dor_id: 45580

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351.#.#.b: Journal of Applied Research and Technology

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856.4.0.u: https://jart.icat.unam.mx/index.php/jart/article/view/370/367

100.1.#.a: Ramos, F.; Hallal, C.; Nieto, A.; García, D.; Berúmen, J.; Escárcega, D.

524.#.#.a: Ramos, F., et al. (2012). Concurrent Dynamic Visualizations With Expressive Petri Net Representations to Enrich the Understanding of Biological and Pathological Processes: an Application to Signaling Pathways. Journal of Applied Research and Technology; Vol. 10 Núm. 5. Recuperado de https://repositorio.unam.mx/contenidos/45580

245.1.0.a: Concurrent Dynamic Visualizations With Expressive Petri Net Representations to Enrich the Understanding of Biological and Pathological Processes: an Application to Signaling Pathways

502.#.#.c: Universidad Nacional Autónoma de México

561.1.#.a: Instituto de Ciencias Aplicadas y Tecnología, UNAM

264.#.0.c: 2012

264.#.1.c: 2012-10-01

653.#.#.a: Petri nets; dynamic visualization; signaling pathways; pathway databases

506.1.#.a: La titularidad de los derechos patrimoniales de esta obra pertenece a las instituciones editoras. Su uso se rige por una licencia Creative Commons BY-NC-SA 4.0 Internacional, https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode.es, para un uso diferente consultar al responsable jurídico del repositorio por medio del correo electrónico gabriel.ascanio@icat.unam.mx

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001.#.#.#: 074.oai:ojs2.localhost:article/370

041.#.7.h: eng

520.3.#.a: Dynamic visualizations and expressive representations are needed in systems biology to handle multiple interactionsoccurring during the biological processes of biopathway representations. Dynamic visualizations allow users an easeof interaction with pathway models. At the same time, representations of biopathways should express how interactionstake place. In spite of the fact that diverse databases provide users with pathways, their information andrepresentation are frequently different from each other and show restricted interactions because of their staticvisualization. An adopted solution is to merge diverse representations to obtain a richer one. However, due to differentformats and the multiple links involved in the pathway representations, the merge results frequently in erroneousmodels and in a tangle web of relations very hard to be manipulated. Instead, this work introduces a concurrentdynamic visualization (CDV) of the same pathway, which is retrieved from different sites and then transformed intoPetri net representations to facilitate the understanding of their biological processes by interacting with them. Weapplied this approach to the analysis of the Notch signaling pathway, associated with cervical cancer; we obtained itfrom different sources which we compared and manipulated simultaneously by interacting with the provided CDV untilthe user generated a personalized pathway.

773.1.#.t: Journal of Applied Research and Technology; Vol. 10 Núm. 5

773.1.#.o: https://jart.icat.unam.mx/index.php/jart

022.#.#.a: ISSN electrónico: 2448-6736; ISSN: 1665-6423

310.#.#.a: Bimestral

264.#.1.b: Instituto de Ciencias Aplicadas y Tecnología, UNAM

doi: https://doi.org/10.22201/icat.16656423.2012.10.5.370

harvesting_date: 2023-11-08 13:10:00.0

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last_modified: 2024-03-19 14:00:00

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Artículo

Concurrent Dynamic Visualizations With Expressive Petri Net Representations to Enrich the Understanding of Biological and Pathological Processes: an Application to Signaling Pathways

Ramos, F.; Hallal, C.; Nieto, A.; García, D.; Berúmen, J.; Escárcega, D.

Instituto de Ciencias Aplicadas y Tecnología, UNAM, publicado en Journal of Applied Research and Technology, y cosechado de Revistas UNAM

Licencia de uso

Procedencia del contenido

Cita

Ramos, F., et al. (2012). Concurrent Dynamic Visualizations With Expressive Petri Net Representations to Enrich the Understanding of Biological and Pathological Processes: an Application to Signaling Pathways. Journal of Applied Research and Technology; Vol. 10 Núm. 5. Recuperado de https://repositorio.unam.mx/contenidos/45580

Descripción del recurso

Autor(es)
Ramos, F.; Hallal, C.; Nieto, A.; García, D.; Berúmen, J.; Escárcega, D.
Tipo
Artículo de Investigación
Área del conocimiento
Ingenierías
Título
Concurrent Dynamic Visualizations With Expressive Petri Net Representations to Enrich the Understanding of Biological and Pathological Processes: an Application to Signaling Pathways
Fecha
2012-10-01
Resumen
Dynamic visualizations and expressive representations are needed in systems biology to handle multiple interactionsoccurring during the biological processes of biopathway representations. Dynamic visualizations allow users an easeof interaction with pathway models. At the same time, representations of biopathways should express how interactionstake place. In spite of the fact that diverse databases provide users with pathways, their information andrepresentation are frequently different from each other and show restricted interactions because of their staticvisualization. An adopted solution is to merge diverse representations to obtain a richer one. However, due to differentformats and the multiple links involved in the pathway representations, the merge results frequently in erroneousmodels and in a tangle web of relations very hard to be manipulated. Instead, this work introduces a concurrentdynamic visualization (CDV) of the same pathway, which is retrieved from different sites and then transformed intoPetri net representations to facilitate the understanding of their biological processes by interacting with them. Weapplied this approach to the analysis of the Notch signaling pathway, associated with cervical cancer; we obtained itfrom different sources which we compared and manipulated simultaneously by interacting with the provided CDV untilthe user generated a personalized pathway.
Tema
Petri nets; dynamic visualization; signaling pathways; pathway databases
Idioma
eng
ISSN
ISSN electrónico: 2448-6736; ISSN: 1665-6423

Enlaces