Vidisha SINGH

VIDISHA SINGH

Doctorante en biologie systémique

https://www.linkedin.com/in/vidisha-s-191b1b16a/

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Thèse de doctorat 

My PhD project entitled ''Integrative analysis and modeling of molecular pathways dysregulated in the disease rheumatoid arthritis (RA)" comprises a systematic effort to summarize and code current biological pathway knowledge concerning RA, in a way that is both human and machine readable, facilitating the use of a molecular map as an analytical tool, as well as the extraction of an executable logic-based dynamical model. 

A detailed RA molecular interaction knowledge base map, based on exhaustive literature scanning, strict curation criteria, re-evaluation of previously published attempts and most importantly experts’ advice is being constructed using the software CellDesigner. It will be web-published in the form of an interactive Google map, using the software MINERVA, allowing for easy navigation and search of all molecular pathways implicated in RA. The user will have access to all the detailed annotations for every component and reaction, including PubMed IDs, and a list of identifiers such as UniProt, RefSeq, and HGNC etc. 

Static representations of molecular networks can provide useful but relatively limited understanding. A dynamical study can reveal information about the system’s behavior under different conditions by in silico simulations. A detailed molecular map can serve as an excellent basis for a dynamical model, providing a template for the building of a regulatory graph. Leaning on the RA map, we are currently working towards a semi-automated inference of a logical (Boolean) model, with a set of preliminary logical rules based on the network’s topology. 

One of the main objectives of this collaborative and interdisciplinary work is to facilitate the passage from static representations of biological knowledge to executable dynamical models, addressing among others, issues of interoperability between tools widely used by the systems biology community. 

Domaine de recherche

  • Computational systems biology

Publications

  1. SINGH, Vidisha et al. Computational Systems Biology Approach for the Study of Rheumatoid Arthritis: From a Molecular Map to a Dynamical Model. Genomics and Computational Biology, [S.l.], v. 4, n. 1, p. e100050, dec. 2017. ISSN 2365-7154.

Publications

  1. SINGH, Vidisha et al. Computational Systems Biology Approach for the Study of Rheumatoid Arthritis: From a Molecular Map to a Dynamical Model. Genomics and Computational Biology, [S.l.], v. 4, n. 1, p. e100050, dec. 2017. ISSN 2365-7154.
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