Home | Site Map | Contact Us | Hindi Version
About Us Services Research Publications Group Leaders RTI Act Awards & Honours Careers Web Mail
 
Dr. H.A.Nagarajaram (On Lien)
Research
LCB Group
Databases & Servers
Publications
Downloadable Datasets
 
Home » Computational Biology » Downloadable Datasets
Computational Biology
Downloadable Datasets
  1. Human Tissue-specific Protein-Protein Interactions (TS-PPI)

    Human TS-PPI is compiled by integrating non-redundant human protein-protein interaction (PPI) data with gene expression data. The union of interactions stored in publicly available, literature curated databases: BioGrid (Stark et al. 2011), DIP (Salwinski et al. 2004) , HPRD (Prasad et al. 2009), IntAct (Aranda et al. 2010) and MINT (Ceol et al. 2010) was considered as human PPI. The microarray gene expression data is available for 84 tissues as ‘Human U133A/GNF1H Gene Atlas’ at BioGPS(http://biogps.org) (Wu et al. 2009). Only 70 normal tissues were considered for TS-PPI and the disease and the fetal tissues were ignored. This dataset is available for download as tab delimited text file (TS-PPI.txt).

  2. Human-Virus (Hu-Vir) pairwise protein-protein interaction (PPI) data

    Human-Virus PPIs were retrieved from databases available on the public domain: PIG (http://pathogenportal.net/pig/) and VirusMINT (http://mint.bio.uniroma2.it/virusmint/Welcome.do), as well as few published research papers: for Vaccinia virus (Zhang et al., 2009), Dengue virus (Khadka et al., 2011), HTLV-1 and HTLV-2 (Simonis et al., 2012). Hu-Vir PPIs from aforementioned data were combined and created a non-redundant dataset after merging multiple strain/isolate specific protein identifiers (Halehalli and Nagarajaram, 2014). This dataset is available for download as tab delimited text file (hu-vir-ppi.tab).

  3. Human-Virus Domain-Domain interactions (Hu-Vir DDIs)

    Hu-Vir PPIs were scanned for Domain-Domain interactions from iPfam (ftp://selab.janelia.org/pub/ipfam) and DOMINE (http://domine.utdallas.edu/cgi-bin/Domine) and identified DDIs between human and viral protein pairs are available for download as tab delimited text file (hu-vir-ddi.txt).

  4. Human-Virus Domain-Motif interactions (Hu-Vir DMIs)

    Hu-Vir PPIs were scanned for domain and eukaryotic linear motif (ELM) interactions between human and viral proteins using linear motif binding domain (LMBD) and ELM associations in ELMdb (http://elm.eu.org/downloads.html#interactions) and predicted associations using iELM (http://i.elm.eu.org/search/). DMIs that are identified between human and viral protein pairs are available for download as tab delimited text file (hu-vir-dmi.txt).

Contact Information
Email: han<at>cdfd.org.in
Phone: +91-40-24749367
Fax: +91-40-24749448
Last updated on: Thursday, 16th March, 2017.

Copyright @ 2008 CDFD.