I-Min A. Chen - researchr alias

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Viewing Publication 1 - 42 from 42

2023

Standardized naming of microbiome samples in Genomes OnLine DatabaseSupratim Mukherjee, Galina Ovchinnikova, Dimitri Stamatis, Cindy Tianqing Li, I-Min A. Chen, Nikos Kyrpides, T. B. K. Reddy. biodb, 2023, January 2023. [doi]

Twenty-five years of Genomes OnLine Database (GOLD): data updates and new features in v.9Supratim Mukherjee, Dimitri Stamatis, Cindy Tianqing Li, Galina Ovchinnikova, Jon Bertsch, Jagadish Chandrabose Sundaramurthi, Mahathi Kandimalla, Paul A. Nicolopoulos, Alessandro Favognano, I-Min A. Chen, Nikos Kyrpides, T. B. K. Reddy. nar, 51(D1):957-963, January 2023. [doi]

2021

The IMG/M data management and analysis system v.6.0: new tools and advanced capabilitiesI-Min A. Chen, Ken Chu, Krishnaveni Palaniappan, Anna Ratner, Jinghua Huang, Marcel Huntemann, Patrick Hajek, Stephan Ritter, Neha Varghese, Rekha Seshadri, Simon Roux, Tanja Woyke, Emiley A. Eloe-Fadrosh, Natalia N. Ivanova, Nikos Kyrpides. nar, 49(Database-Issue), 2021. [doi]

Genomes OnLine Database (GOLD) v.8: overview and updatesSupratim Mukherjee, Dimitri Stamatis, Jon Bertsch, Galina Ovchinnikova, Jagadish Chandrabose Sundaramurthi, Janey Lee, Mahathi Kandimalla, I-Min A. Chen, Nikos Kyrpides, T. B. K. Reddy. nar, 49(Database-Issue), 2021. [doi]

IMG/VR v3: an integrated ecological and evolutionary framework for interrogating genomes of uncultivated virusesSimon Roux, A. David Páez-Espino, I-Min A. Chen, Krishna Palaniappan, Anna Ratner, Ken Chu, T. B. K. Reddy, Stephen Nayfach, Frederik Schulz, Lee Call, Russell Y. Neches, Tanja Woyke, Natalia N. Ivanova, Emiley A. Eloe-Fadrosh, Nikos Kyrpides. nar, 49(Database-Issue), 2021. [doi]

2020

IMG-ABC v.5.0: an update to the IMG/Atlas of Biosynthetic Gene Clusters KnowledgebaseKrishnaveni Palaniappan, I-Min A. Chen, Ken Chu, Anna Ratner, Rekha Seshadri, Nikos Kyrpides, Natalia N. Ivanova, Nigel J. Mouncey. nar, 48(Database-Issue), 2020. [doi]

2019

Genomes OnLine database (GOLD) v.7: updates and new featuresSupratim Mukherjee, Dimitri Stamatis, Jon Bertsch, Galina Ovchinnikova, Hema Y. Katta, Alejandro Mojica, I-Min A. Chen, Nikos Kyrpides, T. B. K. Reddy. nar, 47(Database-Issue), 2019. [doi]

IMG/VR v.2.0: an integrated data management and analysis system for cultivated and environmental viral genomesA. David Páez-Espino, Simon Roux, I-Min A. Chen, Krishna Palaniappan, Anna Ratner, Ken Chu, Marcel Huntemann, T. B. K. Reddy, Joan Carles Pons, Mercè Llabrés, Emiley A. Eloe-Fadrosh, Natalia N. Ivanova, Nikos Kyrpides. nar, 47(Database-Issue), 2019. [doi]

2017

IMG/M: integrated genome and metagenome comparative data analysis systemI-Min A. Chen, Victor M. Markowitz, Ken Chu, Krishna Palaniappan, Ernest Szeto, Manoj Pillay, Anna Ratner, Jinghua Huang, Evan Andersen, Marcel Huntemann, Neha Varghese, Michalis Hadjithomas, Kristin Tennessen, Torben-Nielsen, Natalia Ivanova, Nikos Kyrpides. nar, 45(Database-Issue), 2017. [doi]

IMG-ABC: new features for bacterial secondary metabolism analysis and targeted biosynthetic gene cluster discovery in thousands of microbial genomesMichalis Hadjithomas, I-Min A. Chen, Ken Chu, Jinghua Huang, Anna Ratner, Krishna Palaniappan, Evan Andersen, Victor M. Markowitz, Nikos Kyrpides, Natalia Ivanova. nar, 45(Database-Issue), 2017. [doi]

