virusppi: Protein-protein interaction (PPI) networks for 5...

In alan-turing-institute/network-comparison: An implementation of the NetEMD alignment-free network distance measure

Protein-protein interaction (PPI) networks for 5 microorganisms

Description

A dataset containing the protein-protein interaction networks for the following 5 microorganisms

• EBV

  • Common name: Epstein Barr virus

  • Scientific name: Human gammaherpesvirus 4

  • TaxonomyID: 10376

• ECL

  • Common name: E.coli

  • Scientific name: Escherichia coli

  • TaxonomyID: 562

• HSV-1

  • Common name: Herpes simplex virus type 1

  • Scientific name: Human alphaherpesvirus 1

  • TaxonomyID: 10298

• KSHV

  • Common name: Karposi's Sarcoma-Associated Herpesvirus

  • Scientific name: Human gammaherpesvirus 8

  • TaxonomyID: 37296

• VZV

  • Common name: Varicella zonster virus

  • Scientific name: Human alphaherpesvirus 3

  • TaxonomyID: 10335

Usage

virusppi

Format

A list of igraph objects.

Source

PPI data (EBV, HSV-1, KSHV, VZV): Fossum E, Friedel CC, Rajagopala SV, Titz B, Baiker A, Schmidt T, et al. (2009) Evolutionarily Conserved Herpesviral Protein Interaction Networks. PLoS Pathog 5(9): e1000570. https://doi.org/10.1371/journal.ppat.1000570. Data from Table S2 in the supporting information.

PPI data (ECL): Peregrín-Alvarez JM, Xiong X, Su C, Parkinson J (2009) The Modular Organization of Protein Interactions in Escherichia coli. PLoS Comput Biol 5(10): e1000523. https://doi.org/10.1371/journal.pcbi.1000523

Taxonomy ground truth: NCBI taxonomy database. https://www.ncbi.nlm.nih.gov/taxonomy

alan-turing-institute/network-comparison documentation built on June 7, 2022, 10:41 p.m.