The mouse Gene Expression Database (GXD): 2021 update.

James A. Kadin

Richard M. Baldarelli Constance M. Smith Jacqueline H. Finger Terry F. Hayamizu Ingeborg J. McCright Jingxia Xu David R. Shaw Jonathan S. Beal Olin Blodgett Jeff Campbell Lori E. Corbani Pete J. Frost Sharon C. Giannatto Dave Miers James A. Kadin Joel E. Richardson Martin Ringwald The mouse Gene Expression Database (GXD): 2021 update. D924-D931 2021 49 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkaa914 https://www.wikidata.org/entity/Q100997575 db/journals/nar/nar49.html#BaldarelliSFHMX21

Judith A. Blake Richard M. Baldarelli James A. Kadin Joel E. Richardson Cynthia L. Smith Carol J. Bult Anna V. Anagnostopoulos Jon S. Beal Susan M. Bello Olin Blodgett Nancy E. Butler Jeff Campbell Karen R. Christie Lori E. Corbani Mary E. Dolan Harold J. Drabkin María Flores Susan L. Giannatto Angelina Guerra Paul Hale David P. Hill Jonathan Judd Meiyee Law Monica McAndrews Dave Miers Cailey Mitchell Howie Motenko Li Ni Hiroaki Onda Janice Ormsby Michelle Perry Jill M. Recla David R. Shaw Dmitry Sitnikov Monika Tomczuk Laurens G. Wilming Yunxia Sophia Zhu Mouse Genome Database (MGD): Knowledgebase for mouse-human comparative biology. D981-D987 2021 49 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkaa1083 https://www.wikidata.org/entity/Q102372282 db/journals/nar/nar49.html#BlakeBKRSBABBBB21

Xiangying Jiang Pengyuan Li 0001 James A. Kadin Judith A. Blake Martin Ringwald Hagit Shatkay Integrating image caption information into biomedical document classification in support of biocuration. 2020 2020 Database J. Biol. Databases Curation https://doi.org/10.1093/database/baaa024 https://www.wikidata.org/entity/Q91956285 db/journals/biodb/biodb2020.html#JiangLKBRS20

Constance M. Smith James A. Kadin Richard M. Baldarelli Jonathan S. Beal Olin Blodgett Sharon C. Giannatto Joel E. Richardson Martin Ringwald GXD's RNA-Seq and Microarray Experiment Search: using curated metadata to reliably find mouse expression studies of interest. baaa002 2020 2020 Database J. Biol. Databases Curation https://doi.org/10.1093/database/baaa002 https://www.wikidata.org/entity/Q90095877 db/journals/biodb/biodb2020.html#SmithKBBBGRR20

Julie Agapite Laurent-Philippe Albou Suzi A. Aleksander Joanna Argasinska Valerio Arnaboldi Helen Attrill Susan M. Bello Judith A. Blake Olin Blodgett Yvonne M. Bradford Carol J. Bult Scott Cain Brian R. Calvi Seth Carbon Juancarlos Chan Wen J. Chen J. Michael Cherry Jae-Hyoung Cho Karen R. Christie Madeline A. Crosby Jeff de Pons Mary E. Dolan Gilberto dos Santos Barbara Dunn Nathan A. Dunn Anne E. Eagle Dustin Ebert Stacia R. Engel David Fashena Ken Frazer Sibyl Gao Felix Gondwe Joshua L. Goodman L. Sian Gramates Christian A. Grove Todd W. Harris Marie-Claire Harrison Douglas G. Howe Kevin L. Howe Sagar Jha James A. Kadin Thomas C. Kaufman Patrick Kalita Kalpana Karra Ranjana Kishore Stanley J. F. Laulederkind Raymond Y. N. Lee Kevin A. MacPherson Steven J. Marygold Beverley Matthews Gillian H. Millburn Stuart R. Miyasato Sierra A. T. Moxon Hans-Michael Müller Christopher J. Mungall Anushya Muruganujan Tremayne Mushayahama Robert S. Nash Patrick Ng Michael Paulini Norbert Perrimon Christian Pich 0002 Daniela Raciti Joel E. Richardson Matthew Russell Susan Russo Gelbart Leyla Ruzicka Kevin Schaper Mary Shimoyama Matt Simison Cynthia L. Smith David R. Shaw Ajay Shrivatsav Marek S. Skrzypek Jennifer R. Smith Paul W. Sternberg Christopher J. Tabone Paul D. Thomas Jyothi Thota Sabrina Toro Monika Tomczuk Marek Tutaj Monika Tutaj Jose-Maria Urbano Kimberly Van Auken Ceri E. Van Slyke Shur-Jen Wang Shuai Weng Monte Westerfield Gary Williams 0001 Edith D. Wong Adam Wright Karen Yook Alliance of Genome Resources Portal: unified model organism research platform. D650-D658 2020 48 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkz813 https://www.wikidata.org/entity/Q94252204 db/journals/nar/nar48.html#AgapiteAAAAABBB20

