{ "bcoid": "GLY_000355", "title": "HCV1a Protein Citations (UniProtKB)", "description": "The Hepatitis C virus (genotype 1a, isolate H) Protein Citations dataset contains publication information ...", "filename": "hcv1a_protein_citations_uniprotkb.csv", "filetype": "csv", "categories": { "species": "Hepatitis C virus (genotype 1a, isolate H)", "molecule": "Protein", "tags": "Protein Citations", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "P0C045-1...", "Characteriza..." ], [ "P0C045-1...", "The hepatiti..." ] ], "headers": [ "uniprotkb_ca...", "title..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "title" }, { "type": "string", "label": "journal_name" }, { "type": "string", "label": "publication_date" }, { "type": "string", "label": "authors" }, { "type": "string", "label": "xref_key" }, { "type": "string", "label": "xref_id" }, { "type": "string", "label": "src_xref_key" }, { "type": "string", "label": "src_xref_id" } ], [ "P0C045-1", "Characterization of the expression of the hepatitis C virus F protein.", "J. Gen. Virol.", "2003", "Dubuisson J., Roussel J., Cahour A., Duverlie G., Montpellier C., Pillez A., Wychowski C.", "protein_xref_pubmed", "12810869", "protein_xref_uniprotkb", "P0C045" ], [ "P0C045-1", "The hepatitis C virus alternate reading frame (ARF) and its family of novel products: the alternate reading frame protein/F-protein, the double-frameshift protein, and others.", "Semin. Liver Dis.", "2005", "Eng F., Gutierrez J.A., Walewski J.L., Stump D.D., Branch A.D.", "protein_xref_pubmed", "15732002", "protein_xref_uniprotkb", "P0C045" ], [ "P0C045-1", "Genomic structure of the human prototype strain H of hepatitis C virus: comparison with American and Japanese isolates.", "Proc. Natl. Acad. Sci. U.S.A.", "1991", "Inchauspe G., Lee D.H.H., Nasoff M., Prince A.M., Sugitani M., Zebedee S.", "protein_xref_pubmed", "1658800", "protein_xref_uniprotkb", "P0C045" ], [ "P0C045-1", "Transmission of hepatitis C by intrahepatic inoculation with transcribed RNA.", "Science", "1997", "Rice C.M., Feinstone S.M., Mihalik K., Blight K.J., Agapov E.V., Kolykhalov A.A.", "protein_xref_pubmed", "9228008", "protein_xref_uniprotkb", "P0C045" ], [ "P27958-1", "Protein kinase C-related kinase 2 regulates hepatitis C virus RNA polymerase function by phosphorylation.", "J. Biol. Chem.", "2004", "Kim S.J., Kim J.H., Kim Y.G., Oh J.W., Lim H.S.", "protein_xref_pubmed", "15364941", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Hepatitis C virus protease NS3/4A cleaves mitochondrial antiviral signaling protein off the mitochondria to evade innate immunity.", "Proc. Natl. Acad. Sci. U.S.A.", "2005", "Sun L., Chen Z.J., Seth R.B., Pineda G., Li X.D.", "protein_xref_pubmed", "16301520", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Hepatitis C virus NS5A protein modulates transcription through a novel cellular transcription factor SRCAP.", "J. Biol. Chem.", "2000", "Ghosh A.K., Yaciuk P., Ray R., Chrivia J., Majumder M., Ray R.B., Steele R.", "protein_xref_pubmed", "10702287", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Identification of a novel protein binding to hepatitis C virus core protein.", "J. Gastroenterol. Hepatol.", "2009", "Liu M., Zhang X., Shi L., Chen T.Y., Chen Y.R., Dang S.S., Lin S.M., Ye F., Zhang S.L., Zhao Y.R.", "protein_xref_pubmed", "19486448", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "An RNA-binding protein, hnRNP A1, and a scaffold protein, septin 6, facilitate hepatitis C virus replication.", "J. Virol.", "2007", "Kim C.S., Park J.H., Jang S.K., Seol S.K., Song O.