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Functional analysis: Gene Ontology, Pathways, Protein interactions, Molecular network generation and visualizations, Transcription factors and binding sites, miRNA-mRNA interactions etc.

To understand the function of a gene, it is important to know which processes and pathways a particular gene is involved in, and their molecular interactions, as the proteins inside the cell function by interacting with other molecules. Our team has performed immense research on comparing and establishing the resources related to protein interaction, pathway analysis, and network analysis. We have compiled more than 350 protein interaction resources, and over 150 pathway resources and their features to help scientists choose the best resource (see Startbioinfo).

Illustrative list of tasks
  • Gene Ontology annotations
  • Protein interaction data collection
  • Experimental versus predicted interactions
  • Pathway analysis
  • Pathway overlay with genes of interest
  • Significance analysis
  • Molecular interaction network construction based on correlated GO terms and pathways
  • Transcription factor binding site analysis
  • Molecular interaction network construction
  • Co-expression network construction
Example(s) of completed projects
  • Protein interaction and pathway analysis applied to mass spec and microarray data in the context of a human disease for an academic research group, Mumbai, India.
Relevant publications
  • Tumour Biol. 2016 Apr;37(4):4409-20
  • Fertil Steril. 2014 Jan;101(1):95-104.e3.
  • PLoS One. 2013;8(3):e58419.
In house research
  • Development of a new computational platform for protein-interaction analysis.
  • Comparative analysis of resources for protein-interactions and pathways.
  • A detailed compilation of resources along with features for protein-protein interactions and pathways, and various integrated functional analysis (

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