Evidence map›Paper›PMID 23842463›Full record

ArticleDatabase : the journal of biological databases and curation2013

A guide to best practices for Gene Ontology (GO) manual annotation.

Rama Balakrishnan, Midori A Harris, Rachael Huntley, Kimberly Van Auken, J Michael Cherry

Open access · goldAbstract read
In one paragraph

Article in Database : the journal of biological databases and curation, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 111 papers.

0numbers the graph read from it
0cells of the map it votes in
111citing papers in PubMed
6.6field-weighted citation impact, top 2% of its field
1 · What the graph read from it

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.

2 · The registry

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.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

111 citing papers in PubMed, 175 citations in OpenAlex.

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  14. The Role of theAnimals : an open access journal from MDPI · 2024
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51 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

5 authors at 5 institutions in 2 countries.

Rama BalakrishnanSaccharomyces Genome Database, Department of Genetics, Stanford University, 300 Pasteur Drive, MC-5477 Stanford, CA 94305, USA.
Midori A Harris
Rachael Huntley
Kimberly Van Auken
J Michael Cherry
California Institute of Technology · USEuropean Bioinformatics Institute · GBStanford University · USUniversity of Cambridge · GBWellcome Trust · GB

Funding

Resource ProjectU41HG002273 · NHGRI · UNIVERSITY OF SOUTHERN CALIFORNIA · PI CHERRY, J. MICHAEL, MUNGALL, CHRISTOPHER J · 2012 to 2021
$34.7M
UniProt: A Centralized Protein Sequence and Function ResourceU41HG006104 · NHGRI · EUROPEAN MOLECULAR BIOLOGY LABORATORY · PI APWEILER, ROLF · 2010 to 2014
$23.5M
British Heart Foundation SP/07/007/23671NHGRI NIH HHS U41 HG002273NHGRI NIH HHS U41HG002273NHGRI NIH HHS U41HG006104Wellcome Trust 090548Wellcome Trust WT090548MA
6 · The paper itself

Abstract

The Gene Ontology Consortium (GOC) is a community-based bioinformatics project that classifies gene product function through the use of structured controlled vocabularies. A fundamental application of the Gene Ontology (GO) is in the creation of gene product annotations, evidence-based associations between GO definitions and experimental or sequence-based analysis. Currently, the GOC disseminates 126 million annotations covering >374,000 species including all the kingdoms of life. This number includes two classes of GO annotations: those created manually by experienced biocurators reviewing the literature or by examination of biological data (1.1 million annotations covering 2226 species) and those generated computationally via automated methods. As manual annotations are often used to propagate functional predictions between related proteins within and between genomes, it is critical to provide accurate consistent manual annotations. Toward this goal, we present here the conventions defined by the GOC for the creation of manual annotation. This guide represents the best practices for manual annotation as established by the GOC project over the past 12 years. We hope this guide will encourage research communities to annotate gene products of their interest to enhance the corpus of GO annotations available to all. DATABASE URL: http://www.geneontology.org.

Indexed as

Biological PhenomenaData MiningDecision TreesMolecular Sequence AnnotationReference StandardsSequence Homology, Nucleic Acid

Identifiers

PMID23842463
PMCPMC3706743
OpenAlexW2124915144

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

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.