ReviewGenetics2023
The Gene Ontology knowledgebase in 2023.
Open access · hybridAbstract readReview
In one paragraph
Review in Genetics, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2,008 papers.
0numbers the graph read from it
0cells of the map it votes in
2,008citing papers in PubMed
402.1field-weighted citation impact, top 1% of its field
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
2,008 citing papers in PubMed, 2,549 citations in OpenAlex.
- scYeast: a biological-knowledge-guided foundation model on yeast single-cell transcriptomics.Synthetic and systems biotechnology · 2027Article
- Deciphering the interplay between serum urate and bone mineral density: insights from observational and genetic perspectives.Journal of the International Society of Sports Nutrition · 2026Article
- Article
- Identification of a Circular RNA as a Potential Diagnostic and Prognostic Biomarker in Breast Cancer Through Integrated Bioinformatic and Experimental Analyses.Analytical science advances · 2026Article
- Aggrecan and polymeric immunoglobulin receptor in extracellular vesicles of patients with seropositive rheumatoid arthritis.Journal of translational autoimmunity · 2026Article
- Differential transcriptional and epigenetic signatures in CD4Journal of translational autoimmunity · 2026Article
- PACS1 syndrome variant alters the proteomic landscape of developing cortical organoids.iScience · 2026Article
- Single-cell gene regulatory networks characterize colonic stem and immune cell homeostasis iniScience · 2026Article
- Targeting neurodevelopmental miR132-3p promotes neuroprotection and axon regeneration after optic nerve injury in mice.Brain research · 2026Article
- The structural context of mutations in proteins predicts their effect on antibiotic resistance.eLife · 2026Article
- The Drosophila SWI/SNF complex subunit Bap60 is required for training-induced gene transcription during long-term memory formation.Genetics · 2026Article
- Splicing genes as main targets of differential splicing.G3 (Bethesda, Md.) · 2026Article
- Shared molecular pathways in pediatric genetic epilepsies: Insights from a single-center cohort of 80 patients.Epilepsia open · 2026Article
- Problems With GO Enrichment as an Endpoint for Ecological Omics Interpretation.Molecular ecology · 2026Article
- Signals of Natural Selection across Regions of Low Recombination in Wild Populations of the Purple Sea Urchin, Strongylocentrotus purpuratus.Genome biology and evolution · 2026Article
- Life-History, Stress-Resistance, and Transcriptomic Variation Among a MexicanEcology and evolution · 2026Article
- Role of lipid-associated fibroblasts and their signature genes FABP4, CD36 and ABCA8 in gastric cancer progression.Oncology letters · 2026Article
- Molecular characterization of normal and physiologically suppressed human parathyroid glands at single-cell resolution.Journal of the Endocrine Society · 2026Article
- Introgression Shapes Genetic Variation Associated With Humid Environments in Aedes aegypti Mosquitoes From Saudi Arabia.Molecular ecology · 2026Article
- CDK7, CDK9, or CDK11 inhibition reduces neutrophil-driven inflammation and tissue damage in experimental autoimmune models.Cell communication and signaling : CCS · 2026Article
1,948 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
157 authors at 2 institutions in 4 countries.