-K.", "protein_xref_pubmed", "17229681", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Interaction between complement receptor gC1qR and hepatitis C virus core protein inhibits T-lymphocyte proliferation.", "J. Clin. Invest.", "2000", "Yao Z.Q., Braciale T.J., Chianese-Bullock K.A., Hahn Y.S., Kittlesen D.J.", "protein_xref_pubmed", "11086025", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "The SH3 binding motif of HCV NS5A protein interacts with Bin1 and is important for apoptosis and infectivity.", "Gastroenterology", "2006", "Herion D., Liang T.J., Nanda S.K.", "protein_xref_pubmed", "16530520", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Cell entry of hepatitis C virus requires a set of co-receptors that include the CD81 tetraspanin and the SR-B1 scavenger receptor.", "J. Biol. Chem.", "2003", "Cortese R., Cosset F.-L., Bartosch B., Dubuisson J., Goujon C., Granier C., Nicosia A., Pascale S., Scarselli E., Vitelli A.", "protein_xref_pubmed", "12913001", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "CD81-dependent binding of hepatitis C virus E1E2 heterodimers.", "J. Virol.", "2003", "Levy S., Cocquerel L., Dubuisson J., Kuo C.-C.", "protein_xref_pubmed", "12970454", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "L-SIGN (CD209L) and DC-SIGN (CD209) mediate transinfection of liver cells by hepatitis C virus.", "Proc. Natl. Acad. Sci. U.S.A.", "2004", "Dragic T., Boussemart L., Cormier E.G., Durso R.J., Gardner J.P., Manix C., Olson W.C., Tsamis F.", "protein_xref_pubmed", "15371595", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Infectious hepatitis C virus pseudo-particles containing functional E1-E2 envelope protein complexes.", "J. Exp. Med.", "2003", "Cosset F.-L., Bartosch B., Dubuisson J.", "protein_xref_pubmed", "12615904", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "ISG12a Restricts Hepatitis C Virus Infection through the Ubiquitination-Dependent Degradation Pathway.", "J. Virol.", "2016", "Chen S., Wang J., Wang X., Zhu H., Tian R., Xu Y., Yang D., Qin Y., Xie Q., Liu N., Xue B.", "protein_xref_pubmed", "27194766", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Identification of the major phosphorylation site of the hepatitis C virus H strain NS5A protein as serine 2321.", "J. Biol. Chem.", "1999", "Rice C.M., Reed K.E.", "protein_xref_pubmed", "10488152", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Properties of the hepatitis C virus core protein: a structural protein that modulates cellular processes.", "J. Viral Hepat.", "2000", "McLauchlan J.", "protein_xref_pubmed", "10718937", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Charged residues in the transmembrane domains of hepatitis C virus glycoproteins play a major role in the processing, subcellular localization, and assembly of these envelope proteins.", "J. Virol.", "2000", "Cocquerel L., Dubuisson J., Minner F., Penin F., Wychowski C.", "protein_xref_pubmed", "10729138", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "The transmembrane domain of the hepatitis C virus E2 glycoprotein is required for correct folding of the E1 glycoprotein and native complex formation.", "Virology", "2001", "Patel A.H., Patel J., McLauchlan J.", "protein_xref_pubmed", "11145889", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Conservation of the conformation and positive charges of hepatitis C virus E2 envelope glycoprotein hypervariable region 1 points to a role in cell attachment.", "J. Virol.", "2001", "Deleage G., Combet C., Frainais P.-O., Germanidis G., Pawlotsky J.-M., Penin F.", "protein_xref_pubmed", "11356980", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Determinants for membrane association of the hepatitis C virus RNA-dependent RNA polymerase.", "J. Biol. Chem.", "2001", "Rice C.M., Moradpour D., Schmidt-Mende J., Blum H.E., Bieck E., Huegle T., Penin F.", "protein_xref_pubmed", "11557752", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "An amino-terminal amphipathic alpha-helix mediates membrane association of the hepatitis C virus nonstructural protein 5A.", "J. Biol. Chem.", "2002", "Moradpour D., Blum H.E., Bieck E., Brass V., Hellings J.A., Montserret R., Penin F., Woelk B.", "protein_xref_pubmed", "11744739", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Hepatitis C virus (HCV) NS5A binds RNA-dependent RNA polymerase (RdRP) NS5B and modulates RNA-dependent RNA polymerase activity.", "J. Biol. Chem.", "2002", "Kobayashi K., Qin W., Kaneko S., Luo H., Yamashita T., Murakami S., Shirota Y.", "protein_xref_pubmed", "11801599", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Solution structure and backbone dynamics of an engineered arginine-rich subdomain 2 of the hepatitis C virus NS3 RNA helicase.", "J. Mol. Biol.", "2001", "Liu D., Wyss D.F., Wang Y.