The IMG/M data management and analysis system v.6.0: new tools and advanced capabilities
Chen, I-Min A, Chu, Ken, Palaniappan, Krishnaveni, Ratner, Anna, Huang, Jinghua, Huntemann, Marcel, Hajek, Patrick, Ritter, Stephan, Varghese, Neha, Seshadri, Rekha, Roux, Simon, Woyke, Tanja, Eloe-Fadrosh, Emiley A, Ivanova, Natalia N, Kyrpides, Nikos C
Published in Nucleic acids research (08.01.2021)
Published in Nucleic acids research (08.01.2021)
Get full text
Journal Article
IMG/VR v3: an integrated ecological and evolutionary framework for interrogating genomes of uncultivated viruses
Roux, Simon, Páez-Espino, David, Chen, I-Min A, Palaniappan, Krishna, Ratner, Anna, Chu, Ken, Reddy, T B K, Nayfach, Stephen, Schulz, Frederik, Call, Lee, Neches, Russell Y, Woyke, Tanja, Ivanova, Natalia N, Eloe-Fadrosh, Emiley A, Kyrpides, Nikos C
Published in Nucleic acids research (08.01.2021)
Published in Nucleic acids research (08.01.2021)
Get full text
Journal Article
Genomes OnLine Database (GOLD) v.8: overview and updates
Mukherjee, Supratim, Stamatis, Dimitri, Bertsch, Jon, Ovchinnikova, Galina, Sundaramurthi, Jagadish Chandrabose, Lee, Janey, Kandimalla, Mahathi, Chen, I-Min A, Kyrpides, Nikos C, Reddy, T B K
Published in Nucleic acids research (08.01.2021)
Published in Nucleic acids research (08.01.2021)
Get full text
Journal Article
Twenty-five years of Genomes OnLine Database (GOLD): data updates and new features in v.9
Mukherjee, Supratim, Stamatis, Dimitri, Li, Cindy Tianqing, Ovchinnikova, Galina, Bertsch, Jon, Sundaramurthi, Jagadish Chandrabose, Kandimalla, Mahathi, Nicolopoulos, Paul A, Favognano, Alessandro, Chen, I-Min A, Kyrpides, Nikos C, Reddy, T B K
Published in Nucleic acids research (06.01.2023)
Published in Nucleic acids research (06.01.2023)
Get full text
Journal Article
IMG 4 version of the integrated microbial genomes comparative analysis system
Markowitz, Victor M, Chen, I-Min A, Palaniappan, Krishna, Chu, Ken, Szeto, Ernest, Pillay, Manoj, Ratner, Anna, Huang, Jinghua, Woyke, Tanja, Huntemann, Marcel, Anderson, Iain, Billis, Konstantinos, Varghese, Neha, Mavromatis, Konstantinos, Pati, Amrita, Ivanova, Natalia N, Kyrpides, Nikos C
Published in Nucleic acids research (01.01.2014)
Published in Nucleic acids research (01.01.2014)
Get full text
Journal Article
IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses
Paez-Espino, David, Chen, I-Min A, Palaniappan, Krishna, Ratner, Anna, Chu, Ken, Szeto, Ernest, Pillay, Manoj, Huang, Jinghua, Markowitz, Victor M, Nielsen, Torben, Huntemann, Marcel, K Reddy, T B, Pavlopoulos, Georgios A, Sullivan, Matthew B, Campbell, Barbara J, Chen, Feng, McMahon, Katherine, Hallam, Steve J, Denef, Vincent, Cavicchioli, Ricardo, Caffrey, Sean M, Streit, Wolfgang R, Webster, John, Handley, Kim M, Salekdeh, Ghasem H, Tsesmetzis, Nicolas, Setubal, Joao C, Pope, Phillip B, Liu, Wen-Tso, Rivers, Adam R, Ivanova, Natalia N, Kyrpides, Nikos C
Published in Nucleic Acids Research (30.10.2016)
Published in Nucleic Acids Research (30.10.2016)
Get full text
Journal Article
Web Resource
IMG ER: a system for microbial genome annotation expert review and curation
Markowitz, Victor M., Mavromatis, Konstantinos, Ivanova, Natalia N., Chen, I-Min A., Chu, Ken, Kyrpides, Nikos C.
