Mouse Genome Informatics (MGI): latest news from MGD and GXD

被引:37
作者
Ringwald, Martin [1 ]
Richardson, Joel E. [1 ]
Baldarelli, Richard M. [1 ]
Blake, Judith A. [1 ]
Kadin, James A. [1 ]
Smith, Cynthia [1 ]
Bult, Carol J. [1 ]
机构
[1] Jackson Lab, 600 Main St, Bar Harbor, ME 04609 USA
基金
美国国家卫生研究院;
关键词
GENE-EXPRESSION DATABASE; RESOURCE; BROWSER; WAREHOUSE; ONTOLOGY; CATALOG; BIOLOGY; TISSUES; UPDATE; ACCESS;
D O I
10.1007/s00335-021-09921-0
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
The Mouse Genome Informatics (MGI) database system combines multiple expertly curated community data resources into a shared knowledge management ecosystem united by common metadata annotation standards. MGI's mission is to facilitate the use of the mouse as an experimental model for understanding the genetic and genomic basis of human health and disease. MGI is the authoritative source for mouse gene, allele, and strain nomenclature and is the primary source of mouse phenotype annotations, functional annotations, developmental gene expression information, and annotations of mouse models with human diseases. MGI maintains mouse anatomy and phenotype ontologies and contributes to the development of the Gene Ontology and Disease Ontology and uses these ontologies as standard terminologies for annotation. The Mouse Genome Database (MGD) and the Gene Expression Database (GXD) are MGI's two major knowledgebases. Here, we highlight some of the recent changes and enhancements to MGD and GXD that have been implemented in response to changing needs of the biomedical research community and to improve the efficiency of expert curation. MGI can be accessed freely at .
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页码:4 / 18
页数:15
相关论文
共 68 条
[11]   The Alliance of Genome Resources: Building a Modern Data Ecosystem for Model Organism Databases [J].
Bult, Carol J. ;
Blake, Judith A. ;
Calvi, Brian R. ;
Cherry, J. Michael ;
DiFrancesco, Valentina ;
Fullem, Robert ;
Howe, Kevin L. ;
Kaufman, Thom ;
Mungall, Chris ;
Perrimon, Norbert ;
Shimoyama, Mary ;
Sternberg, Paul W. ;
Thomas, Paul ;
Westerfield, Monte .
GENETICS, 2019, 213 (04) :1189-1196
[12]   The Gene Ontology Resource: 20 years and still GOing strong [J].
Carbon, S. ;
Douglass, E. ;
Dunn, N. ;
Good, B. ;
Harris, N. L. ;
Lewis, S. E. ;
Mungall, C. J. ;
Basu, S. ;
Chisholm, R. L. ;
Dodson, R. J. ;
Hartline, E. ;
Fey, P. ;
Thomas, P. D. ;
Albou, L. P. ;
Ebert, D. ;
Kesling, M. J. ;
Mi, H. ;
Muruganujian, A. ;
Huang, X. ;
Poudel, S. ;
Mushayahama, T. ;
Hu, J. C. ;
LaBonte, S. A. ;
Siegele, D. A. ;
Antonazzo, G. ;
Attrill, H. ;
Brown, N. H. ;
Fexova, S. ;
Garapati, P. ;
Jones, T. E. M. ;
Marygold, S. J. ;
Millburn, G. H. ;
Rey, A. J. ;
Trovisco, V. ;
dos Santos, G. ;
Emmert, D. B. ;
Falls, K. ;
Zhou, P. ;
Goodman, J. L. ;
Strelets, V. B. ;
Thurmond, J. ;
Courtot, M. ;
Osumi-Sutherland, D. ;
Parkinson, H. ;
Roncaglia, P. ;
Acencio, M. L. ;
Kuiper, M. ;
Laegreid, A. ;
Logie, C. ;
Lovering, R. C. .