-S., Gesell J.J.", "protein_xref_pubmed", "11846566", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Subcellular localization and topology of the p7 polypeptide of hepatitis C virus.", "J. Virol.", "2002", "Cocquerel L., Dubuisson J., Carrere-Kremer S., Montpellier-Pala C., Penin F., Wychowski C.", "protein_xref_pubmed", "11907211", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Expression of hepatitis C virus proteins induces distinct membrane alterations including a candidate viral replication complex.", "J. Virol.", "2002", "Bianchi L., Moradpour D., Blum H.E., Bienz K., Egger D., Gosert R., Woelk B.", "protein_xref_pubmed", "12021330", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Topological changes in the transmembrane domains of hepatitis C virus envelope glycoproteins.", "EMBO J.", "2002", "Cocquerel L., Dubuisson J., Roussel J., Delgrange D., Lambot M., Op de Beeck A., Penin F., Pillez A., Wychowski C.", "protein_xref_pubmed", "12065403", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Pyrrolidine-5,5-trans-lactams. 2. The use of X-ray crystal structure data in the optimization of P3 and P4 substituents.", "Org. Lett.", "2002", "Mills G., Johnson M.R., Jones P.S., Somers D.O., Andrews D.M., Chaignot H., Coomber B.A., Good A.C., Hind S.L., Robinson J.E., Skarzynski T., Slater M.J.", "protein_xref_pubmed", "12465917", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "The p7 protein of hepatitis C virus forms an ion channel that is blocked by the antiviral drug, Amantadine.", "FEBS Lett.", "2003", "Jaeger J., Harris M.P., Beales L.P., Clarke D.S., Evans S.D., Griffin S.D., Rowlands D.J., Worsfold O.", "protein_xref_pubmed", "12560074", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Protein-protein interactions between hepatitis C virus nonstructural proteins.", "J. Virol.", "2003", "Schuster C., Kieny M.P., Dimitrova M., Imbert I.", "protein_xref_pubmed", "12692242", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Topology of the membrane-associated hepatitis C virus protein NS4B.", "J. Virol.", "2003", "Monne M., Lundin M., Persson M.A.A., Von Heijne G., Widell A.", "protein_xref_pubmed", "12692244", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Identification of the hepatitis C virus RNA replication complex in Huh-7 cells harboring subgenomic replicons.", "J. Virol.", "2003", "Bartenschlager R., Moradpour D., Blum H.E., Lohmann V., Bienz K., Egger D., Gosert R.", "protein_xref_pubmed", "12692249", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "The hepatitis C virus p7 protein forms an ion channel that is inhibited by long-alkyl-chain iminosugar derivatives.", "Proc. Natl. Acad. Sci. U.S.A.", "2003", "Dwek R.A., Zitzmann N., Blumberg B., Pavlovic D., Argaud O., Fischer W.B., Neville D.C.", "protein_xref_pubmed", "12719519", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "The p7 polypeptide of hepatitis C virus is critical for infectivity and contains functionally important genotype-specific sequences.", "Proc. Natl. Acad. Sci. U.S.A.", "2003", "Purcell R.H., Sakai A., Bukh J., Claire M.S., Emerson S.U., Faulk K., Govindarajan S.", "protein_xref_pubmed", "14504405", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Induction of FAS ligand expression in a human hepatoblastoma cell line by HCV core protein.", "Virus Res.", "2003", "Ruggieri A., Murdolo M., Rapicetta M.", "protein_xref_pubmed", "14602201", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Structural biology of hepatitis C virus.", "Hepatology", "2004", "Dubuisson J., Rey F.A., Moradpour D., Pawlotsky J.