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Protocols

QuickGO specifications

Information


Unique identifier OMICS_02276
Name QuickGO
Interface Web user interface
Restrictions to use None
Programming languages Javascript
License Apache License version 2.0
Computer skills Basic
Stability Stable
Maintained Yes

Publication for QuickGO

QuickGO citations

 (96)
library_books

From SNPs to pathways: Biological interpretation of type 2 diabetes (T2DM) genome wide association study (GWAS) results

2018
PLoS One
PMCID: 5884486
PMID: 29617380
DOI: 10.1371/journal.pone.0193515

[…] cesses in the network, related biological processes were clustered in the same frame of the . Then, we constructed for each frame a GO ancestor chart of the biological terms, using the old version of QuickGO (http://www.ebi.ac.uk/QuickGO-Old/). In these charts GO slim terms were used to provide a summary of the results, which then gives an overview of the ontology content of the terms present in t […]

library_books

Transcriptome wide mapping of signaling pathways and early immune responses in lumpfish leukocytes upon in vitro bacterial exposure

2018
Sci Rep
PMCID: 5869700
PMID: 29588496
DOI: 10.1038/s41598-018-23667-x

[…] sion analysis software. Detailed information about the gene included in each category was obtained using Quick GO, which is a fast browser for Gene Ontology terms and annotation (http://www.ebi.ac.uk/QuickGO/GTerm?id=GO:0006954#term=annotation). Verification of the annotation of the transcripts was performed with BLAST search (https://blast.ncbi.nlm.nih.gov/Blast.cgi), multiple sequence alignment […]

library_books

Exploring autophagy with Gene Ontology

2018
Autophagy
PMCID: 5915032
PMID: 29455577
DOI: 10.1080/15548627.2017.1415189

[…] onreviewed and reviewed UniProt IDs, the UniProt Retrieve/ID mapping tool [] was used to identify only the reviewed IDs. The 474 reviewed human protein IDs were then included in the ‘Gene Product ID’ QuickGO filter and used, along with the autophagy-related GO IDs in the ‘GO Identifier’ filter option. The resulting annotations and statistics data was then downloaded so that the number and source o […]

library_books

Improving Interpretation of Cardiac Phenotypes and Enhancing Discovery With Expanded Knowledge in the Gene Ontology

2018
Circ Cardiovasc Genet
PMCID: 5821137
PMID: 29440116
DOI: 10.1161/CIRCGEN.117.001813

[…] otations to identify candidate genes associated with arrhythmia disorders was evaluated. Human proteins associated with 9 GO terms that are relevant to normal cardiac physiology were downloaded using QuickGO (GO terms are shown in Table IV in the Data Supplement). The corresponding genes were then compared with Mendelian genes for arrhythmia disorders (atrial fibrillation, long-QT syndrome, short- […]

library_books

Disseminating Metaproteomic Informatics Capabilities and Knowledge Using the Galaxy P Framework

2018
Proteomes
PMCID: 5874766
PMID: 29385081
DOI: 10.3390/proteomes6010007

[…] tion of the collective functional categories is the next desirable step. Here, various options are available—with potential for deployment in the Galaxy platform. For single GO terms of interest, the QuickGO browser [] enables the user to view the full term definition, as well as to browse closely related terms. For large lists of GO terms, the ‘reduce and visualize Gene Ontology’ (REVIGO) tool [] […]

call_split

GO FEAT: a rapid web based functional annotation tool for genomic and transcriptomic data

2018
Sci Rep
PMCID: 5789007
PMID: 29379090
DOI: 10.1038/s41598-018-20211-9
call_split See protocol

[…] or remote connection scripts. To store the records from the tool we used MySQL RDBMS. All remote calling is made by public REST API (EMBL-EBI’s public API for Blast, UniProt for database integration, QuickGO for ontologies and SEED’s public API for SEED). The user can share their data to other users, export data to several formats, and generate Gene Ontology charts (general and by type of ontology […]

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QuickGO institution(s)
European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK

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