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Protocols

GOCat specifications

Information


Unique identifier OMICS_13667
Name GOCat
Alternative name Gene Ontology Categorizer
Interface Web user interface
Restrictions to use None
Input data A free text
Computer skills Basic
Version 1.0
Stability Stable
Maintained Yes

Maintainer


  • person_outline Julien Gobeill

Publication for Gene Ontology Categorizer

GOCat citations

 (18)
library_books

Semantic annotation in biomedicine: the current landscape

2017
J Biomed Semantics
PMCID: 5610427
PMID: 28938912
DOI: 10.1186/s13326-017-0153-x

[…] method that relies on a knowledge base built by leveraging a large database of (over 100 K) MEDLINE abstracts annotated with GO terms []. In particular, the tool developed by this team, known as the GOCat tool, relies on similarities between an input text and already curated instances in the tool’s knowledge base, to annotate the input with the most prevalent GO terms among the instances from the […]

library_books

Gene Ontology synonym generation rules lead to increased performance in biomedical concept recognition

2016
J Biomed Semantics
PMCID: 5018193
PMID: 27613112
DOI: 10.1186/s13326-016-0096-7

[…] ty, and similarity to calculate the score of GO term t appearing in zone z. They report average precision and recall of 0.34 for the terms at rank 1 on the BioCreative I corpus. A more recent system, GOCat [], combines semantic similarity and a machine learning based k-NN algorithm to return the most similar k GO concepts in some text. On the Biocreative I corpus, GOCat reports 0.56 precision at r […]

library_books

Stereo‐ and Regioselective Alkyne Hydrometallation with Gold(III) Hydrides

2016
PMCID: 5113781
PMID: 27592697
DOI: 10.1002/anie.201607522

[…] This work was supported by the European Research Council. M.B. is an ERC Advanced Investigator Award holder (grant no. 338944‐GOCAT). We are grateful to the EPSRC National Crystallography service, Southampton, UK, for collecting the crystallographic data sets. […]

library_books

Mitochondrial Changes in β0 Thalassemia/Hb E Disease

2016
PLoS One
PMCID: 4836671
PMID: 27092778
DOI: 10.1371/journal.pone.0153831

[…] icantly up-regulated in β°-thalassemia/Hb E patients belonged to a number of cellular processed including oxidative phosphorylation and energy metabolism (Table B in ). Ontological analysis using the GoCat software [] showed that most of the differentially expressed proteins were involved in cellular processes (30%), regulation (17%) and metabolic processes (8%) as shown in . Functional categoriza […]

library_books

Highly photoluminescent copper carbene complexes based on prompt rather than delayed fluorescence† †Electronic supplementary information (ESI) available. CCDC 1469283 (for 1a), 1469285 (for 1b) and 1469284 (for 1c). For ESI and crystallographic data in CIF or other electronic format see DOI: 10.1039/c6cc02349e Click here for additional data file. Click here for additional data file.

2016
PMCID: 4920075
PMID: 27087532
DOI: 10.1039/c6cc02349e

[…] AAC coinage metal complexes.This work was supported by the ERC, the Royal Society, and by the Academy of Finland (Project 251448). M. B. is an ERC Advanced Investigator Award holder (grant no. 338944-GOCAT). The computations were made possible by use of the Finnish Grid Infrastructure resources. […]

library_books

The Metagenome of Utricularia gibba's Traps: Into the Microbial Input to a Carnivorous Plant

2016
PLoS One
PMCID: 4747601
PMID: 26859489
DOI: 10.1371/journal.pone.0148979

[…] replacing the carbon source for glutamine with the synthesis of acetyl CoA, citrate, and fatty acids under anaerobic conditions [,]. Nitrogen assimilation via glutamine (GS) and glutamate synthetase (GOCAT) has been suggested to be a metabolic signal regulating both nitrogen and carbon metabolisms, this requires 2-oxoglutarate as a main source [].Regarding to previous Genlisea and Utricularia's me […]


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GOCat institution(s)
BiTeM group, University of Applied Sciences, HEG – Library and Information Sciences, Geneva, Switzerland; Division of Medical Information Sciences, University and Hospitals of Geneva, Geneva, Switzerland; SIBtex group, SIB Swiss Institute of Bioinformatics, Geneva, Switzerland
GOCat funding source(s)
This work was funded by the Swiss National Fund for Scientific Research [BiND project 3252B0-105755] and by the FP7 program [Khresmoi project FP7–257528].

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