-M., Penin F.", "protein_xref_pubmed", "14752815", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Characterization of functional hepatitis C virus envelope glycoproteins.", "J. Virol.", "2004", "Cosset F.-L., Bartosch B., Cocquerel L., Dubuisson J., Voisset C., Ciczora Y., Foung S., Keck Z., Op De Beeck A.", "protein_xref_pubmed", "14990718", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Regulation of hepatitis C virus polyprotein processing by signal peptidase involves structural determinants at the p7 sequence junctions.", "J. Biol. Chem.", "2004", "Cocquerel L., Dubuisson J., Lorenzo L., Belouzard S., Brulin B., Carrere-Kremer S., Montpellier C., Penin F.", "protein_xref_pubmed", "15247249", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Analysis of the processing and transmembrane topology of the E2p7 protein of hepatitis C virus.", "J. Gen. Virol.", "2005", "Patel A.H., Isherwood B.J.", "protein_xref_pubmed", "15722527", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "The membrane-active regions of the hepatitis C virus E1 and E2 envelope glycoproteins.", "Biochemistry", "2006", "Guillen J., Bernabeu A., Moreno M.R., Perez-Berna A.J., Villalain J.", "protein_xref_pubmed", "16533059", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Genomic structure of the human prototype strain H of hepatitis C virus: comparison with American and Japanese isolates.", "Proc. Natl. Acad. Sci. U.S.A.", "1991", "Inchauspe G., Lee D.H.H., Nasoff M., Prince A.M., Sugitani M., Zebedee S.", "protein_xref_pubmed", "1658800", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Palmitoylation and polymerization or in protein-protein interactions of hepatitis C virus NS4B protein.", "J. Virol.", "2006", "Gao L., Lai M.M.C., Lee K.-J., Yu G.-Y.", "protein_xref_pubmed", "16731940", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Structure of the catalytic domain of the hepatitis C virus NS2-3 protease.", "Nature", "2006", "Rice C.M., Marcotrigiano J., Dentzer T.G., Lorenz I.C.", "protein_xref_pubmed", "16862121", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Entry of hepatitis C virus pseudotypes into primary human hepatocytes by clathrin-dependent endocytosis.", "J. Gen. Virol.", "2006", "Baumert T.F., Royer C., Jaeck D., Kieny M.P., Bastien-Valle M., Codran A., Martin J.P., Pereira C.A.", "protein_xref_pubmed", "16894197", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Molecular and structural characterization of the domain 2 of hepatitis C virus non-structural protein 5A.", "Mol. Cells", "2006", "Liang Y., Kang C.B., Yoon H.S.", "protein_xref_pubmed", "16951545", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Dual topology of the processed hepatitis C virus protein NS4B is influenced by the NS5A protein.", "J. Gen. Virol.", "2006", "Lindstrom H., Groenwall C., Lundin M., Persson M.A.", "protein_xref_pubmed", "17030859", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Conserved determinants for membrane association of nonstructural protein 5A from hepatitis C virus and related viruses.", "J. Virol.", "2007", "Moradpour D., Deleage G., Blum H.E., Brass V., Pal Z., Penin F., Sapay N.", "protein_xref_pubmed", "17192310", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Intracellular proton conductance of the hepatitis C virus p7 protein and its contribution to infectious virus production.", "PLoS Pathog.", "2010", "Yi M., Lemon S.M., Weinman S.A., Harris M., Griffin S., Rowlands D., Wozniak A.L.", "protein_xref_pubmed", "20824094", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Mutations in the STAT1-interacting domain of the hepatitis C virus core protein modulate the response to antiviral therapy.", "Mol. Med. Report.", "2013", "Qadri I., Ahmad T., Afzal M.S., Anjum S., Aslam B., Shafi T., Waheed Y.", "protein_xref_pubmed", "23799612", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "A hepatitis C virus NS4B inhibitor suppresses viral genome replication by disrupting NS4B's dimerization/multimerization as well as its interaction with NS5A.", "Virus Genes", "2013", "Choi M., Lee S., Lee C., Choi T.", "protein_xref_pubmed", "23868571", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Regulation of core expression during the hepatitis C virus life cycle.", "J. Gen. Virol.", "2015", "Dubuisson J., Rouille Y., Belouzard S., Descamps V., Zaidi N., Afzal M.S., Alsaleh K., Danneels A., Duverlie G., Farhat R., Wychowski C.", "protein_xref_pubmed", "25351725", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "pH-dependent conformational changes in the HCV NS3 protein modulate its ATPase and helicase activities.", "PLoS ONE", "2014", "Capaccia A.M., Costa E.C., Mohana-Borges R., Ventura G.T.", "protein_xref_pubmed", "25551442", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Hepatitis C virus p7 mediates membrane-to-membrane adhesion.", "Biochim. Biophys. Acta", "2016", "Lee S., Lee H.R., Lee G.Y., Yoo Y.D.", "protein_xref_pubmed", "27320856", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Hepatitis C virus p7 induces mitochondrial depolarization of isolated liver mitochondria.", "Mol. Med. Report.", "2017", "Kim H.J., Lee H.R., Lee G.Y., Kim W.K., Yoo Y.D., You D.G.", "protein_xref_pubmed", "29039530", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Hepatitis C virus NS4B induces the degradation of TRIF to inhibit TLR3-mediated interferon signaling pathway.", "PLoS Pathog.", "2018", "Zhao Y., Cao X., Ding Q., Liang Y., Zhong J., He Z.", "protein_xref_pubmed", "29782532", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Expression and identification of hepatitis C virus polyprotein cleavage products.", "J. Virol.", "1993", "Lin C., Rice C.M., Feinstone S.M., Grakoui A., Wychowski C.", "protein_xref_pubmed", "7679746", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Both NS3 and NS4A are required for proteolytic processing of hepatitis C virus nonstructural proteins.", "J. Virol.", "1994", "De Francesco R., Tomei L., Failla C.", "protein_xref_pubmed", "8189513", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "A second hepatitis C virus-encoded proteinase.", "Proc. Natl. Acad. Sci. U.S.A.", "1993", "Rice C.M., Feinstone S.M., McCourt D.W., Grakoui A., Wychowski C.", "protein_xref_pubmed", "8248148", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Interaction between hepatitis C virus core protein and E1 envelope protein.", "J. Virol.", "1996", "Selby M.J., Ou J.-H., Lo S.-Y.", "protein_xref_pubmed", "8764026", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Crystal structure of the hepatitis C virus NS3 protease domain complexed with a synthetic NS4A cofactor peptide.", "Cell", "1996", "Lin C., Rice C.M., Morgenstern K.A., Caron P.R., Lepre C.A., Thomson J.A., Fox T., Chambers S.P., Markland W., Dwyer M.D., Kim J.L., Murcko M.A., Landro J.A., Harbeson S.L., O'Malley E.T.", "protein_xref_pubmed", "8861917", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Characterization of the nuclear localization signal and subcellular distribution of hepatitis C virus nonstructural protein NS5A.", "Gene", "1996", "Zhang L., Chen M., Sasaguri Y., Ide Y., Padmanabhan R., Bahl C., Inchauspe G.", "protein_xref_pubmed", "8982089", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Structure of the hepatitis C virus RNA helicase domain.", "Nat. Struct. Biol.", "1997", "Le H.V., Hong Z., Weber P.C., Yao N., Cable M.B., Hesson T., Kwong A.D.", "protein_xref_pubmed", "9187654", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Transmission of hepatitis C by intrahepatic inoculation with transcribed RNA.", "Science", "1997", "Rice C.M., Feinstone S.M., Mihalik K., Blight K.J., Agapov E.V., Kolykhalov A.A.", "protein_xref_pubmed", "9228008", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Transcripts from a single full-length cDNA