Constance M. Smith Terry F. Hayamizu Jacqueline H. Finger Susan M. Bello Ingeborg J. McCright Jingxia Xu Richard M. Baldarelli Jon S. Beal Jeff Campbell Lori E. Corbani Pete J. Frost Jill R. Lewis Sharon C. Giannatto Dave Miers David R. Shaw James A. Kadin Joel E. Richardson Cynthia L. Smith Martin Ringwald The mouse Gene Expression Database (GXD): 2019 update. D774-D779 2019 47 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gky922 https://www.wikidata.org/entity/Q58547583 db/journals/nar/nar47.html#SmithHFBMXBBCCF19

Carol J. Bult Judith A. Blake Cynthia L. Smith James A. Kadin Joel E. Richardson The Mouse Genome Database Group Mouse Genome Database (MGD) 2019. D801-D806 2019 47 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gky1056 https://www.wikidata.org/entity/Q58949669 db/journals/nar/nar47.html#BultBSKRG19

Cynthia L. Smith Judith A. Blake James A. Kadin Joel E. Richardson Carol J. Bult The Mouse Genome Database Group Mouse Genome Database (MGD)-2018: knowledgebase for the laboratory mouse. D836-D842 2018 46 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkx1006 https://www.wikidata.org/entity/Q47202657 db/journals/nar/nar46.html#SmithBKRBG18

Judith A. Blake Janan T. Eppig James A. Kadin Joel E. Richardson Cynthia L. Smith Carol J. Bult The Mouse Genome Database Group Mouse Genome Database (MGD)-2017: community knowledge resource for the laboratory mouse. D723-D729 2017 45 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkw1040 https://www.wikidata.org/entity/Q28584453 db/journals/nar/nar45.html#BlakeEKRSBG17

Jacqueline H. Finger Constance M. Smith Terry F. Hayamizu Ingeborg J. McCright Jingxia Xu Meiyee Law David R. Shaw Richard M. Baldarelli Jon S. Beal Olin Blodgett Jeff Campbell Lori E. Corbani Jill R. Lewis Kim L. Forthofer Pete J. Frost Sharon C. Giannatto Lucie N. Hutchins Dave Miers Howie Motenko Kevin R. Stone Janan T. Eppig James A. Kadin Joel E. Richardson Martin Ringwald The mouse Gene Expression Database (GXD): 2017 update. D730-D736 2017 45 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkw1073 https://www.wikidata.org/entity/Q37556797 db/journals/nar/nar45.html#FingerSHMXLSBBB17

Carol J. Bult Janan T. Eppig Judith A. Blake James A. Kadin Joel E. Richardson Mouse genome database 2016. 840-847 2016 44 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkv1211 https://www.wikidata.org/entity/Q34502040 db/journals/nar/nar44.html#BultEBKRG16

Janan T. Eppig Judith A. Blake Carol J. Bult James A. Kadin Joel E. Richardson The Mouse Genome Database (MGD): facilitating mouse as a model for human biology and disease. 726-736 2015 43 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gku967 https://www.wikidata.org/entity/Q34445051 db/journals/nar/nar43.html#EppigBBKR15

Judith A. Blake Carol J. Bult Janan T. Eppig James A. Kadin Joel E. Richardson The Mouse Genome Database: integration of and access to knowledge about the laboratory mouse. 810-817 2014 42 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkt1225 https://www.wikidata.org/entity/Q37661743 db/journals/nar/nar42.html#BlakeBEKR14

Constance M. Smith Jacqueline H. Finger Terry F. Hayamizu Ingeborg J. McCright Jingxia Xu Joanne Berghout Jeff Campbell Lori E. Corbani Kim L. Forthofer Pete J. Frost Dave Miers David R. Shaw Kevin R. Stone Janan T. Eppig James A. Kadin Joel E. Richardson Martin Ringwald The mouse Gene Expression Database (GXD): 2014 update. 818-824 2014 42 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkt954 https://www.wikidata.org/entity/Q37661857 db/journals/nar/nar42.html#SmithFHMXBCCFFMSSEKRR14

Carol J. Bult Janan T. Eppig Judith A. Blake James A. Kadin Joel E. Richardson The Mouse Genome Database: Genotypes, Phenotypes, and Models of Human Disease. 885-891 2013 41 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gks1115 https://www.wikidata.org/entity/Q36491296 db/journals/nar/nar41.html#BultEBKR13