Gene Ontology Consortium
Suzi A AleksanderORCID 0000-0001-6787-2901
James BalhoffORCID 0000-0002-8688-6599
Seth CarbonORCID 0000-0001-8244-1536
J Michael CherryORCID 0000-0001-9163-5180
Harold J DrabkinORCID 0000-0003-2689-5511
Dustin EbertORCID 0000-0002-6659-0416
Marc FeuermannORCID 0000-0002-4187-2863
Pascale GaudetORCID 0000-0003-1813-6857
Nomi L HarrisORCID 0000-0001-6315-3707
David P HillORCID 0000-0001-7476-6306
Raymond LeeORCID 0000-0002-8151-7479
Huaiyu MiORCID 0000-0001-8721-202X
Sierra MoxonORCID 0000-0002-8719-7760
Christopher J MungallORCID 0000-0002-6601-2165
Anushya MuruganuganORCID 0000-0001-7169-5864
Tremayne MushayahamaORCID 0000-0002-2874-6934
Paul W SternbergORCID 0000-0002-7699-0173
Paul D ThomasORCID 0000-0002-9074-3507
Kimberly Van AukenORCID 0000-0002-1706-4196
Jolene RamseyORCID 0000-0002-3774-5896
Deborah A SiegeleORCID 0000-0001-8935-0696
Rex L ChisholmORCID 0000-0002-5638-3990
Petra FeyORCID 0000-0002-4532-2703
Maria Cristina AspromonteORCID 0000-0002-4937-6952
Maria Victoria NugnesORCID 0000-0001-8399-7907
Federica QuagliaORCID 0000-0002-0341-4888
Silvio TosattoORCID 0000-0003-4525-7793
Michelle GiglioORCID 0000-0001-7628-5565
Suvarna NadendlaORCID 0000-0003-3643-281X
Giulia AntonazzoORCID 0000-0003-0086-5621
Helen AttrillORCID 0000-0003-3212-6364
Gil Dos SantosORCID 0000-0003-3507-8273
Steven MarygoldORCID 0000-0003-2759-266X
Victor StreletsORCID 0000-0001-6556-9335
Christopher J TaboneORCID 0000-0001-8746-0680
Jim ThurmondORCID 0000-0002-5142-2583
Pinglei ZhouORCID 0000-0002-3012-1044
Saadullah H Ahmed
Praoparn AsanitthongORCID 0000-0002-6286-7959
Diana Luna BuitragoORCID 0000-0003-2010-7174
Meltem N ErdolORCID 0000-0002-6574-5519
Matthew C GageORCID 0000-0002-6668-6573
Mohamed Ali Kadhum
Kan Yan Chloe LiORCID 0000-0001-7737-2118
Miao Long
Aleksandra Michalak
Angeline PesalaORCID 0000-0002-4639-2295
Armalya Pritazahra
Shirin C C SaverimuttuORCID 0000-0003-1191-2681
Renzhi SuORCID 0000-0002-6819-5356
Kate E ThurlowORCID 0000-0001-9985-3684
Ruth C LoveringORCID 0000-0002-9791-0064
Colin LogieORCID 0000-0002-8534-6582
Snezhana OliferenkoORCID 0000-0002-8138-6851
Judith BlakeORCID 0000-0001-8522-334X
Karen ChristieORCID 0000-0001-5501-853X
Lori CorbaniORCID 0000-0002-2366-557X
Mary E DolanORCID 0000-0001-7732-3295
Harold J DrabkinORCID 0000-0003-2689-5511
David P HillORCID 0000-0001-7476-6306
Dmitry SitnikovORCID 0000-0003-3394-9805
Cynthia SmithORCID 0000-0003-3691-0324
Alayne CuzickORCID 0000-0001-8941-3984
James SeagerORCID 0000-0001-7487-610X
Laurel CooperORCID 0000-0002-6379-8932
Justin ElserORCID 0000-0003-0921-1982
Pankaj JaiswalORCID 0000-0002-1005-8383
Parul GuptaORCID 0000-0002-0190-8753
Pankaj JaiswalORCID 0000-0002-1005-8383
Sushma NaithaniORCID 0000-0001-7819-4552
Manuel Lera-RamirezORCID 0000-0002-8666-9746
Kim RutherfordORCID 0000-0001-6277-726X
Valerie WoodORCID 0000-0001-6330-7526
Jeffrey L De Pons
Melinda R DwinellORCID 0000-0002-9528-3618
G Thomas HaymanORCID 0000-0002-9553-7227
Mary L KaldunskiORCID 0000-0003-3645-6803
Anne E KwitekORCID 0000-0003-1024-4116