clone of hepatitis C virus are infectious when directly transfected into the liver of a chimpanzee.", "Proc. Natl. Acad. Sci. U.S.A.", "1997", "Purcell R.H., Yanagi M., Bukh J., Emerson S.U.", "protein_xref_pubmed", "9238047", "protein_xref_uniprotkb", "P27958" ], [ "P27958-1", "Hepatitis C virus NS3 RNA helicase domain with a bound oligonucleotide: the crystal structure provides insights into the mode of unwinding.", "Structure", "1998", "Lin C., Morgenstern K.A., Caron P.R., Thomson J.A., Griffith J.P., Dwyer M.D., Kim J.L., Murcko M.A.", "protein_xref_pubmed", "9493270", "protein_xref_uniprotkb", "P27958" ] ] }, "readme": "Name\n - HCV1a Protein Citations (UniProtKB)\n\nVersion\n - 1.7.13\n\nCreated on\n - 2020-03-13T11:25:59.634509\n\nModified on\n - 2020-04-09T17:33:53.624980\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Rahi Navelkar [rsn13@gwu.edu], Robel Kahsay [rykahsay@gwu.edu]\n\nAuthors\n - Maria Martin [martin@ebi.ac.uk], Preethi Vasudev [pvasudev@ebi.ac.uk]\n\nChecksum\n - \n\nUsability Domain\n - The Hepatitis C virus (genotype 1a, isolate H) Protein Citations dataset contains publication information for hcv1a [taxid:11108] UniProtKB accessions that includes PMID, journal name, date and author and title. Publications of large scale studies, and high frequency publications pertaining to genome sequencing, cDNA, chromosomes have been filtered out as per https://data.glygen.org/ln2data/releases/data/v-1.7.13/compiled/hcv1a_protein_blacklisted_pmids_uniprotkb.csv. The dataset is derived from 2019-05 UniProt release. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen\n\nDescription Domain\n Keywords\n - publications\n - PMID\n - journal\n - citations\n - authors\n - UniProtKB\n - PubMed\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB publication data from the triplestore containing triples from nt file to retrieve the publication information associated with the UniProtKB accession and maps it to the UniProtKB canonical accessions. The script also filters out publications of large scale studies, and high frequency publications pertaining to DNA sequencing, cDNA, chromosomes using blacklisted PMIDs file.\n\nExecution Domain\n Scripts - https://github.com/GW-HIVE/glygen-backend-integration/blob/master/pipeline/integrator/make-protein-dataset.py\n\n\n Software Prerequisites\n Name: Python\n Version: 2.7.5\n URI: https://www.python.org/download/releases/2.7.5/\n\nI/O Domain\n Input Subdomain\n Name: uniprot-proteome-hepatitis-c-virus-1a.nt\n URI: https://data.glygen.org/ln2data/releases/data/v-1.7.13/source/uniprot-proteome-hepatitis-c-virus-1a.nt\n Name: hcv1a_protein_masterlist.csv\n URI: https://data.glygen.org/ln2data/releases/data/v-1.7.13/reviewed/hcv1a_protein_masterlist.csv\n Output Subdomain\n Name: hcv1a_protein_citations_uniprotkb.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.7.13/reviewed/hcv1a_protein_citations_uniprotkb.csv\n Name: hcv1a_protein_citations_uniprotkb.stat.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.7.13/reviewed/hcv1a_protein_citations_uniprotkb.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"2\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"64\"\n Name: \"title\"\n Description: \"Title of the published article in the journal\"\n Unique Values: \"64\"\n Name: \"src_xref_key\"\n Description: \"Source Xref key\"\n Unique Values: \"1\"\n Name: \"src_xref_id\"\n Description: \"Source X-ref ID\"\n Unique Values: \"2\"\n Name: \"journal_name\"\n Description: \"The name of the journal in which the article is published\"\n Unique Values: \"30\"\n Name: \"authors\"\n Description: \"NA\"\n Unique Values: \"64\"\n Name: \"publication_date\"\n Description: \"Contains the full date on which the issue of the journal was published. Sourced from MEDLINE/PubMed data element(fields) description.\"\n Unique Values: \"23\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-1.7.13/reviewed/hcv1a_protein_citations_uniprotkb.csv" }