2014

Maintaining a microbial genome & metagenome data analysis system in an academic settingI-Min A. Chen, Victor M. Markowitz, Ernest Szeto, Krishna Palaniappan, Ken Chu. ssdbm 2014: 3 [doi]

2012

IMG/M: the integrated metagenome data management and comparative analysis systemVictor M. Markowitz, I-Min A. Chen, Ken Chu, Ernest Szeto, Krishna Palaniappan, Yuri Grechkin, Anna Ratner, Biju Jacob, Amrita Pati, Marcel Huntemann, Konstantinos Liolios, Ioanna Pagani, Iain Anderson, Konstantinos Mavrommatis, Natalia Ivanova, Nikos Kyrpides. nar, 40(Database-Issue):123-129, 2012. [doi]

IMG: the integrated microbial genomes database and comparative analysis systemVictor M. Markowitz, I-Min A. Chen, Krishna Palaniappan, Ken Chu, Ernest Szeto, Yuri Grechkin, Anna Ratner, Biju Jacob, Jinghua Huang, Peter Williams, Marcel Huntemann, Iain Anderson, Konstantinos Mavrommatis, Natalia Ivanova, Nikos Kyrpides. nar, 40(Database-Issue):115-122, 2012. [doi]

The Genomes OnLine Database (GOLD) v.4: status of genomic and metagenomic projects and their associated metadataIoanna Pagani, Konstantinos Liolios, Jakob Jansson, I-Min A. Chen, Tatyana Smirnova, Bahador Nosrat, Victor M. Markowitz, Nikos Kyrpides. nar, 40(Database-Issue):571-579, 2012. [doi]

2010

2009

IMG ER: a system for microbial genome annotation expert review and curationVictor M. Markowitz, Konstantinos Mavrommatis, Natalia Ivanova, I-Min A. Chen, Ken Chu, Nikos Kyrpides. bioinformatics, 25(17):2271-2278, 2009. [doi]

2008

2002

Gene Expression Data Management: A Case StudyVictor M. Markowitz, I-Min A. Chen, Anthony Kosky. edbt 2002: 722-731 [doi]

1998

Advanced Query Mechanisms for Biological DatabasesI-Min A. Chen, Anthony Kosky, Victor M. Markowitz, Ernest Szeto, Thodoros Topaloglou. ismb 1998: 43-51

Integrating Information from Multiple Independently Developed Data SourcesI-Min A. Chen, Doron Rotem. CIKM 1998: 242-250 [doi]

Exploring Heterogeneous Biological Databases: Tools and ApplicationsAnthony Kosky, I-Min A. Chen, Victor M. Markowitz, Ernest Szeto. edbt 1998: 499-513 [doi]

1997

1996

Version Management for Scientific DatabasesI-Min A. Chen, Victor M. Markowitz, Stanley Letovsky, Peter Li, Kenneth H. Fasman. edbt 1996: 289-303 [doi]

Query Answering Using Discovered RulesI-Min A. Chen. icde 1996: 402-411 [doi]

1995

Modeling Scientific Experiments with an Object Data ModelI-Min A. Chen, Victor M. Markowitz. icde 1995: 391-400 [doi]

An Execution Model for Limited Ambiguity Rules and Its Application to Derived Data UpdateI-Min A. Chen, Richard Hull, Dennis McLeod. TODS, 20(4):365-413, 1995. [doi]

An Overview of the Object-Protocol Model (OPM) and OPM Data Management ToolsI-Min A. Chen, Victor M. Markowitz. is, 20(5):393-418, 1995. [doi]

1994

Local Ambiguity and Derived Data UpdateI-Min A. Chen, Richard Hull, Dennis McLeod. ride 1994: 77-86

1993

Data Management Tools for Genomic Applications: A Progress ReportVictor M. Markowitz, I-Min A. Chen. DEXA 1993: 529-540

1992

A Unified Approach to Data and Meta-data Modifications for Data/Knowledge BasesI-Min A. Chen, Dennis McLeod. BIRTHDAY 1992: 287-313

1991

An Approach to Deriving Object Hierarchies from Database Schema and ContentsI-Min A. Chen, Rei-Chi Lee. ismis 1991: 112-121

1989

Derived Data Update in Semantic DatabasesI-Min A. Chen, Dennis McLeod. VLDB 1989: 225-235 [doi]

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