivanova, I-Min A. Chen +2 more
2009Bioinform.584 citations Open access
Semantic Scholar
IMG 4 version of the integrated microbial genomes comparative analysis system
V. Markowitz, I-Min A. Chen, K. Palaniappan, K. Chu +13 more
2013Nucleic Acids Res.580 citations Open access
Semantic Scholar
The Genomes OnLine Database (GOLD) v.4: status of genomic and metagenomic projects and their associated metadata
I. Pagani, K. Liolios, Jakob Jansson, I-Min A. Chen +4 more
2011Nucleic Acids Res.442 citations Open access
Semantic Scholar
IMG/M: integrated genome and metagenome comparative data analysis system
I-Min A. Chen, V. Markowitz, K. Chu, K. Palaniappan +12 more
2016Nucleic Acids Res.422 citations Open access
Semantic Scholar
IMG/VR v4: an expanded database of uncultivated virus genomes within a framework of extensive functional, taxonomic, and ecological metadata
A. Camargo, Stephen Nayfach, I-Min A. Chen, K. Palaniappan +13 more
2022Nucleic Acids Res.406 citations Open access
Semantic Scholar
The IMG/M data management and analysis system v.6.0: new tools and advanced capabilities
I-Min A. Chen, K. Chu, K. Palaniappan, A. Ratner +11 more
2020Nucleic Acids Res.396 citations Open access
Semantic Scholar
IMG/M: a data management and analysis system for metagenomes
V. Markowitz, N. Ivanova, E. Szeto, K. Palaniappan +10 more
2007Nucleic Acids Res.381 citations Open access
Semantic Scholar
The IMG/M data management and analysis system v.7: content updates and new features
I-Min A. Chen, K. Chu, K. Palaniappan, A. Ratner +18 more
2022Nucleic Acids Res.343 citations Open access
Semantic Scholar
The standard operating procedure of the DOE-JGI Microbial Genome Annotation Pipeline (MGAP v.4)
M. Huntemann, Natalia N. Ivanova, K. Mavromatis, H. Tripp +9 more
2015Standards in Genomic Sciences314 citations Open access
Semantic Scholar
IMG/VR v3: an integrated ecological and evolutionary framework for interrogating genomes of uncultivated viruses
S. Roux, D. Páez-Espino, I-Min A. Chen, K. Palaniappan +11 more
2020Nucleic Acids Res.304 citations Open access
Semantic Scholar
The integrated microbial genomes system: an expanding comparative analysis resource
V. Markowitz, I-Min A. Chen, K. Palaniappan, K. Chu +8 more
2009Nucleic Acids Res.278 citations Open access
Semantic Scholar
IMG/M 4 version of the integrated metagenome comparative analysis system
V. Markowitz, I-Min A. Chen, K. Chu, E. Szeto +14 more
2013Nucleic Acids Res.275 citations Open access
Semantic Scholar
The DOE-JGI Standard Operating Procedure for the Annotations of Microbial Genomes
K. Mavromatis, Natalia N. Ivanova, I-Min A. Chen, E. Szeto +2 more
2009Standards in Genomic Sciences241 citations Open access
Semantic Scholar
The integrated microbial genomes (IMG) system in 2007: data content and analysis tool extensions
V. Markowitz, E. Szeto, K. Palaniappan, Y. Grechkin +8 more
2007Nucleic Acids Res.230 citations Open access
Semantic Scholar
IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses
D. Páez-Espino, I-Min A. Chen, K. Palaniappan, A. Ratner +28 more
2016Nucleic Acids Res.184 citations Open access
Semantic Scholar
Genomes OnLine database (GOLD) v.7: updates and new features
Supratim Mukherjee, Dimitrios Stamatis, J. Bertsch, G. Ovchinnikova +5 more
