Semantic similarity in biomedical ontologies (Q21145359)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19649320%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

title

Semantic similarity in biomedical ontologies (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19649320%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

0 references

0 references

1 reference

26 January 2021

computational biology

1 reference

8 April 2021

1

Catia Pesquita

Catia

Pesquita

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19649320%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

2

Daniel Faria

Daniel

Faria

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19649320%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

3

André O Falcão

André O

Falcão

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19649320%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

4

Phillip Lord

Phillip

Lord

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19649320%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

5

Francisco M Couto

Francisco M

Couto

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19649320%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

publication date

31 July 2009

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19649320%20AND%20SRC:MED&resulttype=core&format=json

PLOS Computational Biology

4 February 2020

1 July 2009

2 references

26 January 2021

8 April 2021

language of work or name

English

0 references

published in

3 references

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19649320%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

26 January 2021

8 April 2021

5

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19649320%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

issue

7

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19649320%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

page(s)

e1000443

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19649320%20AND%20SRC:MED&resulttype=core&format=json

Creative Commons Attribution 4.0 International

4 February 2020

copyright license

2 references

26 January 2021

publication type of scholarly work

8 April 2021

copyright status

copyrighted

0 references

review article

3 references

Defining functional distances over gene ontology

26 January 2021

8 April 2021

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

The DAVID Gene Functional Classification Tool: a novel biological module-centric algorithm to functionally analyze large gene lists

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

DynGO: a tool for visualizing and mining of Gene Ontology and its associations

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Prediction of functional modules based on comparative genome analysis and Gene Ontology application

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

GOToolBox: functional analysis of gene datasets based on Gene Ontology

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Information assessment on predicting protein-protein interactions

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

The Gene Ontology (GO) database and informatics resource

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Investigating semantic similarity measures across the Gene Ontology: the relationship between sequence and annotation

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

The Gene Ontology Annotation (GOA) Database: sharing knowledge in Uniprot with Gene Ontology

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Dynamic modularity in protein interaction networks predicts breast cancer outcome

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Fast gene ontology based clustering for microarray experiments

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Evaluation of GO-based functional similarity measures using S. cerevisiae protein interaction and expression profile data

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

A relation based measure of semantic similarity for Gene Ontology annotations

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Gene Ontology term overlap as a measure of gene functional similarity

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Metrics for GO based protein semantic similarity: a systematic evaluation

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Semantically linking and browsing PubMed abstracts with gene ontology

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Integration of genomic data for inferring protein complexes from global protein-protein interaction networks

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Predicting gene ontology functions from protein's regional surface structures

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

FunSimMat: a comprehensive functional similarity database

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Semantic integration to identify overlapping functional modules in protein interaction networks

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Information theory applied to the sparse gene ontology annotation network to predict novel gene function

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

False positive reduction in protein-protein interaction predictions using gene ontology annotations

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

A transversal approach to predict gene product networks from ontology-based similarity

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Evaluation of high-throughput functional categorization of human disease genes

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

A new method to measure the semantic similarity of GO terms

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Globally predicting protein functions based on co-expressed protein-protein interaction networks and ontology taxonomy similarities

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

GOAnnotator: linking protein GO annotations to evidence text

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Assessing protein similarity with Gene Ontology and its use in subnuclear localization prediction

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Correlation between gene expression and GO semantic similarity

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Cluster analysis of protein array results via similarity of Gene Ontology annotation

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Combining functional and topological properties to identify core modules in protein interaction networks.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

A new measure for functional similarity of gene products based on Gene Ontology

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Automated protein function prediction--the genomic challenge

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Choosing negative examples for the prediction of protein-protein interactions

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Transcriptome coexpression map of human embryonic stem cells

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Prediction of yeast protein-protein interaction network: insights from the Gene Ontology and annotations

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Assessing semantic similarity measures for the characterization of human regulatory pathways

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Improving missing value estimation in microarray data with gene ontology

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Multiple SVM-RFE for gene selection in cancer classification with expression data

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Domain rearrangements in protein evolution

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Connecting the protein structure universe by using sparse recurring fragments.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

An evaluation of GO annotation retrieval for BioCreAtIvE and GOA.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Broadly predicting specific gene functions with expression similarity and taxonomy similarity

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Modularized learning of genetic interaction networks from biological annotations and mRNA expression data

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Non-lexical approaches to identifying associative relations in the gene ontology.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Online predicted human interaction database

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

A knowledge-based clustering algorithm driven by Gene Ontology

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

The gene ontology categorizer

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Coexpression analysis of human genes across many microarray data sets

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Semantic search among heterogeneous biological databases based on gene ontology

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Gene function prediction from congruent synthetic lethal interactions in yeast

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712090

Gene expression correlation and gene ontology-based similarity: an assessment of quantitative relationships

27 September 2017

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/19649320

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1371/JOURNAL.PCBI.1000443

2 references

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19649320%20AND%20SRC:MED&resulttype=core&format=json

journals/ploscb/PesquitaFFLC09

4 February 2020

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

2 references

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19649320%20AND%20SRC:MED&resulttype=core&format=json

4 February 2020

PubMed publication ID

19649320

2 references