Table 2.

Sources of biomolecular data for studies on virus-host interactions.

Data types† & Databases	Protein classification	Protein sequence	Protein structure	Protein Interaction	Domain interaction	Genomic sequence	GO terms	PSICQUIC member?	Data source*	References
3DID			∘	•	•		∘	No	[I]	Mosca et al., 2014
BIND	∘			•				Yes	[E]	Bader et al., 2003
BIOGRID				•				Yes	[E] [T]	Chatr-Aryamontri et al., 2015
DIP	∘	∘		•			∘	Yes	[E]	Xenarios et al., 2002
GENERIF				•				No	[E] [T]	Mitchell et al., 2003
HIV-1 Human Protein Interaction		∘		•		•		No	[T]	Ptak et al., 2008
HPIDb				•				Yes	[I] [P]	Kumar and Nanduri, 2010
HPRD	∘	∘	∘	•			∘	Yes	[E]	Prasad et al., 2009
InnateDB				•			∘	Yes	[E] [T]	Lynn et al., 2008
IntAct	•	∘		•			∘	Yes	[E] [T]	Aranda et al., 2010
InterPro	•	∘	∘	∘			∘	–	[E] [I]	Mitchell et al., 2015
iPfam	•		∘	•	•			No	[I]	Finn et al., 2014b
MatrixDB	∘	∘	∘	•			∘	Yes	[E] [P]	Launay et al., 2015
MINT	∘	∘	∘	•			∘	Yes	[E] [T]	Licata et al., 2012
MPPI				•				No	[T]	Pagel et al., 2005
Negatome				•	•			No	[P] [T]	Blohm et al., 2014
NetworKIN				•				No	[P]	Linding et al., 2008
Pfam	•	•	∘	•	•		∘	No	[I] [P]	Finn et al., 2014a
PDB	∘	•	•	•	•		∘	No	[E]	Berman et al., 2000
PQS/PISA			•	•	•			No	[A] [I]	Henrick and Thornton, 1998
Reactome	•			•			∘	Yes	[I] [T]	Joshi-Tope et al., 2005
SCOP	•	•	∘					–	[A] [I]	Andreeva et al., 2014
Superfamily	•	∘				∘	∘	–	[A] [P]	Gough and Chothia, 2002
UniProt	∘	•	∘	∘		•	∘	Yes	[I]	UniProt Consortium, 2014
Viral Genomes NCBI		∘				•		–	[I]	Brister et al., 2015
VirHostNet				•				Yes	[I] [T]	Guirimand et al., 2014
VirusMentha				•				No	[I] [T]	Calderone et al., 2015

^*A, Annotation; E, Experimental data; I, Integration of multiple databases; P, Prediction; T, Text mining.

^†•, primary data type; °, data retrieved from links to secondary sources.