Representing Kidney Development Using the Gene Ontology

被引：13

作者：

Alam-Faruque, Yasmin ^{[1
]}

Hill, David P. ^{[2
]}

Dimmer, Emily C. ^{[1
]}

Harris, Midori A. ^{[3
,4
]}

Foulger, Rebecca E. ^{[1
]}

Tweedie, Susan ^{[5
]}

Attrill, Helen ^{[5
]}

Howe, Douglas G. ^{[6
]}

Thomas, Stephen Randall ^{[7
]}

Davidson, Duncan ^{[8
]}

Woolf, Adrian S. ^{[9
]}

Blake, Judith A. ^{[2
]}

Mungall, Christopher J. ^{[10
]}

O'Donovan, Claire ^{[1
]}

Apweiler, Rolf ^{[1
]}

Huntley, Rachael P. ^{[1
]}

机构：

[1] European Bioinformat Inst EMBL EBI, European Mol Biol Lab, Cambridge, England

[2] Jackson Lab, Bar Harbor, ME 04609 USA

[3] Univ Cambridge, Cambridge Syst Biol Ctr, Cambridge, England

[4] Univ Cambridge, Dept Biochem, Cambridge CB2 1QW, England

[5] Univ Cambridge, Dept Genet, FlyBase, Cambridge CB2 3EH, England

[6] Univ Oregon, Zebrafish Model Organism Database ZFIN, Eugene, OR 97403 USA

[7] Univ Paris 11, CNRS, IR4M UMR8081, F-91405 Orsay, France

[8] Western Gen Hosp, Inst Genet & Mol Med, MRC Human Genet Unit, Edinburgh EH4 2XU, Midlothian, Scotland

[9] Univ Manchester, Fac Med & Human Sci, Inst Human Dev, Manchester, Lancs, England

[10] Univ Calif Berkeley, Lawrence Berkeley Natl Lab, Genom Div, Berkeley, CA 94720 USA

来源：

PLOS ONE | 2014年 / 9卷 / 06期

基金：

英国医学研究理事会; 美国国家卫生研究院;

关键词：

DIABETIC-NEPHROPATHY; TRANSCRIPTION FACTOR; EXPRESSION; APOPTOSIS; DATABASE; PAX2; DIFFERENTIATION; TOOL;

D O I：

10.1371/journal.pone.0099864

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

070301 [无机化学]; 070403 [天体物理学]; 070507 [自然资源与国土空间规划学]; 090105 [作物生产系统与生态工程];

摘要：

Gene Ontology (GO) provides dynamic controlled vocabularies to aid in the description of the functional biological attributes and subcellular locations of gene products from all taxonomic groups (www.geneontology.org). Here we describe collaboration between the renal biomedical research community and the GO Consortium to improve the quality and quantity of GO terms describing renal development. In the associated annotation activity, the new and revised terms were associated with gene products involved in renal development and function. This project resulted in a total of 522 GO terms being added to the ontology and the creation of approximately 9,600 kidney-related GO term associations to 940 UniProt Knowledgebase (UniProtKB) entries, covering 66 taxonomic groups. We demonstrate the impact of these improvements on the interpretation of GO term analyses performed on genes differentially expressed in kidney glomeruli affected by diabetic nephropathy. In summary, we have produced a resource that can be utilized in the interpretation of data from small- and large-scale experiments investigating molecular mechanisms of kidney function and development and thereby help towards alleviating renal disease.

引用

页数：12

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