OpenDMAP: an open source, ontology-driven concept analysis engine, with applications to capturing knowledge regarding protein transport, protein interactions and cell-type-specific gene expression (Q21284192)

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OpenDMAP: An open source, ontology-driven concept analysis engine, with applications to capturing knowledge regarding protein transport, protein interactions and cell-type-specific gene expression

Language	Label	Description	Also known as
English	OpenDMAP: an open source, ontology-driven concept analysis engine, with applications to capturing knowledge regarding protein transport, protein interactions and cell-type-specific gene expression	scientific article	OpenDMAP: An open source, ontology-driven concept analysis engine, with applications to capturing knowledge regarding protein transport, protein interactions and cell-type-specific gene expression

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scholarly article

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Europe PubMed Central

OpenDMAP: an open source, ontology-driven concept analysis engine, with applications to capturing knowledge regarding protein transport, protein interactions and cell-type-specific gene expression (English)

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open-source software

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Lawrence Hunter

1

object named as

Lawrence Hunter

author given names

Lawrence

author last names

Hunter

1 reference

Dimensions Publication ID

18 August 2022

Kevin Bretonnel Cohen

7

object named as

K Bretonnel Cohen

author given names

K Bretonnel

author last names

Cohen

1 reference

Dimensions Publication ID

18 August 2022

2

object named as

Zhiyong Lu

author given names

Zhiyong

author last names

Lu

1 reference

Dimensions Publication ID

18 August 2022

William Baumgartner

4

object named as

William A Baumgartner

author given names

William A

author last names

Baumgartner

1 reference

Dimensions Publication ID

18 August 2022

author name string

James Firby

3

author given names

James

author last names

Firby

1 reference

Dimensions Publication ID

18 August 2022

Helen L Johnson

5

author given names

Helen L

author last names

Johnson

1 reference

Dimensions Publication ID

18 August 2022

Philip V Ogren

6

author given names

Philip V

author last names

Ogren

1 reference

Dimensions Publication ID

18 August 2022

language of work or name

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publication date

2008

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BMC Bioinformatics

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9

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1

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78

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copyright license

Creative Commons Attribution 2.0 Generic

31 January 2008

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April 2022 Public Data File from Crossref

copyright status

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April 2022 Public Data File from Crossref

Biomedical language processing: what's beyond PubMed?

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

19 March 2017

Extraction of transcript diversity from scientific literature

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19 March 2017

Facts from text--is text mining ready to deliver?

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

19 March 2017

PASBio: predicate-argument structures for event extraction in molecular biology

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

19 March 2017

Content-rich biological network constructed by mining PubMed abstracts

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

19 March 2017

IntAct: an open source molecular interaction database

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19 March 2017

Gene ontology: tool for the unification of biology

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19 March 2017

Overview of BioCreAtIvE task 1B: normalized gene lists

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

19 March 2017

A gene network for navigating the literature

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

19 March 2017

Effective mapping of biomedical text to the UMLS Metathesaurus: the MetaMap program

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7 April 2017

Extraction of regulatory gene/protein networks from Medline

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

10 May 2017

Overview of BioCreative II gene normalization

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

12 September 2017

Can bibliographic pointers for known biological data be found automatically? Protein interactions as a case study

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12 September 2017

Improving protein function prediction methods with integrated literature data

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

12 September 2017

Extracting semantic predications from Medline citations for pharmacogenomics

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

12 September 2017

Manual curation is not sufficient for annotation of genomic databases

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

12 September 2017

A critical review of PASBio's argument structures for biomedical verbs

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

12 September 2017

An environment for relation mining over richly annotated corpora: the case of GENIA.

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

12 September 2017

Argument-predicate distance as a filter for enhancing precision in extracting predications on the genetic etiology of disease

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

12 September 2017

ABNER: an open source tool for automatically tagging genes, proteins and other entity names in text

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

12 September 2017

Literature mining and database annotation of protein phosphorylation using a rule-based system

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

12 September 2017

Automatic extraction of gene/protein biological functions from biomedical text

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

12 September 2017

GeneWays: a system for extracting, analyzing, visualizing, and integrating molecular pathway data

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

12 September 2017

Automated extraction of mutation data from the literature: application of MuteXt to G protein-coupled receptors and nuclear hormone receptors

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

12 September 2017

The interaction of domain knowledge and linguistic structure in natural language processing: interpreting hypernymic propositions in biomedical text

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

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Protégé-2000: an open-source ontology-development and knowledge-acquisition environment.

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

12 September 2017

Semantic relations asserting the etiology of genetic diseases

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

12 September 2017

Extraction of protein interaction information from unstructured text using a context-free grammar

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

12 September 2017

Protein structures and information extraction from biological texts: the PASTA system.

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

12 September 2017

Automatic extraction of biological information from scientific text: protein-protein interactions

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

12 September 2017

Mining MEDLINE: abstracts, sentences, or phrases?

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

27 September 2017

Assessing and combining reliability of protein interaction sources.

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

30 May 2018

Comparative experiments on learning information extractors for proteins and their interactions.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

29 November 2018

BioRAT: extracting biological information from full-length papers.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

29 November 2018

Event extraction from biomedical papers using a full parser.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

29 November 2018

Bidirectional incremental parsing for automatic pathway identification with combinatory categorial grammar.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

29 November 2018

Constructing biological knowledge bases by extracting information from text sources.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2275248

29 November 2018

A shallow parser based on closed-class words to capture relations in biomedical text

1 reference

https://pubmed.ncbi.nlm.nih.gov/18237434

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Beyond the clause: extraction of phosphorylation information from medline abstracts

1 reference

https://pubmed.ncbi.nlm.nih.gov/18237434

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Mining functional information associated with expression arrays

1 reference

https://pubmed.ncbi.nlm.nih.gov/18237434

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1186/1471-2105-9-78

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

DBLP publication ID

journals/bmcbi/HunterLFBJOC08

1 reference

DBLP Dataset 2021-01-02

28 January 2021

Dimensions Publication ID

0 references

OpenCitations bibliographic resource ID

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

PMC publication ID

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

PubMed publication ID

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

ResearchGate publication ID

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