Stanley J F LaulederkindORCID 0000-0001-5356-4174
Marek A TutajORCID 0000-0002-1025-101X
Mahima VediORCID 0000-0001-5361-6739
Shur-Jen WangORCID 0000-0001-5256-8683
Peter D'EustachioORCID 0000-0002-5494-626X
Lucila AimoORCID 0000-0003-0943-6401
Kristian AxelsenORCID 0000-0003-3889-2879
Alan BridgeORCID 0000-0003-2148-9135
Nevila Hyka-NouspikelORCID 0000-0001-7855-209X
Anne MorgatORCID 0000-0002-1216-2969
Suzi A AleksanderORCID 0000-0001-6787-2901
J Michael CherryORCID 0000-0001-9163-5180
Stacia R EngelORCID 0000-0001-5472-917X
Kalpana KarraORCID 0000-0002-6816-2458
Stuart R MiyasatoORCID 0000-0001-5250-8920
Robert S NashORCID 0000-0002-3726-7441
Marek S SkrzypekORCID 0000-0001-6749-615X
Shuai WengORCID 0000-0003-4233-0772
Edith D WongORCID 0000-0001-9799-5523
Erika BakkerORCID 0000-0001-7933-3817
Tanya Z BerardiniORCID 0000-0002-3837-8864
Leonore ReiserORCID 0000-0003-0073-0858
Andrea AuchinclossORCID 0000-0002-5297-5390
Kristian AxelsenORCID 0000-0003-3889-2879
Ghislaine Argoud-PuyORCID 0000-0002-2979-8613
Marie-Claude BlatterORCID 0000-0002-7474-1499
Emmanuel BoutetORCID 0000-0002-3743-4203
Lionel BreuzaORCID 0000-0002-8075-8625
Alan BridgeORCID 0000-0003-2148-9135
Cristina Casals-CasasORCID 0000-0001-8769-177X
Elisabeth CoudertORCID 0000-0001-8314-404X
Anne EstreicherORCID 0000-0001-6828-2508
Maria Livia FamigliettiORCID 0000-0002-5283-6593
Marc FeuermannORCID 0000-0002-4187-2863
Arnaud GosORCID 0000-0002-5018-1378
Nadine Gruaz-GumowskiORCID 0000-0002-4699-4907
Chantal HuloORCID 0000-0001-8176-7999
Nevila Hyka-NouspikelORCID 0000-0001-7855-209X
Florence JungoORCID 0000-0002-7456-8390
Philippe Le MercierORCID 0000-0001-8528-090X
Damien LieberherrORCID 0000-0002-9724-1710
Patrick MassonORCID 0000-0001-7646-0052
Anne MorgatORCID 0000-0002-1216-2969
Ivo PedruzziORCID 0000-0001-8561-7170
Lucille PourcelORCID 0000-0003-1522-9900
Sylvain PouxORCID 0000-0001-7299-6685
Catherine RivoireORCID 0000-0002-5979-8382
Shyamala SundaramORCID 0000-0003-4209-460X
Alex BatemanORCID 0000-0002-6982-4660
Emily Bowler-BarnettORCID 0000-0003-4785-7231
Hema Bye-A-JeeORCID 0000-0003-2464-7688
Paul DennyORCID 0000-0003-4659-6893
Alexandr IgnatchenkoORCID 0000-0002-6083-941X
Rizwan IshtiaqORCID 0000-0001-8041-7321
Antonia LockORCID 0000-0003-1179-5999
Yvonne LussiORCID 0000-0002-5753-0235
Michele MagraneORCID 0000-0003-3544-996X
Maria J MartinORCID 0000-0001-5454-2815
Sandra OrchardORCID 0000-0002-8878-3972
Pedro RaposoORCID 0000-0001-6149-9456
Elena SperettaORCID 0000-0003-1506-7438
Nidhi TyagiORCID 0000-0002-2065-9051
Kate WarnerORCID 0000-0001-8705-181X
Rossana ZaruORCID 0000-0002-3358-4423
Alexander D DiehlORCID 0000-0001-9990-8331
Raymond LeeORCID 0000-0002-8151-7479
Juancarlos ChanORCID 0000-0002-7259-8107
Stavros DiamantakisORCID 0000-0002-0273-3406
Daniela RacitiORCID 0000-0002-4945-5837
Magdalena ZarowieckiORCID 0000-0001-6102-7731
Malcolm FisherORCID 0000-0003-1074-8103
Christina James-ZornORCID 0000-0001-5495-4588
Virgilio PonferradaORCID 0000-0002-8590-7183
Aaron ZornORCID 0000-0003-3217-3590
