{ "bcoid": "GLY_000574", "title": "Rat Proteoform Citations (Literature Mining)", "description": "The dataset provides citation details corresponding to the PubMed ID (PMID) from file https://data.glygen.org/GLYDS000481. ...", "filename": "rat_proteoform_citations_glycosylation_literature_mining.csv", "filetype": "csv", "categories": { "species": "Rattus norvegicus", "molecule": "Proteoform", "tags": "Protein Citations", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "O35433-1...", "Characteriza..." ], [ "P09951-1...", "Glycosylatio..." ] ], "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" }, { "type": "string", "label": "glytoucan_ac" } ], [ "O35433-1", "Characterization of rat transient receptor potential vanilloid 1 receptors lacking the N-glycosylation site N604.", "Neuroreport", "2005 Jun 21", "Wirkner K, Hognestad H, Jahnel R, Hucho F, Illes P", "protein_xref_pubmed", "15931076", "protein_xref_automatic_literature_mining", "15931076", "" ], [ "P09951-1", "Glycosylation sites flank phosphorylation sites on synapsin I: O-linked N-acetylglucosamine residues are localized within domains mediating synapsin I interactions.", "Journal of neurochemistry", "1999 Jul", "Cole RN, Hart GW", "protein_xref_pubmed", "10386995", "protein_xref_automatic_literature_mining", "10386995", "" ], [ "P09951-1", "O-linked beta-N-acetylglucosamine (O-GlcNAc) site thr-87 regulates synapsin I localization to synapses and size of the reserve pool of synaptic vesicles.", "The Journal of biological chemistry", "2014 Feb 7", "Skorobogatko Y, Landicho A, Chalkley RJ, Kossenkov AV, Gallo G, Vosseller K", "protein_xref_pubmed", "24280219", "protein_xref_automatic_literature_mining", "24280219", "" ], [ "P14740-1", "Domain-specific N-glycosylation of the membrane glycoprotein dipeptidylpeptidase IV (CD26) influences its subcellular trafficking, biological stability, enzyme activity and protein folding.", "European journal of biochemistry", "1997 May 15", "Fan H, Meng W, Kilian C, Grams S, Reutter W", "protein_xref_pubmed", "9210490", "protein_xref_automatic_literature_mining", "9210490", "" ], [ "P14925-1", "Topological switching of the COOH-terminal domain of peptidylglycine alpha-amidating monooxygenase by alternative RNA splicing.", "Archives of biochemistry and biophysics", "1993 Feb 15", "Yun HY, Johnson RC, Mains RE, Eipper BA", "protein_xref_pubmed", "7680192", "protein_xref_automatic_literature_mining", "7680192", "" ], [ "P19493-1", "Characterization of the functional role of the N-glycans in the AMPA receptor ligand-binding domain.", "Journal of neurochemistry", "2003 Mar", "Pasternack A, Coleman SK, Fethiere J, Madden DR, LeCaer JP, Rossier J, Pasternack M, Keinanen K", "protein_xref_pubmed", "12603841", "protein_xref_automatic_literature_mining", "12603841", "" ], [ "P48199-1", "Derivation of the amino acid sequence of rat C-reactive protein from cDNA cloning with additional studies on the nature of its dimeric component.", "The Journal of biological chemistry", "1992 Feb 15", "Rassouli M, Sambasivam H, Azadi P, Dell A, Morris HR, Nagpurkar A, Mookerjea S, Murray RK", "protein_xref_pubmed", "1737750", "protein_xref_automatic_literature_mining", "1737750", "" ], [ "P55018-1", "N-Glycosylation at two sites critically alters thiazide binding and activity of the rat thiazide-sensitive Na(+):Cl(-) cotransporter.", "Journal of the American Society of Nephrology : JASN", "2003 Feb", "Hoover RS, Poch E, Monroy A, Vazquez N, Nishio T, Gamba G, Hebert SC", "protein_xref_pubmed", "12538726", "protein_xref_automatic_literature_mining", "12538726", "" ], [ "Q05140-1", "A novel post-translational modification in nerve terminals: O-linked N-acetylglucosamine phosphorylation.", "Journal of proteome research", "2011 Jun 3", "Graham ME, Thaysen-Andersen M, Bache N, Craft GE, Larsen MR, Packer NH, Robinson PJ", "protein_xref_pubmed", "21500857", "protein_xref_automatic_literature_mining", "21500857", "" ] ] }, "readme": "Name\n - Rat Proteoform Citations (Literature Mining)\n\nVersion\n - 1.11.2\n\nCreated on\n - 2021-06-04T10:25:25.298469\n\nModified on\n - 2021-06-04T10:27:27.491930\n\nCreated by\n - Rahi Navelkar [rsn13@gwu.edu], Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Amanda Bell [amandab2140@gwu.edu], Jonathon Keeney [keeneyjg@gwu.edu], Millicent Quartey [mquartey@email.gwu.edu]\n\nAuthors\n - \n\nChecksum\n - \n\nUsability Domain\n - The dataset provides citation details corresponding to the PubMed ID (PMID) from file https://data.glygen.org/GLYDS000481. The script accesses the NCBI ENTREZ infrastructure to retrieve the publication information of the given PMID.\n\nDescription Domain\n Keywords\n - PMID\n - journal\n - citations\n - authors\n - Literature\n - PubMed\n\n Pipeline Steps\n - Step-1: The script parses the input file for PMIDs and accesses the NCBI Entrez infrastructure to download the publication information of the corresponding PMIDs.\n\nExecution Domain\n Scripts - https://github.com/GW-HIVE/glygen-backend-integration/blob/master/pipeline/integrator/make-proteoform-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: rat_proteoform_glycosylation_sites_literature_mining.csv\n URI: https://data.glygen.org//ln2data/releases/data/v-1.11.2/reviewed/rat_proteoform_glycosylation_sites_literature_mining.csv\n Output Subdomain\n Name: rat_proteoform_citations_glycosylation_literature_mining.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.12.1/reviewed/rat_proteoform_citations_glycosylation_literature_mining.csv\n Name: rat_proteoform_citations_glycosylation_literature_mining.stat.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.12.1/reviewed/rat_proteoform_citations_glycosylation_literature_mining.stat.csv", "downloadurl": "/ln2data/releases/data/v-1.12.1/reviewed/rat_proteoform_citations_glycosylation_literature_mining.csv" }