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Supplementary Information Electronic Supplementary Material (ESI) for Molecular BioSystems. This journal is © The Royal Society of Chemistry 2014 Supplementary Information Supplementary table S1- Hu-PPI and Hu-Vir PPI data before and after the removal of ambiguous and redundant protein identifiers (those with identities >98% and ±20 of protein length in BLAST searches). ‘*’ strains not merged and ‘**’ strains merged. Identity cut off DATA Interactions Interactions after Proteins in BLAST before BLAST BLAST (no. of proteins involved) 98% Hu-PPI 49879 49772 10446 (10658) 98% Hu-Vir PPI 12649 12623 1735 – Human (human (1754 human 763 – Viral proteins) +763 viral) 98% Hu-Vir PPI 12623 9732* 1735 – Human (viral proteins) (1735 human + 518 – Viral 763 viral) 30% Hu-Vir PPI 12623 3389** 1735 – Human (viral proteins) (1735 human 267** – Viral +763 viral) Supplementary table S2 - Salient features of viruses used in the study. This table gives number of proteins encoded by virus, number of Hu-Vir PPI for that virus, virus host or disease caused, site and type of infection caused by virus and virus classification. Virus No. of No. of Virus host /disease Site and type of infection Classification ORFs or Hu- protein Vir encode PPI by virus Adeno associated 7 2 no known disease found in semen ssDNA, virus 2 Parvoviridae Autographa californica 156 1 insect virus coelum dsDNA, nuclear polyhedrosis Baculoviridae virus Avian sarcoma virus NA 2 Bird lymphoma and connective tissue, ssRNA-RT, mammals lymphatic tissue Retroviridae Bovine herpes virus 1 70 1 cattle rhinotracheitis, vaginitis, dsDNA, conjunctivitis Herpesviridae Bovine leukemia virus 6 7 cattle B-cell leukemia ssRNA-RT, Retroviridae Bovine papilloma 8 28 cattle skin, bladder cancer dsDNA, virus 1 Papillomaviridae Bovine papilloma 9 1 cattle skin, bladder cancer dsDNA, virus 2 Papillomaviridae Bovine Rotavirus NA 1 cattle diarrhoea intestinal tract dsRNA, Reoviridae Chicken anemia virus 4 1 birds bone marrow atrophy ssDNA, Circoviridae Cotton tail rabbit 10 5 rabbit skin, bladder cancer dsDNA, papilloma virus Papillomaviridae Dengue virus 7 140 humans, dengue hemorrhagic, fever, (+)ssRNA, fever diarrhoea Flaviviridae Epstein barr virus 94 315 humans, cancer, B-cells and epithelial cells dsDNA, Burkitt's lymphoma Herpesviridae Equine herpes virus 1 NA 1 horse, pneumonia pneumonia, paralysis dsDNA, Herpesviridae Equine herpes virus 4 NA 2 horse conjuctivitis, swollen dsDNA, lymph nodes Herpesviridae Equine infectious 4 1 horse, anemia and break down of blood cells ssRNA-RT, anemia virus fever Retroviridae Foamy virus NA 1 humans, simians, lymhoblastoid, carcinoma ssRNA-RT, camcer Retroviridae Fowl adenovirus A 39 2 fowl, infection respiratory dsDNA, Adenoviridae Hantaan virus 1 4 human, blood vessels, kidney, (-)ssRNA, hemorrhagic fever lungs, liver Bunyaviridae Hepatitis B virus 7 27 humans, hepatitis B liver and pancreas cancer, dsDNA-RT, cirrhosis Hepadnaviridae Hepatitis C virus 2 91 humans, hepatitis C hepatocytes (+)ssRNA, Flaviviridae Hepatitis D virus 2 2 humans, alongwith liver and pancreas cancer, (-)ssRNA, hepatitis B cirrhosis unassigned Hepatitis E virus 10 2 humans, hepatitis E liver (+)ssRNA, Hepeviridae Human adenovirus A 36 19 human, infection respiratory dsDNA, Adenoviridae Human adenovirus B 38 4 human, infection respiratory dsDNA, Adenoviridae Human adenovirus C 38 62 human, infection respiratory dsDNA, Adenoviridae Human adenovirus D 38 1 human, infection respiratory dsDNA, Adenoviridae Human adenovirus E 38 3 human, infection respiratory dsDNA, Adenoviridae Human adenovirus F 34 1 human, infection respiratory dsDNA, Adenoviridae Human entero virus B, 1 1 humans, menigitis brain, meingitis (+)ssRNA, Echovirus Picornaviridae Human herpes virus 3 73 1 humans, mucoepithelial, skin and dsDNA, chickenpox and nerve cells Herpesviridae shingles Human herpes virus 1 77 76 humans, oral and mucoepithelial and nerve dsDNA, genital herpes cells Herpesviridae Human herpes virus 2 77 4 humans, oral and mucoepithelial and nerve dsDNA, genital herpes cells Herpesviridae Human herpes virus 165 6 humans, infectious Monocyte, lymphocyte, dsDNA, 5(cytomegalovirus) mononucleosis-like and