Sridhar RamachandranORCID 0000-0002-2246-3722
Leyla RuzickaORCID 0000-0002-1009-339X
Monte WesterfieldORCID 0000-0003-1187-7839
University of Southern California · USUniversity of Padua · IT
Funding
UniProt - Text Mining and Large Language models to Enhance Functional Annotation in UniProt of Protein Variants Associated with Alzheimer's DiseaseU24HG007822 · NHGRI · GEORGETOWN UNIVERSITY · PI Alex Bateman, Alan James Bridge · 2018 to 2026
$53.0MRAT GENOME DATABASER01HL064541 · NHLBI · MEDICAL COLLEGE OF WISCONSIN · PI ANNE E. KWITEK · 1999 to 2026
$50.0MText mining in the CloudU24HG010859 · NHGRI · CALIFORNIA INSTITUTE OF TECHNOLOGY · PI CAROL J BULT, PAUL Warren STERNBERG · 2019 to 2026
$42.0MResource ProjectU41HG002273 · NHGRI · UNIVERSITY OF SOUTHERN CALIFORNIA · PI THOMAS, PAUL D. · 2012 to 2021
$34.7MUniversity of Buffalo Clinical and Translational Science Institute - Supplement SchulyerUL1TR001412 · NCATS · STATE UNIVERSITY OF NEW YORK AT BUFFALO · PI MURPHY, TIMOTHY F · 2015 to 2024
$33.8MResource Project CoreU41HG000739 · NHGRI · HARVARD UNIVERSITY · PI PERRIMON, NORBERT · 2014 to 2022
$32.3MXenbase: the Xenopus Model Organism KnowledgebaseP41HD064556 · NICHD · CINCINNATI CHILDRENS HOSP MED CTR · PI Aaron M Zorn · 2010 to 2026
$24.9MMouse Genome Database (MGD): A Core Knowledge Resource for Functional Characterization of the Human GenomeU24HG000330 · NHGRI · JACKSON LABORATORY · PI CAROL J BULT, Cynthia Louise Smith · 2021 to 2026
$20.5MWormBase: a core data resource for C. elegans and other nematodesU24HG002223 · NHGRI · CALIFORNIA INSTITUTE OF TECHNOLOGY · PI TIM SCHEDL, PAUL Warren STERNBERG · 2018 to 2026
$18.9MGene Ontology Consortium and KnowledgebaseU24HG012212 · NHGRI · UNIVERSITY OF SOUTHERN CALIFORNIA · PI CHRISTOPHER J MUNGALL, PAUL Warren STERNBERG · 2022 to 2026
$11.6MGenomic Resource for the Yeast SaccharomycesU24HG001315 · NHGRI · STANFORD UNIVERSITY · PI Stacia Engel, Gavin J Sherlock · 2021 to 2026
$10.9MZFIN: The Zebrafish Model Organism DatabaseU24HG002659 · NHGRI · UNIVERSITY OF OREGON · PI WESTERFIELD, MONTE · 2021 to 2025
$10.8MBiotechnology and Biological Sciences Research Council BB/S01781X/1Biotechnology and Biological Sciences Research Council BB/T010541/1Medical Research Council MR/N030117/1Medical Research Council MR/W024233/1NHGRI NIH HHS U24 HG000330NHGRI NIH HHS U24 HG001315NHGRI NIH HHS U24 HG002223NHGRI NIH HHS U24 HG002659NHGRI NIH HHS U24 HG007822NHGRI NIH HHS U24 HG010859NHGRI NIH HHS U24 HG011851NHGRI NIH HHS U24 HG012198NHGRI NIH HHS U24 HG012212NHGRI NIH HHS U41 HG000739NHGRI NIH HHS U41 HG002273NHLBI NIH HHS R01 HL064541NICHD NIH HHS P41 HD064556Wellcome TrustWellcome Trust 218236/Z/19/Z
Abstract
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.
Indexed as
Databases, GeneticProteinsComputational BiologyGene OntologyMolecular Sequence AnnotationProteinsgene annotationgene functionGene Ontologyknowledgebaseknowledge graphs
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Read underepoch 390
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.