INDRA-IPM: interactive pathway modeling using natural language with automated assembly

SUMMARY: INDRA-IPM (Interactive Pathway Map) is a web-based pathway map modeling tool that combines natural language processing with automated model assembly and visualization. INDRA-IPM contextualizes models with expression data and exports them to standard formats. AVAILABILITY AND IMPLEMENTATION:...

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Detalles Bibliográficos
Autores principales: Todorov, Petar V, Gyori, Benjamin M, Bachman, John A, Sorger, Peter K
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2019
Materias:
Applications Notes
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6821420/
https://www.ncbi.nlm.nih.gov/pubmed/31070726
http://dx.doi.org/10.1093/bioinformatics/btz289
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author Todorov, Petar V
Gyori, Benjamin M
Bachman, John A
Sorger, Peter K
author_facet Todorov, Petar V
Gyori, Benjamin M
Bachman, John A
Sorger, Peter K
author_sort Todorov, Petar V
collection PubMed
description SUMMARY: INDRA-IPM (Interactive Pathway Map) is a web-based pathway map modeling tool that combines natural language processing with automated model assembly and visualization. INDRA-IPM contextualizes models with expression data and exports them to standard formats. AVAILABILITY AND IMPLEMENTATION: INDRA-IPM is available at: http://pathwaymap.indra.bio. Source code is available at http://github.com/sorgerlab/indra_pathway_map. The underlying web service API is available at http://api.indra.bio:8000. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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spelling pubmed-68214202019-11-04 INDRA-IPM: interactive pathway modeling using natural language with automated assembly Todorov, Petar V Gyori, Benjamin M Bachman, John A Sorger, Peter K Bioinformatics Applications Notes SUMMARY: INDRA-IPM (Interactive Pathway Map) is a web-based pathway map modeling tool that combines natural language processing with automated model assembly and visualization. INDRA-IPM contextualizes models with expression data and exports them to standard formats. AVAILABILITY AND IMPLEMENTATION: INDRA-IPM is available at: http://pathwaymap.indra.bio. Source code is available at http://github.com/sorgerlab/indra_pathway_map. The underlying web service API is available at http://api.indra.bio:8000. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online. Oxford University Press 2019-11-01 2019-05-09 /pmc/articles/PMC6821420/ /pubmed/31070726 http://dx.doi.org/10.1093/bioinformatics/btz289 Text en © The Author(s) 2019. Published by Oxford University Press. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Applications Notes
Todorov, Petar V
Gyori, Benjamin M
Bachman, John A
Sorger, Peter K
INDRA-IPM: interactive pathway modeling using natural language with automated assembly
title INDRA-IPM: interactive pathway modeling using natural language with automated assembly
title_full INDRA-IPM: interactive pathway modeling using natural language with automated assembly
title_fullStr INDRA-IPM: interactive pathway modeling using natural language with automated assembly
title_full_unstemmed INDRA-IPM: interactive pathway modeling using natural language with automated assembly
title_short INDRA-IPM: interactive pathway modeling using natural language with automated assembly
title_sort indra-ipm: interactive pathway modeling using natural language with automated assembly
topic Applications Notes
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6821420/
https://www.ncbi.nlm.nih.gov/pubmed/31070726
http://dx.doi.org/10.1093/bioinformatics/btz289
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