NUCLEIC ACIDS RESEARCH, 2019, 47 (D1) :D330-D338
[13]   AmiGO: online access to ontology and annotation data [J].
Carbon, Seth ;
Ireland, Amelia ;
Mungall, Christopher J. ;
Shu, ShengQiang ;
Marshall, Brad ;
Lewis, Suzanna .
BIOINFORMATICS, 2009, 25 (02) :288-289
[14]   SOX2-Dependent Transcription in Clock Neurons Promotes the Robustness of the Central Circadian Pacemaker [J].
Cheng, Arthur H. ;
Bouchard-Cannon, Pascale ;
Hegazi, Sara ;
Lowden, Christopher ;
Fung, Samuel W. ;
Chiang, Cheng-Kang ;
Ness, Rob W. ;
Cheng, Hai-Ying Mary .
CELL REPORTS, 2019, 26 (12) :3191-+
[15]  
Clough E, 2016, METHODS MOL BIOL, V1418, P93, DOI 10.1007/978-1-4939-3578-9_5
[16]  
den Dunnen JT, 2017, METHODS MOL BIOL, V1492, P243, DOI 10.1007/978-1-4939-6442-0_17
[17]   A High-Resolution Anatomical Atlas of the Transcriptome in the Mouse Embryo [J].
Diez-Roux, Graciana ;
Banfi, Sandro ;
Sultan, Marc ;
Geffers, Lars ;
Anand, Santosh ;
Rozado, David ;
Magen, Alon ;
Canidio, Elena ;
Pagani, Massimiliano ;
Peluso, Ivana ;
Lin-Marq, Nathalie ;
Koch, Muriel ;
Bilio, Marchesa ;
Cantiello, Immacolata ;
Verde, Roberta ;
De Masi, Cristian ;
Bianchi, Salvatore A. ;
Cicchini, Juliette ;
Perroud, Elodie ;
Mehmeti, Shprese ;
Dagand, Emilie ;
Schrinner, Sabine ;
Nuernberger, Asja ;
Schmidt, Katja ;
Metz, Katja ;
Zwingmann, Christina ;
Brieske, Norbert ;
Springer, Cindy ;
Hernandez, Ana Martinez ;
Herzog, Sarah ;
Grabbe, Frauke ;
Sieverding, Cornelia ;
Fischer, Barbara ;
Schrader, Kathrin ;
Brockmeyer, Maren ;
Dettmer, Sarah ;
Helbig, Christin ;
Alunni, Violaine ;
Battaini, Marie-Annick ;
Mura, Carole ;
Henrichsen, Charlotte N. ;
Garcia-Lopez, Raquel ;
Echevarria, Diego ;
Puelles, Eduardo ;
Garcia-Calero, Elena ;
Kruse, Stefan ;
Uhr, Markus ;
Kauck, Christine ;
Feng, Guangjie ;
Milyaev, Nestor .
PLOS BIOLOGY, 2011, 9 (01)
[18]   PICKLE 3.0: enriching the human meta-database with the mouse protein interactome extended via mouse-human orthology [J].
Dimitrakopoulos, Georgios N. ;
Klapa, Maria, I ;
Moschonas, Nicholas K. .
BIOINFORMATICS, 2021, 37 (01) :145-146
[19]   The International Mouse Strain Resource (IMSR): cataloging worldwide mouse and ES cell line resources [J].
Eppig, Janan T. ;
Motenko, Howie ;
Richardson, Joel E. ;
Richards-Smith, Beverly ;
Smith, Cynthia L. .
MAMMALIAN GENOME, 2015, 26 (9-10) :448-455
[20]   The Mouse Genome Database (MGD): facilitating mouse as a model for human biology and disease [J].
Eppig, Janan T. ;
Blake, Judith A. ;
Bult, Carol J. ;
Kadin, James A. ;
Richardson, Joel E. .
NUCLEIC ACIDS RESEARCH, 2015, 43 (D1) :D726-D736