The Gene Ontology knowledgebase in 2023.
The Gene Ontology knowledgebase in 2023.
复制标题
基因本体学知识基础于2023年。
DOI：
10.1093/genetics/iyad031
复制
发表时间：
2023-05-04
期刊：
影响因子：
3.3
通讯作者：
Westerfield, Monte
中科院分区：
文献类型：
--
作者：
Aleksander, Suzi A.;Balhoff, James;Carbon, Seth;Cherry, J. Michael;Drabkin, Harold J.;Ebert, Dustin;Feuermann, Marc;Gaudet, Pascale;Harris, Nomi L.;Hill, David P.;Lee, Raymond;Mi, Huaiyu;Moxon, Sierra;Mungall, Christopher J.;Muruganugan, Anushya;Mushayahama, Tremayne;Sternberg, Paul W.;Thomas, Paul D.;Van Auken, Kimberly;Ramsey, Jolene;Siegele, Deborah A.;Chisholm, Rex L.;Fey, Petra;Aspromonte, Maria Cristina;Nugnes, Maria Victoria;Quaglia, Federica;Tosatto, Silvio;Giglio, Michelle;Nadendla, Suvarna;Antonazzo, Giulia;Attrill, Helen;dos Santos, Gil;Marygold, Steven;Strelets, Victor;Tabone, Christopher J.;Thurmond, Jim;Zhou, Pinglei;Ahmed, Saadullah H.;Asanitthong, Praoparn;Luna Buitrago, Diana;Erdol, Meltem N.;Gage, Matthew C.;Ali Kadhum, Mohamed;Li, Kan Yan Chloe;Long, Miao;Michalak, Aleksandra;Pesala, Angeline;Pritazahra, Armalya;Saverimuttu, Shirin C. C.;Su, Renzhi;Thurlow, Kate E.;Lovering, Ruth C.;Logie, Colin;Oliferenko, Snezhana;Blake, Judith;Christie, Karen;Corbani, Lori;Dolan, Mary E.;Sitnikov, Dmitry;Smith, Cynthia;Cuzick, Alayne;Seager, James;Cooper, Laurel;Elser, Justin;Jaiswal, Pankaj;Gupta, Parul;Naithani, Sushma;Lera-Ramirez, Manuel;Rutherford, Kim;Wood, Valerie;De Pons, Jeffrey L.;Dwinell, Melinda R.;Hayman, G. Thomas;Kaldunski, Mary L.;Kwitek, Anne E.;Laulederkind, Stanley J. F.;Tutaj, Marek A.;Vedi, Mahima;Wang, Shur-Jen;D'Eustachio, Peter;Aimo, Lucila;Axelsen, Kristian;Bridge, Alan;Hyka-Nouspikel, Nevila;Morgat, Anne;Engel, Stacia R.;Karra, Kalpana;Miyasato, Stuart R.;Nash, Robert S.;Skrzypek, Marek S.;Weng, Shuai;Wong, Edith D.;Bakker, Erika;Berardini, Tanya Z.;Reiser, Leonore;Auchincloss, Andrea;Argoud-Puy, Ghislaine;Blatter, Marie-Claude;Boutet, Emmanuel;Breuza, Lionel;Casals-Casas, Cristina;Coudert, Elisabeth;Estreicher, Anne;Livia Famiglietti, Maria;Gos, Arnaud;Gruaz-Gumowski, Nadine;Hulo, Chantal;Jungo, Florence;Le Mercier, Philippe;Lieberherr, Damien;Masson, Patrick;Pedruzzi, Ivo;Pourcel, Lucille;Poux, Sylvain;Rivoire, Catherine;Sundaram, Shyamala;Bateman, Alex;Bowler-Barnett, Emily;Bye-A-Jee, Hema;Denny, Paul;Ignatchenko, Alexandr;Ishtiaq, Rizwan;Lock, Antonia;Lussi, Yvonne;Magrane, Michele;Martin, Maria J.;Orchard, Sandra;Raposo, Pedro;Speretta, Elena;Tyagi, Nidhi;Warner, Kate;Zaru, Rossana;Diehl, Alexander D.;Chan, Juancarlos;Diamantakis, Stavros;Raciti, Daniela;Zarowiecki, Magdalena;Fisher, Malcolm;James-Zorn, Christina;Ponferrada, Virgilio;Zorn, Aaron;Ramachandran, Sridhar;Ruzicka, Leyla;Westerfield, Monte