Terry F. Hayamizu Sherri de Coronado Gilberto Fragoso Nicholas Sioutos James A. Kadin Martin Ringwald The mouse-human anatomy ontology mapping project. 2012 2012 Database J. Biol. Databases Curation https://doi.org/10.1093/database/bar066 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3308156/ https://www.wikidata.org/entity/Q35840944 db/journals/biodb/biodb2012.html#HayamizuCFSKR12

Janan T. Eppig Judith A. Blake Carol J. Bult James A. Kadin Joel E. Richardson The Mouse Genome Database (MGD): comprehensive resource for genetics and genomics of the laboratory mouse. 881-886 2012 40 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkr974 https://www.wikidata.org/entity/Q35630854 db/journals/nar/nar40.html#EppigBBKRG12

Li Ni Carol J. Bult James A. Kadin Joel E. Richardson Martin Ringwald Janan T. Eppig Judith A. Blake Using Biomedical Ontologies for Data Representation and Management in the Mouse Genome Informatics (MGI) System. 2012 ICBO https://ceur-ws.org/Vol-897/poster_3.pdf conf/icbo/2012 db/conf/icbo/icbo2012.html#NiBKRREB12

Jacqueline H. Finger Constance M. Smith Terry F. Hayamizu Ingeborg J. McCright Janan T. Eppig James A. Kadin Joel E. Richardson Martin Ringwald The mouse Gene Expression Database (GXD): 2011 update. 835-841 2011 39 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkq1132 https://www.wikidata.org/entity/Q24612282 db/journals/nar/nar39.html#FingerSHMEKRR11

Judith A. Blake Carol J. Bult James A. Kadin Joel E. Richardson Janan T. Eppig The Mouse Genome Database (MGD): premier model organism resource for mammalian genomics and genetics. 842-848 2011 39 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkq1008 https://www.wikidata.org/entity/Q24616724 db/journals/nar/nar39.html#BlakeBKREG11

Martin Ringwald Vivek Iyer Jeremy C. Mason Kevin R. Stone Hamsa D. Tadepally James A. Kadin Carol J. Bult Janan T. Eppig Darren J. Oakley Sebastien Briois Elia Stupka Vincenza Maselli Damian Smedley Songyan Liu Jens Hansen Richard A. Baldock Geoffrey G. Hicks William C. Skarnes The IKMC web portal: a central point of entry to data and resources from the International Knockout Mouse Consortium. 849-855 2011 39 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkq879 https://www.wikidata.org/entity/Q24609225 db/journals/nar/nar39.html#RingwaldIMSTKBEOBSMSLHBHS11

Carol J. Bult James A. Kadin Joel E. Richardson Judith A. Blake Janan T. Eppig The Mouse Genome Database: enhancements and updates. 586-592 2010 38 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkp880 https://www.wikidata.org/entity/Q33600888 db/journals/nar/nar38.html#BultKRBE10

Judith A. Blake Carol J. Bult Janan T. Eppig James A. Kadin Joel E. Richardson The Mouse Genome Database genotypes: : phenotypes. 712-719 2009 37 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkn886 https://www.wikidata.org/entity/Q43122475 db/journals/nar/nar37.html#BlakeBEKR09

Carol J. Bult Janan T. Eppig James A. Kadin Joel E. Richardson Judith A. Blake The Mouse Genome Database (MGD): mouse biology and model systems. 724-728 2008 36 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkm961 https://www.wikidata.org/entity/Q38393159 db/journals/nar/nar36.html#BultEKRB08

Anna V. Anagnostopoulos Judith A. Blake Carol J. Bult Martin Ringwald Joel E. Richardson James A. Kadin Janan T. Eppig Using bio-ontologies as data annotation, integration & analytical tools at the Mouse Genome Informatics resource. 1-7 2008 BIBE https://doi.org/10.1109/BIBE.2008.4696717 https://www.wikidata.org/entity/Q59329776 conf/bibe/2008 db/conf/bibe/bibe2008.html#AnagnostopoulosBBRRKE08

Constance M. Smith Jacqueline H. Finger Terry F. Hayamizu Ingeborg J. McCright Janan T. Eppig James A. Kadin Joel E. Richardson Martin Ringwald The mouse Gene Expression Database (GXD): 2007 update. 618-623 2007 35 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkl1003 https://www.wikidata.org/entity/Q35253029 db/journals/nar/nar35.html#SmithFHMEKRR07