2018Nucleic Acids Res.174 citations Open access
Semantic Scholar
IMG/VR v.2.0: an integrated data management and analysis system for cultivated and environmental viral genomes
D. Páez-Espino, S. Roux, I-Min A. Chen, K. Palaniappan +9 more
2018Nucleic Acids Res.156 citations Open access
Semantic Scholar
The standard operating procedure of the DOE-JGI Metagenome Annotation Pipeline (MAP v.4)
M. Huntemann, Natalia N. Ivanova, K. Mavromatis, H. Tripp +10 more
2016Standards in Genomic Sciences137 citations Open access
Semantic Scholar
IMG-ABC: A Knowledge Base To Fuel Discovery of Biosynthetic Gene Clusters and Novel Secondary Metabolites
M. Hadjithomas, I-Min A. Chen, K. Chu, A. Ratner +10 more
2015mBio99 citations Open access
Semantic Scholar
Twenty-five years of Genomes OnLine Database (GOLD): data updates and new features in v.9
Supratim Mukherjee, Dimitrios Stamatis, C. Li, G. Ovchinnikova +8 more
2022Nucleic Acids Res.98 citations Open access
Semantic Scholar
IMG-ABC v.5.0: an update to the IMG/Atlas of Biosynthetic Gene Clusters Knowledgebase
K. Palaniappan, I-Min A. Chen, K. Chu, A. Ratner +4 more
2019Nucleic Acids Res.98 citations Open access
Semantic Scholar
DOE JGI Metagenome Workflow
A. Clum, M. Huntemann, Brian Bushnell, Brian Foster +15 more
2021mSystems92 citations Open access
Semantic Scholar
IMG-ABC: new features for bacterial secondary metabolism analysis and targeted biosynthetic gene cluster discovery in thousands of microbial genomes
M. Hadjithomas, I-Min A. Chen, K. Chu, Jinghua Huang +6 more
2016Nucleic Acids Res.78 citations Open access
Semantic Scholar
Improving Microbial Genome Annotations in an Integrated Database Context
I-Min A. Chen, V. Markowitz, K. Chu, I. Anderson +3 more
2013PLoS ONE72 citations Open access
Semantic Scholar
The Genomes On Line Database (GOLD) in 2009: status of genomic and metagenomic projects and their associated metadata
K. Liolios, I-Min A. Chen, K. Mavromatis, Nektarios Tavernarakis +3 more
2007Nucleic Acids Res.67 citations Open access
Semantic Scholar
Expanding the genomic encyclopedia of Actinobacteria with 824 isolate reference genomes
R. Seshadri, S. Roux, Katharina J. Huber, Dongying Wu +36 more
2022Cell Genomics55 citations Open access
Semantic Scholar
Supporting community annotation and user collaboration in the integrated microbial genomes (IMG) system
I-Min A. Chen, V. Markowitz, K. Palaniappan, E. Szeto +10 more
2016BMC Genomics51 citations Open access
Semantic Scholar
IMG/M-HMP: A Metagenome Comparative Analysis System for the Human Microbiome Project
V. Markowitz, I-Min A. Chen, K. Chu, E. Szeto +9 more
2012PLoS ONE51 citations Open access
Semantic Scholar
Influence of the polar light cycle on seasonal dynamics of an Antarctic lake microbial community
Pratibha Panwar, M. Allen, T. Williams, Alyce M. Hancock +14 more
2020Microbiome38 citations Open access
Semantic Scholar
Metagenome Sequencing to Explore Phylogenomics of Terrestrial Cyanobacteria
Ryan D. Ward, J. Stajich, J. Johansen, M. Huntemann +16 more
2021Microbiology Resource Announcements22 citations Open access
Semantic Scholar
Ten years of maintaining and expanding a microbial genome and metagenome analysis system.