Published in Bioinformatics (01.09.2009)
Published in Bioinformatics (01.09.2009)
Get full text
Journal Article
IMG-ABC: new features for bacterial secondary metabolism analysis and targeted biosynthetic gene cluster discovery in thousands of microbial genomes
Hadjithomas, Michalis, Chen, I-Min A, Chu, Ken, Huang, Jinghua, Ratner, Anna, Palaniappan, Krishna, Andersen, Evan, Markowitz, Victor, Kyrpides, Nikos C, Ivanova, Natalia N
Published in Nucleic acids research (04.01.2017)
Published in Nucleic acids research (04.01.2017)
Get full text
Journal Article
IMG/PR: a database of plasmids from genomes and metagenomes with rich annotations and metadata
Camargo, Antonio Pedro, Call, Lee, Roux, Simon, Nayfach, Stephen, Huntemann, Marcel, Palaniappan, Krishnaveni, Ratner, Anna, Chu, Ken, Mukherjeep, Supratim, Reddy, T B K, Chen, I-Min A, Ivanova, Natalia N, Eloe-Fadrosh, Emiley A, Woyke, Tanja, Baltrus, David A, Castañeda-Barba, Salvador, de la Cruz, Fernando, Funnell, Barbara E, Hall, James P J, Mukhopadhyay, Aindrila, Rocha, Eduardo P C, Stalder, Thibault, Top, Eva, Kyrpides, Nikos C
Published in Nucleic acids research (05.01.2024)
Published in Nucleic acids research (05.01.2024)
Get full text
Journal Article
integrated microbial genomes system: an expanding comparative analysis resource
Markowitz, Victor M, Chen, I. Min A, Palaniappan, Krishna, Chu, Ken, Szeto, Ernest, Grechkin, Yuri, Ratner, Anna, Anderson, Iain, Lykidis, Athanasios, Mavromatis, Konstantinos, Ivanova, Natalia N, Kyrpides, Nikos C
Published in Nucleic acids research (01.01.2010)
Published in Nucleic acids research (01.01.2010)
Get full text
Journal Article
Improving microbial genome annotations in an integrated database context
Chen, I-Min A, Markowitz, Victor M, Chu, Ken, Anderson, Iain, Mavromatis, Konstantinos, Kyrpides, Nikos C, Ivanova, Natalia N
Published in PloS one (12.02.2013)
Published in PloS one (12.02.2013)
Get full text
Journal Article
DOE JGI Metagenome Workflow
Clum, Alicia, Huntemann, Marcel, Bushnell, Brian, Foster, Brian, Foster, Bryce, Roux, Simon, Hajek, Patrick P, Varghese, Neha, Mukherjee, Supratim, Reddy, T B K, Daum, Chris, Yoshinaga, Yuko, O'Malley, Ronan, Seshadri, Rekha, Kyrpides, Nikos C, Eloe-Fadrosh, Emiley A, Chen, I-Min A, Copeland, Alex, Ivanova, Natalia N
Published in mSystems (18.05.2021)
Published in mSystems (18.05.2021)
Get full text
Journal Article
The standard operating procedure of the DOE-JGI Metagenome Annotation Pipeline (MAP v.4)
Huntemann, Marcel, Ivanova, Natalia N, Mavromatis, Konstantinos, Tripp, H James, Paez-Espino, David, Tennessen, Kristin, Palaniappan, Krishnaveni, Szeto, Ernest, Pillay, Manoj, Chen, I-Min A, Pati, Amrita, Nielsen, Torben, Markowitz, Victor M, Kyrpides, Nikos C
Published in Environmental microbiome (24.02.2016)
Published in Environmental microbiome (24.02.2016)
Get full text