Janan T. Eppig Judith A. Blake Carol J. Bult James A. Kadin Joel E. Richardson The mouse genome database (MGD): new features facilitating a model system. 630-637 2007 35 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkl940 https://www.wikidata.org/entity/Q38401508 db/journals/nar/nar35.html#EppigBBKR07

Judith A. Blake Janan T. Eppig Carol J. Bult James A. Kadin Joel E. Richardson The Mouse Genome Database (MGD): updates and enhancements. 562-567 2006 34 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkj085 https://www.wikidata.org/entity/Q25255580 db/journals/nar/nar34.html#BlakeEBKR06

Janan T. Eppig Carol J. Bult James A. Kadin Joel E. Richardson Judith A. Blake The Mouse Genome Database (MGD): from genes to mice - a community resource for mouse biology. 471-475 2005 33 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gki113 https://www.wikidata.org/entity/Q24796985 db/journals/nar/nar33.html#EppigBKRB05

Donnie Qi Judith A. Blake James A. Kadin Joel E. Richardson Martin Ringwald Janan T. Eppig Carol J. Bult Data Integration in the Mouse Genome Informatics (MGI) Database. 37-38 2005 conf/csb/2005w CSB Workshops https://doi.org/10.1109/CSBW.2005.48 https://doi.ieeecomputersociety.org/10.1109/CSBW.2005.48 https://www.wikidata.org/entity/Q56883003 db/conf/csb/csbw2005.html#QiBKRREB05

Carol J. Bult Judith A. Blake Joel E. Richardson James A. Kadin Janan T. Eppig The Mouse Genome Database (MGD): integrating biology with the genome. 476-481 2004 32 Nucleic Acids Res. Database-Issue db/journals/nar/nar32.html#BultBRKE04 https://doi.org/10.1093/nar/gkh125 https://www.wikidata.org/entity/Q34937561

David P. Hill Dale A. Begley Jacqueline H. Finger Terry F. Hayamizu Ingeborg J. McCright Constance M. Smith Jon S. Beal Lori E. Corbani Judith A. Blake Janan T. Eppig James A. Kadin Joel E. Richardson Martin Ringwald The mouse Gene Expression Database (GXD): updates and enhancements. 568-571 2004 32 Nucleic Acids Res. Database-Issue db/journals/nar/nar32.html#HillBFHMSBCBEKRR04 https://doi.org/10.1093/nar/gkh069 https://www.wikidata.org/entity/Q38522337

Joel E. Richardson James A. Kadin Judith A. Blake Carol J. Bult Janan T. Eppig Martin Ringwald From Sipping on a Straw to Drinking from a Fire Hose: Data Integration in a Public Genome Database. 795-798 2004 conf/icde/2004 ICDE https://doi.org/10.1109/ICDE.2004.1320050 https://doi.ieeecomputersociety.org/10.1109/ICDE.2004.1320050 https://www.wikidata.org/entity/Q59329876 db/conf/icde/icde2004.html#RichardsonKBBER04

Judith A. Blake Joel E. Richardson Carol J. Bult James A. Kadin Janan T. Eppig MGD: the Mouse Genome Database. 193-195 2003 31 Nucleic Acids Res. 1 db/journals/nar/nar31.html#BlakeRBKE03 https://doi.org/10.1093/nar/gkg047 https://www.wikidata.org/entity/Q39790334

Judith A. Blake Joel E. Richardson Carol J. Bult James A. Kadin Janan T. Eppig The Mouse Genome Database (MGD): the model organism database for the laboratory mouse. 113-115 2002 30 Nucleic Acids Res. 1 db/journals/nar/nar30.html#BlakeRBKE03a https://doi.org/10.1093/nar/30.1.113 https://www.wikidata.org/entity/Q39524398

Judith A. Blake Janan T. Eppig Joel E. Richardson Carol J. Bult James A. Kadin The Mouse Genome Database (MGD): integration nexus for the laboratory mouse. 91-94 2001 29 Nucleic Acids Res. 1 db/journals/nar/nar29.html#BlakeERBK01 https://doi.org/10.1093/nar/29.1.91 https://www.wikidata.org/entity/Q38661152

Martin Ringwald Janan T. Eppig Dale A. Begley John P. Corradi Ingeborg J. McCright Terry F. Hayamizu David P. Hill James A. Kadin Joel E. Richardson The Mouse Gene Expression Database (GXD). 98-101 2001 29 Nucleic Acids Res. 1 db/journals/nar/nar29.html#RingwaldEBCMHHKR01 https://doi.org/10.1093/nar/29.1.98 https://www.wikidata.org/entity/Q38661540