基因本体论 (GO) 知识库 (http://geneontology.org) 是有关基因和基因产物（蛋白质和非编码 RNA）功能的综合资源。 GO 注释涵盖了生命树中生物体以及病毒的基因，尽管目前大多数基因功能知识都来自在相对少数模型生物体中进行的实验。在这里，我们提供了 GO 知识库的最新概述，以及开发、维护和更新 GO 知识库的广泛国际科学家联盟的努力。 GO知识库由三个部分组成：（1）GO——描述基因功能特征的计算知识结构； (2) GO注释——有证据支持的陈述，断言特定基因产物具有特定的功能特征； (3) GO 因果活动模型 (GO-CAM)——通过使用定义的关系链接多个 GO 注释而创建的分子“路径”（GO 生物过程）的机制模型。每个组件都会根据新发布的发现不断扩展、修订和更新，并接受广泛的 QA 检查、审查和用户反馈。对于每个组件，我们都提供了当前内容的描述、最新进展以使知识库与新发现保持同步，以及有关用户如何最好地利用我们提供的数据的指导。我们总结了该项目的未来方向。
The Gene Ontology (GO) knowledgebase (http://geneontology.org) is a comprehensive resource concerning the functions of genes and gene products (proteins and noncoding RNAs). GO annotations cover genes from organisms across the tree of life as well as viruses, though most gene function knowledge currently derives from experiments carried out in a relatively small number of model organisms. Here, we provide an updated overview of the GO knowledgebase, as well as the efforts of the broad, international consortium of scientists that develops, maintains, and updates the GO knowledgebase. The GO knowledgebase consists of three components: (1) the GO—a computational knowledge structure describing the functional characteristics of genes; (2) GO annotations—evidence-supported statements asserting that a specific gene product has a particular functional characteristic; and (3) GO Causal Activity Models (GO-CAMs)—mechanistic models of molecular “pathways” (GO biological processes) created by linking multiple GO annotations using defined relations. Each of these components is continually expanded, revised, and updated in response to newly published discoveries and receives extensive QA checks, reviews, and user feedback. For each of these components, we provide a description of the current contents, recent developments to keep the knowledgebase up to date with new discoveries, and guidance on how users can best make use of the data that we provide. We conclude with future directions for the project.
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DOI：
10.1002/dvg.22867
发表时间：
2015-08
期刊：
Genesis (New York, N.Y. : 2000)
影响因子：
--
作者：
Basu S;Fey P;Jimenez-Morales D;Dodson RJ;Chisholm RL
通讯作者：
Chisholm RL
影响因子：
3.3
作者：
Gramates LS;Agapite J;Attrill H;Calvi BR;Crosby MA;Dos Santos G;Goodman JL;Goutte-Gattat D;Jenkins VK;Kaufman T;Larkin A;Matthews BB;Millburn G;Strelets VB;the FlyBase Consortium
通讯作者：
the FlyBase Consortium
DOI：
10.1073/pnas.90.13.6330
发表时间：
1993-07-01
影响因子：
11.1
作者：
AMBRUS, JL;PIPPIN, J;FORD, RJ
通讯作者：
FORD, RJ
影响因子：
3.7
作者：
Duck G;Nenadic G;Filannino M;Brass A;Robertson DL;Stevens R
通讯作者：
Stevens R
影响因子：
1.9
作者：
Costa M;Reeve S;Grumbling G;Osumi-Sutherland D
通讯作者：
Osumi-Sutherland D