Journal Article
IMG/VR v.2.0: an integrated data management and analysis system for cultivated and environmental viral genomes
Paez-Espino, David, Roux, Simon, Chen, I-Min A, Palaniappan, Krishna, Ratner, Anna, Chu, Ken, Huntemann, Marcel, Reddy, T B K, Pons, Joan Carles, Llabrés, Mercè, Eloe-Fadrosh, Emiley A, Ivanova, Natalia N, Kyrpides, Nikos C
Published in Nucleic Acids Research (08.01.2019)
Published in Nucleic Acids Research (08.01.2019)
Get full text
Journal Article
Web Resource
Influence of the polar light cycle on seasonal dynamics of an Antarctic lake microbial community
Panwar, Pratibha, Allen, Michelle A, Williams, Timothy J, Hancock, Alyce M, Brazendale, Sarah, Bevington, James, Roux, Simon, Páez-Espino, David, Nayfach, Stephen, Berg, Maureen, Schulz, Frederik, Chen, I-Min A, Huntemann, Marcel, Shapiro, Nicole, Kyrpides, Nikos C, Woyke, Tanja, Eloe-Fadrosh, Emiley A, Cavicchioli, Ricardo
Published in Microbiome (09.08.2020)
Published in Microbiome (09.08.2020)
Get full text
Journal Article
integrated microbial genomes (IMG) system in 2007: data content and analysis tool extensions
Markowitz, Victor M, Szeto, Ernest, Palaniappan, Krishna, Grechkin, Yuri, Chu, Ken, Chen, I. Min A, Dubchak, Inna, Anderson, Iain, Lykidis, Athanasios, Mavromatis, Konstantinos, Ivanova, Natalia N, Kyrpides, Nikos C
Published in Nucleic acids research (01.01.2008)
Published in Nucleic acids research (01.01.2008)
Get full text
Journal Article
Microbial metagenomes and metatranscriptomes during a coastal phytoplankton bloom
Nowinski, Brent, Smith, Christa B., Thomas, Courtney M., Esson, Kaitlin, Marin, Roman, Preston, Christina M., Birch, James M., Scholin, Christopher A., Huntemann, Marcel, Clum, Alicia, Foster, Brian, Foster, Bryce, Roux, Simon, Palaniappan, Krishnaveni, Varghese, Neha, Mukherjee, Supratim, Reddy, T. B. K., Daum, Chris, Copeland, Alex, Chen, I.-Min A., Ivanova, Natalia N., Kyrpides, Nikos C., Glavina del Rio, Tijana, Whitman, William B., Kiene, Ronald P., Eloe-Fadrosh, Emiley A., Moran, Mary Ann
Published in Scientific data (22.07.2019)
Published in Scientific data (22.07.2019)
Get full text
Journal Article
IMG-ABC v.5.0: an update to the IMG/Atlas of Biosynthetic Gene Clusters Knowledgebase
Palaniappan, Krishnaveni, Chen, I-Min A, Chu, Ken, Ratner, Anna, Seshadri, Rekha, Kyrpides, Nikos C, Ivanova, Natalia N, Mouncey, Nigel J
Published in Nucleic acids research (08.01.2020)
Published in Nucleic acids research (08.01.2020)
Get full text
Journal Article
Genomes OnLine database (GOLD) v.7: updates and new features
Mukherjee, Supratim, Stamatis, Dimitri, Bertsch, Jon, Ovchinnikova, Galina, Katta, Hema Y, Mojica, Alejandro, Chen, I-Min A, Kyrpides, Nikos C, Reddy, TBK
Published in Nucleic acids research (08.01.2019)
Published in Nucleic acids research (08.01.2019)
Get full text
Journal Article