Martin Ringwald Janan T. Eppig James A. Kadin Joel E. Richardson GXD: a Gene Expression Database for the laboratory mouse: current status and recent enhancements. 115-119 2000 28 Nucleic Acids Res. 1 db/journals/nar/nar28.html#RingwaldEKR00 https://doi.org/10.1093/nar/28.1.115 https://www.wikidata.org/entity/Q39541702

Carol J. Bult Joel E. Richardson Judith A. Blake James A. Kadin Martin Ringwald Janan T. Eppig Mouse Genome Informatics in a New Age of Biological Inquiry. 29-32 2000 conf/bibe/2000 BIBE db/conf/bibe/bibe2000.html#BultRBKRE00 https://doi.org/10.1109/BIBE.2000.889586 https://doi.ieeecomputersociety.org/10.1109/BIBE.2000.889586

Martin Ringwald Mary E. Mangan Janan T. Eppig James A. Kadin Joel E. Richardson GXD: a gene expression database for the laboratory mouse. The Gene Expression Database Group. 106-112 1999 27 Nucleic Acids Res. 1 db/journals/nar/nar27.html#RingwaldMEKR99 https://doi.org/10.1093/nar/27.1.106 https://www.wikidata.org/entity/Q39726318

Julie Agapite Laurent-Philippe Albou Suzi A. Aleksander Anna V. Anagnostopoulos Joanna Argasinska Valerio Arnaboldi Helen Attrill Kimberly Van Auken Richard M. Baldarelli Richard A. Baldock Jon S. BealJonathan S. Beal Dale A. Begley Susan M. Bello Joanne Berghout Judith A. Blake Olin Blodgett Yvonne M. Bradford Sebastien Briois Carol J. Bult Nancy E. Butler Scott Cain Brian R. Calvi Jeff Campbell Seth Carbon Juancarlos Chan Wen J. Chen J. Michael Cherry Jae-Hyoung Cho Karen R. Christie Lori E. Corbani Sherri de Coronado John P. Corradi Madeline A. Crosby Mary E. Dolan Harold J. Drabkin Barbara Dunn Nathan A. Dunn Anne E. Eagle Dustin Ebert Stacia R. Engel Janan T. Eppig David Fashena Jacqueline H. Finger María Flores Kim L. Forthofer Gilberto Fragoso Ken Frazer Pete J. Frost Sibyl Gao Susan Russo Gelbart Sharon C. Giannatto Susan L. Giannatto Felix Gondwe Joshua L. Goodman L. Sian Gramates The Mouse Genome Database Group Christian A. Grove Angelina Guerra Paul Hale Jens Hansen Todd W. Harris Marie-Claire Harrison Terry F. Hayamizu Geoffrey G. Hicks David P. Hill Douglas G. Howe Kevin L. Howe Lucie N. Hutchins Vivek Iyer Sagar Jha Xiangying Jiang Jonathan Judd Patrick Kalita Kalpana Karra Thomas C. Kaufman Ranjana Kishore Stanley J. F. Laulederkind Meiyee Law Raymond Y. N. Lee Jill R. Lewis Pengyuan Li 0001 Songyan Liu Kevin A. MacPherson Mary E. Mangan Steven J. Marygold Vincenza Maselli Jeremy C. Mason Beverley Matthews Monica McAndrews Ingeborg J. McCright Dave Miers Gillian H. Millburn Cailey Mitchell Stuart R. Miyasato Howie Motenko Sierra A. T. Moxon Hans-Michael Müller Chris MungallChristopher J. Mungall Anushya Muruganujan Tremayne Mushayahama Robert S. Nash Patrick Ng Li Ni Darren J. Oakley Hiroaki Onda Janice Ormsby Michael Paulini Norbert Perrimon Michelle Perry Christian Pich 0002 Jeff de Pons Donnie Qi Daniela Raciti Jill M. Recla Joel E. Richardson Martin Ringwald Matthew Russell Leyla Ruzicka Gilberto dos Santos Kevin Schaper Hagit Shatkay David R. Shaw Mary Shimoyama Ajay Shrivatsav Matt Simison Nicholas Sioutos Dmitry Sitnikov William C. Skarnes Marek S. Skrzypek Ceri E. Van Slyke Damian Smedley Constance M. Smith Cynthia L. Smith Jennifer R. Smith Paul W. Sternberg Kevin R. Stone Elia Stupka Christopher J. Tabone Hamsa D. Tadepally Paul D. Thomas Jyothi Thota Monika Tomczuk Sabrina Toro Marek Tutaj Monika Tutaj Jose-Maria Urbano Shur-Jen Wang Shuai Weng Monte Westerfield Gary Williams 0001 Laurens G. Wilming Edith D. Wong Adam Wright Jingxia Xu Karen Yook Yunxia Sophia Zhu