{ "bcoid": "GLY_000721", "title": "Human Somatic Mutation Citations", "description": "The Human Somatic Mutation Citations contains details of the publication present in the dataset Human ...", "filename": "human_protein_citations_mutation_somatic.csv", "filetype": "csv", "categories": { "species": [ "Homo sapiens" ], "molecule": [ "Protein" ], "tag": [ "Somatic Mutation Citations" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "Q2M3G0-4...", "Exome sequen..." ], [ "P04637-1...", "Comparative ..." ] ], "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" } ], [ "Q2M3G0-4", "Exome sequencing identifies recurrent somatic RAC1 mutations in melanoma.", "Nature genetics", "2012 Sep", "Krauthammer M, Kong Y, Ha BH, Evans P, Bacchiocchi A, McCusker JP, Cheng E, Davis MJ, Goh G, Choi M, Ariyan S, Narayan D, Dutton-Regester K, Capatana A, Holman EC, Bosenberg M, Sznol M, Kluger HM, Brash DE, Stern DF, Materin MA, Lo RS, Mane S, Ma S, Kidd KK, Hayward NK, Lifton RP, Schlessinger J, Boggon TJ, Halaban R", "protein_xref_pubmed", "22842228", "protein_xref_dbsnp", "rs773459085" ], [ "P04637-1", "Comparative analysis of p53 gene mutations and protein accumulation in human non-small-cell lung cancer.", "International journal of cancer", "1995 Apr 21", "Top B, Mooi WJ, Klaver SG, Boerrigter L, Wisman P, Elbers HR, Visser S, Rodenhuis S", "protein_xref_pubmed", "7615358", "protein_xref_dbsnp", "rs28934571" ], [ "Q9BYE9-1", "Mapping the hallmarks of lung adenocarcinoma with massively parallel sequencing.", "Cell", "2012 Sep 14", "Imielinski M, Berger AH, Hammerman PS, Hernandez B, Pugh TJ, Hodis E, Cho J, Suh J, Capelletti M, Sivachenko A, Sougnez C, Auclair D, Lawrence MS, Stojanov P, Cibulskis K, Choi K, de Waal L, Sharifnia T, Brooks A, Greulich H, Banerji S, Zander T, Seidel D, Leenders F, Ansen S, Ludwig C, Engel-Riedel W, Stoelben E, Wolf J, Goparju C, Thompson K, Winckler W, Kwiatkowski D, Johnson BE, Janne PA, Miller VA, Pao W, Travis WD, Pass HI, Gabriel SB, Lander ES, Thomas RK, Garraway LA, Getz G, Meyerson M", "protein_xref_pubmed", "22980975", "protein_xref_dbsnp", "rs774055040" ], [ "Q07075-1", "Exome sequencing identifies recurrent somatic RAC1 mutations in melanoma.", "Nature genetics", "2012 Sep", "Krauthammer M, Kong Y, Ha BH, Evans P, Bacchiocchi A, McCusker JP, Cheng E, Davis MJ, Goh G, Choi M, Ariyan S, Narayan D, Dutton-Regester K, Capatana A, Holman EC, Bosenberg M, Sznol M, Kluger HM, Brash DE, Stern DF, Materin MA, Lo RS, Mane S, Ma S, Kidd KK, Hayward NK, Lifton RP, Schlessinger J, Boggon TJ, Halaban R", "protein_xref_pubmed", "22842228", "protein_xref_dbsnp", "rs538948210" ], [ "Q8IV36-1", "Exome sequencing identifies recurrent somatic RAC1 mutations in melanoma.", "Nature genetics", "2012 Sep", "Krauthammer M, Kong Y, Ha BH, Evans P, Bacchiocchi A, McCusker JP, Cheng E, Davis MJ, Goh G, Choi M, Ariyan S, Narayan D, Dutton-Regester K, Capatana A, Holman EC, Bosenberg M, Sznol M, Kluger HM, Brash DE, Stern DF, Materin MA, Lo RS, Mane S, Ma S, Kidd KK, Hayward NK, Lifton RP, Schlessinger J, Boggon TJ, Halaban R", "protein_xref_pubmed", "22842228", "protein_xref_dbsnp", "rs1235179653" ], [ "Q04609-1", "Frequent mutation of histone-modifying genes in non-Hodgkin lymphoma.", "Nature", "2011 Jul 27", "Morin RD, Mendez-Lago M, Mungall AJ, Goya R, Mungall KL, Corbett RD, Johnson NA, Severson TM, Chiu R, Field M, Jackman S, Krzywinski M, Scott DW, Trinh DL, Tamura-Wells J, Li S, 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Willis JE, Witkin G, Zeng Z, Zinner MJ, Zornig C, Jensen MA, Sfeir R, Kahn AB, Chu AL, Kothiyal P, Wang Z, Snyder EE, Pontius J, Pihl TD, Ayala B, Backus M, Walton J, Whitmore J, Baboud J, Berton DL, Nicholls MC, Srinivasan D, Raman R, Girshik S, Kigonya PA, Alonso S, Sanbhadti RN, Barletta SP, Greene JM, Pot DA, Shaw KR, Dillon LA, Buetow K, Davidsen T, Demchok JA, Eley G, Ferguson M, Fielding P, Schaefer C, Sheth M, Yang L, Guyer MS, Ozenberger BA, Palchik JD, Peterson J, Sofia HJ, Thomson E", "protein_xref_pubmed", "22810696", "protein_xref_dbsnp", "rs61736406" ] ] }, "readme": "Name\n - Human Somatic Mutation Citations\n\nVersion\n - v-2.4.1\n\nCreated on\n - \n\nModified on\n - \n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Luke Johnson [luke.johnson@email.gwu.edu], Urnisha Bhuiyan [sbhuiyan28@email.gwu.edu], Cyrus Au-Yeung [cyruschauyeung@gwu.edu], Jingyue Wu [jingyue.wu@email.gwu.edu]\n\nAuthors\n - \n\nChecksum\n - \n\nUsability Domain\n - The Human Somatic Mutation Citations contains details of the publication present in the dataset Human Somatic Mutation https://data.glygen.org/GLY_000462.\n\nDescription Domain\n Keywords\n - Somatic\n - Mutation\n - Publications\n - Citations\n - PubMed\n\n Pipeline Steps\n - Step-1: The script extracts the PMID from the dataset and uses the Entrez API to retrieve the publication details and extracts in a csv dataset\n\nExecution Domain\n Scripts - https://github.com/glygener/glygen-backend-integration/blob/master/dataset-maker/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: human_protein_mutation_somatic.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/human_protein_mutation_somatic.csv\n Output Subdomain\n Name: human_protein_citations_mutation_somatic.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/human_protein_citations_mutation_somatic.csv\n Name: human_protein_citations_mutation_somatic.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/human_protein_citations_mutation_somatic.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"791\"\n Name: \"title\"\n Description: \"Title of the published article in the journal\"\n Unique Values: \"442\"\n Name: \"journal_name\"\n Description: \"The name of the journal in which the article is published\"\n Unique Values: \"140\"\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: \"352\"\n Name: \"authors\"\n Description: \"NA\"\n Unique Values: \"442\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"1\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"442\"\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: \"941\"", "downloadurl": "/ln2data/releases/data/v-2.4.1/reviewed/human_protein_citations_mutation_somatic.csv" }