epithelial cells Herpesviridae syndrome Human herpes virus 6 104 2 humans, sixth T-cells dsDNA, disease or rose rash Herpesviridae disease Human 15 1399 humans, T-cells SsRNA-RT, immunodeficiency AIDS(global) Retroviridae virus 1 Human 9 85 humans, T-cells ssRNA-RT, immunodeficiency AIDS(west Africa) Retroviridae virus 2 Human Papilloma 9 115 humans, cervical keratinocytes and epithelial dsDNA, virus High risk cancer and warts cells Papillomaviridae Human papilloma 9 53 humans, cervical keratinocytes and epithelial dsDNA, virus type Low Risk cancer and warts cells Papillomaviridae Human T-lymphocytic 6 232 humans, HTLV T-cells, B-cells and ssRNA-RT, virus 1 myelopathy, dendritic cells Retroviridae leukemia Human T-lymphocytic 6 75 humans, HTLV T-cells, B-cells and ssRNA-RT, virus 2 myelopathy dendritic cells Retroviridae Influenza A virus 9 293 humans, Influenza bronchial epithelial cells (-)ssRNA, H1N1 Orthomyxoviridae Influenza A virus 9 2 humans, Influenza bronchial epithelial cells (-)ssRNA, H3N2 Orthomyxoviridae Influenza A virus 9 1 humans, Influenza bronchial epithelial cells (-)ssRNA, H7N3 Orthomyxoviridae JC polyomavirus 6 3 humans, tonsils, gastrointestinal dsDNA, progressive tract, nervous tissue Polyomaviridae multifocal leukoencephalopath y Kaposi sarcoma 2 10 humans, kaposi Lymphocyte dsDNA, associated herpes virus sarcoma Herpesviridae Measles virus 7 6 humans, measles respiratory tract (-)ssRNA, Paramyxoviridae Mokola virus 5 1 humans and nervous system (-)ssRNA, animals, Rhabdoviridae encephalitis Murine adenovirus 26 1 mice, acute CNS hemorrhage in brain and dsDNA, disease spinal cord Adenoviridae Murine herpes virus 4 74 2 mice, infection nasal passages dsDNA, Herpesviridae Murine polyoma virus 6 5 mice, leukemia gangliosides dsDNA, Polyomaviridae Nipah virus 8 1 humans and respiratory and nervous (-)ssRNA, mammals, infection system Paramyxoviridae Orf virus 130 1 sheep and humans, skin dsDNA, Poxvidae sheep pox Papiine herpes virus 75 4 baboon, infection neuro-virulent dsDNA, Herpesviridae Para influenza virus 9 2 humans, Croup respiratory tract (-)ssRNA, Paramyxoviridae Polio virus 1 2 humans, nervous system (+)ssRNA, poliomyelitis Picornaviridae Puumala virus 1 2 human, hemorrhagic fever with (-)ssRNA, hemorrhagic fever renal syndrome Bunyaviridae Rabies virus 5 1 humans and dogs, Nervous system (-)ssRNA, Rabies Rhabdoviridae Rous sarcoma virus 4 9 chicken, sarcoma connective tissue ssRNA-RT, Retroviridae Saimiriine herpesvirus 76 6 sqirrel monkeys, skin and epithelial cells dsDNA, 2 humans in Herpesviridae laboratory SARS 14 4 humans, SARS respiratory tract (+)ssRNA, Coronaviridae Sendai virus 9 1 mammals, infection respiratory tract and lungs (-)ssRNA, Paramyxoviridae Seoul virus NA 3 humans hemorrhagic fever (-)ssRNA, Bunyaviridae Simian 7 2 primates, related to T-cell ssRNA-RT, immunodeficiency HIV Retroviridae virus Simian rotavirus NA 2 primates, diarrhoea gut and intestine dsRNA, Reoviridae Simian virus 40 7 46 primates, latent vacuolating dsDNA, infection Polyomaviridae Stomatitis virus 5 2 mammals(infection cytolytic (-)ssRNA, ), Rhabdoviridae humans(oncolytic) Tula virus 1 1 humans, fever NA (-)ssRNA, Bunyaviridae Vaccinia virus 223 198 humans, smallpox skin dsDNA, Poxvidae vaccine West nile virus 1 1 mammals, nervous system and (+)ssRNA, meningitis and lymphatic tisse Flaviviridae encephalitis Zaire ebolavirus 9 1 humans, endothelial lining and (-)ssRNA, hemorrhage blood vessels Filoviridae Supplementary Figure S1- Venn diagram showing distribution of human proteins in Hu-PPI and Hu-Vir PPI data Supplementary Figure S2 – Gene Ontology (GO) molecular function enrichment for peripheral proteins in Hu-PPI network (a) and 176 human proteins interacting with viruses but not part of Hu-PPI network (b). Supplementary Figure S3 – Gene Ontology (GO) biological process enrichment for peripheral proteins in Hu-PPI network (a) and 176 human proteins interacting with viruses but not part of Hu-PPI network(b). Supplementary Figure S4 – Gene Ontology (GO) cellular component enrichment for peripheral proteins in Hu-PPI network (a) and 176 human proteins interacting with viruses but not part of Hu-PPI network (b)..
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