V. Markowitz, I-Min A. Chen, K. Chu, A. Pati +2 more
2015Trends in Microbiology21 citations Open access
Semantic Scholar
Author Correction: A genomic catalog of Earth’s microbiomes
Stephen Nayfach, S. Roux, R. Seshadri, D. Udwary +28 more
2021Nature Biotechnology17 citations Open access
Semantic Scholar
Multiomics in the central Arctic Ocean for benchmarking biodiversity change
T. Mock, William Boulton, J. Balmonte, K. Barry +53 more
2022PLoS Biology13 citations Open access
Semantic Scholar
Erratum to: The standard operating procedure of the DOE-JGI Microbial Genome Annotation Pipeline (MGAP v.4)
M. Huntemann, Natalia N. Ivanova, K. Mavromatis, H. Tripp +9 more
2016Standards in Genomic Sciences13 citations Open access
Semantic Scholar
Publisher Correction: A genomic catalog of Earth’s microbiomes
Stephen Nayfach, S. Roux, R. Seshadri, D. Udwary +28 more
2020Nature Biotechnology12 citations Open access
Semantic Scholar
Complete Genome Sequences of Caldicellulosiruptor sp. Strain Rt8.B8, Caldicellulosiruptor sp. Strain Wai35.B1, and “Thermoanaerobacter cellulolyticus”
Laura L. Lee, J. Izquierdo, Sara E. Blumer-Schuette, J. Zurawski +21 more
2015Genome Announcements12 citations Open access
Semantic Scholar
Genome sequence of the clover-nodulating Rhizobium leguminosarum bv. trifolii strain TA1
W. Reeve, R. Tian, S. D. De Meyer, Vanessa J. Melino +26 more
2013Standards in Genomic Sciences12 citations Open access
Semantic Scholar
Genomics, Exometabolomics, and Metabolic Probing Reveal Conserved Proteolytic Metabolism of Thermoflexus hugenholtzii and Three Candidate Species From China and Japan
Scott C Thomas, Devon Payne, Kevin O. Tamadonfar, Cale O. Seymour +30 more
2021Frontiers in Microbiology9 citations Open access
Semantic Scholar
Genome sequence of the Lebeckia ambigua-nodulating “Burkholderia sprentiae” strain WSM5005T
W. Reeve, S. D. De Meyer, Jason J. Terpolilli, Vanessa J. Melino +28 more
2013Standards in Genomic Sciences8 citations Open access
Semantic Scholar
Genome sequence of the Listia angolensis microsymbiont Microvirga lotononidis strain WSM3557T
W. Reeve, J. Ardley, R. Tian, S. D. De Meyer +25 more
2013Standards in Genomic Sciences8 citations Open access
Semantic Scholar
Standardized naming of microbiome samples in Genomes OnLine Database
Supratim Mukherjee, G. Ovchinnikova, Dimitrios Stamatis, C. Li +3 more
2023Database J. Biol. Databases Curation7 citations Open access
Semantic Scholar
High-quality draft genome sequences of Pseudomonas monteilii DSM 14164T, Pseudomonas mosselii DSM 17497T, Pseudomonas plecoglossicida DSM 15088T, Pseudomonas taiwanensis DSM 21245T and Pseudomonas vranovensis DSM 16006T: taxonomic considerations
Arantxa Peña, A. Busquets, M. Gomila, M. Mulet +12 more
2019Access Microbiology6 citations Open access
Semantic Scholar
Draft Genome Sequences of New Isolates and the Known Species of the Family Microbacteriaceae Associated with Plants
O. Vasilenko, I. P. Starodumova, L. V. Dorofeeva, S. Tarlachkov +20 more
2018Microbiology Resource Announcements6 citations Open access
Semantic Scholar
Maintaining a microbial genome & metagenome data analysis system in an academic setting
I-Min A. Chen, V. Markowitz, E. Szeto, K. Palaniappan +1 more
2014International Conference on Statistical and Scientific Database Management6 citations
Semantic Scholar
Bioinformatics Analysis Tools for Studying Microbiomes at the DOE Joint Genome Institute
Supratim Mukherjee, K. Palaniappan, R. Seshadri, K. Chu +22 more
2023Journal of the Indian Institute of Science5 citations
Semantic Scholar

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