The quality of metabolic pathway resources depends on initial enzymatic function assignments: a case for maize.

Seung Yon Rhee

Jesse R. Walsh Mary L. Schaeffer Peifen Zhang Seung Yon Rhee Julie A. Dickerson Taner Z. Sen The quality of metabolic pathway resources depends on initial enzymatic function assignments: a case for maize. 129:1-129:9 2016 10 BMC Syst. Biol. https://doi.org/10.1186/s12918-016-0369-x https://www.wikidata.org/entity/Q36207198 db/journals/bmcsb/bmcsb10.html#WalshSZRDS16

Shulamit Avraham Chih-Wei Tung Katica Ilic Pankaj Jaiswal Elizabeth A. Kellogg Susan McCouch Anuradha Pujar Leonore Reiser Seung Yon Rhee Martin M. Sachs Mary L. Schaeffer Lincoln Stein Peter F. Stevens Leszek Vincent Felipe Zapata 0001 Doreen Ware The Plant Ontology Database: a community resource for plant structure and developmental stages controlled vocabulary and annotations. 449-454 2008 36 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkm908 https://www.wikidata.org/entity/Q28264672 db/journals/nar/nar36.html#AvrahamTIJKMPRRSSSSVZW08

Ron Caspi Hartmut Foerster Carol A. Fulcher Pallavi Kaipa Markus Krummenacker Mario Latendresse Suzanne M. Paley Seung Yon Rhee Alexander Glennon Shearer Christophe Tissier Thomas C. Walk Peifen Zhang Peter D. Karp The MetaCyc Database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases. 623-631 2008 36 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkm900 https://www.wikidata.org/entity/Q29615370 db/journals/nar/nar36.html#CaspiFFKKLPRSTWZK08

Katica Ilic Seung Yon Rhee Elizabeth A. Kellogg Peter F. Stevens Plant Structure Ontology (PSO) - A Morphological and Anatomical Ontology of Flowering Plants. 27-42 2008 Anatomy Ontologies for Bioinformatics https://doi.org/10.1007/978-1-84628-885-2_2 series/cb/6 db/series/cb/cb6.html#IlicRKS08

Ron Caspi Hartmut Foerster Carol A. Fulcher Rebecca Hopkinson John Ingraham Pallavi Kaipa Markus Krummenacker Suzanne M. Paley John Pick Seung Yon Rhee Christophe Tissier Peifen Zhang Peter D. Karp MetaCyc: a multiorganism database of metabolic pathways and enzymes. 511-516 2006 34 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkj128 https://www.wikidata.org/entity/Q24538678 db/journals/nar/nar34.html#CaspiFFHIKKPPRTZK06

Thomas Yan Danny Yoo Tanya Z. Berardini Lukas A. Mueller Dan C. Weems Shuai Weng J. Michael Cherry Seung Yon Rhee PatMatch: a program for finding patterns in peptide and nucleotide sequences. 262-266 2005 33 Nucleic Acids Res. Web-Server-Issue https://doi.org/10.1093/nar/gki368 https://www.wikidata.org/entity/Q24812155 db/journals/nar/nar33.html#YanYBMWWCR05

Cynthia J. Krieger Peifen Zhang Lukas A. Mueller Alfred Wang Suzanne M. Paley Martha Arnaud John Pick Seung Yon Rhee Peter D. Karp MetaCyc: a multiorganism database of metabolic pathways and enzymes. 438-442 2004 32 Nucleic Acids Res. Database-Issue db/journals/nar/nar32.html#KriegerZMWPAPRK04 https://doi.org/10.1093/nar/gkh100 https://www.wikidata.org/entity/Q34934265

Seung Yon Rhee William D. Beavis Tanya Z. Berardini Guanghong Chen David A. Dixon Aisling Doyle Margarita Garcia-Hernandez Eva Huala Gabriel Lander Mary Montoya Neil Miller Lukas A. Mueller Suparna Mundodi Leonore Reiser Julie Tacklind Dan C. Weems Yihe Wu Iris Xu Daniel Yoo Jungwon Yoon Peifen Zhang The Arabidopsis Information Resource (TAIR): a model organism database providing a centralized, curated gateway to Arabidopsis biology, research materials and community. 224-228 2003 31 Nucleic Acids Res. 1 db/journals/nar/nar31.html#RheeBBCDDGHLMMMMRTWWXYYZ03 https://doi.org/10.1093/nar/gkg076 https://www.wikidata.org/entity/Q35158851

Eva Huala Allan Dickerman Margarita Garcia-Hernandez Danforth Weems Leonore Reiser Frank LaFond David Hanley Donald Kiphart Mingzhe Zhuang Wen Huang Lukas A. Mueller Debika Bhattacharyya Devaki Bhaya Bruno W. S. Sobral William D. Beavis David Meinke Christopher D. Town Chris Somerville Seung Yon Rhee The Arabidopsis Information Resource (TAIR): a comprehensive database and web-based information retrieval, analysis, and visualization system for a model plant. 102-105 2001 29 Nucleic Acids Res. 1 db/journals/nar/nar29.html#HualaDGWRLHKZHMBBSBMTSR01 https://doi.org/10.1093/nar/29.1.102 https://www.wikidata.org/entity/Q34315244

Seung Yon Rhee Shuai Weng Deverie K. Bongard-Pierce Margarita Garcia-Hernandez Alice Malekian David J. Flanders J. Michael Cherry Unified display of Arabidopsis thaliana physical maps from AtDB, the A.thaliana database. 79-84 1999 27 Nucleic Acids Res. 1 db/journals/nar/nar27.html#RheeWBGMFC99 https://doi.org/10.1093/nar/27.1.79 https://www.wikidata.org/entity/Q39726295

Martha Arnaud Shulamit Avraham William D. Beavis Tanya Z. Berardini Debika Bhattacharyya Devaki Bhaya Deverie K. Bongard-Pierce Ron Caspi Guanghong Chen J. Michael Cherry Allan Dickerman Julie A. Dickerson David A. Dixon Aisling Doyle David J. Flanders Hartmut Foerster Carol A. Fulcher Margarita Garcia-Hernandez David Hanley Rebecca Hopkinson Eva Huala Wen Huang Katica Ilic John Ingraham Pankaj Jaiswal Pallavi Kaipa Peter D. Karp Elizabeth A. Kellogg Donald Kiphart Cynthia J. Krieger Markus Krummenacker Frank LaFond Gabriel Lander Mario Latendresse Alice Malekian Susan McCouch David Meinke Neil Miller Mary Montoya Lukas A. Mueller Suparna Mundodi Suzanne M. Paley John Pick Anuradha Pujar Leonore Reiser Martin M. Sachs Mary L. Schaeffer Taner Z. Sen Alexander Glennon Shearer Bruno W. S. Sobral Chris Somerville Lincoln Stein Peter F. Stevens Julie Tacklind Christophe Tissier Christopher D. Town Chih-Wei Tung Leszek Vincent Thomas C. Walk Jesse R. Walsh Alfred Wang Doreen Ware Dan C. Weems Danforth Weems Shuai Weng Yihe Wu Iris Xu Thomas Yan Daniel Yoo Danny Yoo Jungwon Yoon Felipe Zapata 0001 Peifen Zhang Mingzhe Zhuang