{ "bcoid": "GLY_000696", "title": "Mouse Proteoform O-GlcNAc Glycosylation Citations (MCW)", "description": "The Mouse O-GlcNAc Glycosylation Citations (MCW) dataset contains details of the publication present ...", "filename": "mouse_proteoform_citations_glycosylation_sites_oglcnac_mcw.csv", "filetype": "csv", "categories": { "species": [ "Mus musculus" ], "molecule": [ "Proteoform" ], "tag": [ "Protein Citations O-GlcNAc (MCW)" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "A0A075B5R4-1...", "O-GlcNAcylat..." ], [ "A0A075B5V1-1...", "O-GlcNAcylat..." ] ], "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": 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"A2AIV2-1", "O-GlcNAcylation Is Essential for Rapid Pomc Expression and Cell Proliferation in Corticotropic Tumor Cells.", "Endocrinology", "2021 Dec 1", "Massman LJ, Pereckas M, Zwagerman NT, Olivier-Van Stichelen S", "protein_xref_pubmed", "34418053", "protein_xref_oglcnac_db", "A2AIV2", "G49108TO" ], [ "A2AJ72-1", "The New Chemical Reporter 6-Alkynyl-6-deoxy-GlcNAc Reveals O-GlcNAc Modification of the Apoptotic Caspases That Can Block the Cleavage/Activation of Caspase-8.", "Journal of the American Chemical Society", "2017 Jun 14", "Chuh KN, Batt AR, Zaro BW, Darabedian N, Marotta NP, Brennan CK, Amirhekmat A, Pratt MR", "protein_xref_pubmed", "28528544", "protein_xref_oglcnac_db", "A2AJ72", "G49108TO" ], [ "A2AJ72-1", "The Small Molecule 2-Azido-2-deoxy-glucose Is a Metabolic Chemical Reporter of O-GlcNAc Modifications in Mammalian Cells, Revealing an Unexpected Promiscuity of O-GlcNAc Transferase.", "ACS chemical biology", "2017 Mar 17", "Zaro BW, Batt AR, Chuh KN, Navarro MX, Pratt MR", "protein_xref_pubmed", "28135057", "protein_xref_oglcnac_db", "A2AJ72", "G49108TO" ], [ "A2AJ76-1", "O-GlcNAcylation Is Essential for Rapid Pomc Expression and Cell Proliferation in Corticotropic Tumor Cells.", "Endocrinology", "2021 Dec 1", "Massman LJ, Pereckas M, Zwagerman NT, Olivier-Van Stichelen S", "protein_xref_pubmed", "34418053", "protein_xref_oglcnac_db", "A2AJ76", "G49108TO" ], [ "A2AJA9-1", "Novel Antibodies for the Simple and Efficient Enrichment of Native O-GlcNAc Modified Peptides.", "Molecular & cellular proteomics : MCP", "2021", "Burt RA, Dejanovic B, Peckham HJ, Lee KA, Li X, Ounadjela JR, Rao A, Malaker SA, Carr SA, Myers SA", "protein_xref_pubmed", "34678516", "protein_xref_oglcnac_db", "A2AJA9", "G49108TO" ], [ "A2AJA9-1", "O-GlcNAcylation regulates dopamine neuron function, survival and degeneration in Parkinson disease.", "Brain : a journal of neurology", "2020 Dec 1", "Lee BE, Kim HY, Kim HJ, Jeong H, Kim BG, Lee HE, Lee J, Kim HB, Lee SE, Yang YR, Yi EC, Hanover JA, Myung K, Suh PG, Kwon T, Kim JI", "protein_xref_pubmed", "33300544", "protein_xref_oglcnac_db", "A2AJA9", "G49108TO" ], [ "A2AJA9-1", "Global identification and characterization of both O-GlcNAcylation and phosphorylation at the murine synapse.", "Molecular & cellular proteomics : MCP", "2012 Aug", "Trinidad JC, Barkan DT, Gulledge BF, Thalhammer A, Sali A, Schoepfer R, Burlingame AL", "protein_xref_pubmed", "22645316", "protein_xref_oglcnac_db", "A2AJA9", "G49108TO" ], [ "A2AJI0-1", "The Small Molecule 2-Azido-2-deoxy-glucose Is a Metabolic Chemical Reporter of O-GlcNAc Modifications in Mammalian Cells, Revealing an Unexpected Promiscuity of O-GlcNAc Transferase.", "ACS chemical biology", "2017 Mar 17", "Zaro BW, Batt AR, Chuh KN, Navarro MX, Pratt MR", "protein_xref_pubmed", "28135057", "protein_xref_oglcnac_db", "A2AJI0", "G49108TO" ], [ "A2AJI0-1", "First comprehensive identification of cardiac proteins with putative increased O-GlcNAc levels during pressure overload hypertrophy.", "PloS one", "2022", "Zhu Wei Zhong, Palazzo Teresa, Zhou Mowei, Ledee Dolena, Olson Heather M, Pa\u0161a-Toli\u0107 Ljiljana, Olson Aaron K", "protein_xref_pubmed", "36288343", "protein_xref_oglcnac_db", "A2AJI0", "G49108TO" ], [ "A2AJI0-1", "The New Chemical Reporter 6-Alkynyl-6-deoxy-GlcNAc Reveals O-GlcNAc Modification of the Apoptotic Caspases That Can Block the Cleavage/Activation of Caspase-8.", "Journal of the American Chemical Society", "2017 Jun 14", "Chuh KN, Batt AR, Zaro BW, Darabedian N, Marotta NP, Brennan CK, Amirhekmat A, Pratt MR", "protein_xref_pubmed", "28528544", "protein_xref_oglcnac_db", "A2AJI0", "G49108TO" ], [ "A2AJI0-1", "Global identification and characterization of both O-GlcNAcylation and phosphorylation at the murine synapse.", "Molecular & cellular proteomics : MCP", "2012 Aug", "Trinidad JC, Barkan DT, Gulledge BF, Thalhammer A, Sali A, Schoepfer R, Burlingame AL", "protein_xref_pubmed", "22645316", "protein_xref_oglcnac_db", "A2AJI0", "G49108TO" ], [ "A2AKB4-1", "Tandem mass spectrometry identifies many mouse brain O-GlcNAcylated proteins including EGF domain-specific O-GlcNAc transferase targets.", "Proceedings of the National Academy of Sciences of the United States of America", "2012 May 8", "Alfaro JF, Gong CX, Monroe ME, Aldrich JT, Clauss TR, Purvine SO, Wang Z, Camp DG 2nd, Shabanowitz J, Stanley P, Hart GW, Hunt DF, Yang F, Smith RD", "protein_xref_pubmed", "22517741", "protein_xref_oglcnac_db", "A2AKB4", "G49108TO" ], [ "A2AKB9-1", "O-GlcNAcylation site mapping by (azide-alkyne) click chemistry and mass spectrometry following intensive fractionation of skeletal muscle cells proteins.", "Journal of proteomics", "2018 Aug 30", "Deracinois B, Camoin L, Lambert M, Boyer JB, Dupont E, Bastide B, Cieniewski-Bernard C", "protein_xref_pubmed", "30016717", "protein_xref_oglcnac_db", "A2AKB9", "G49108TO" ], [ "A2AKX3-1", "O-GlcNAcylation Is Essential for Rapid Pomc Expression and Cell Proliferation in Corticotropic Tumor Cells.", "Endocrinology", "2021 Dec 1", "Massman LJ, Pereckas M, Zwagerman NT, Olivier-Van Stichelen S", "protein_xref_pubmed", "34418053", "protein_xref_oglcnac_db", "A2AKX3", "G49108TO" ], [ "A2AKX3-1", "Chemoproteomic and Transcriptomic Analysis Reveals that O-GlcNAc Regulates Mouse Embryonic Stem Cell Fate through the Pluripotency Network.", "Angewandte Chemie (International ed. in English)", "2023-02-27", "Hao Yi, Li Xiang, Qin Ke, Shi Yujie, He Yanwen, Zhang Che, Cheng Bo, Zhang Xiwen, Hu Guangyu, Liang Shuyu, Tang Qi, Chen Xing", "protein_xref_pubmed", "36852467", "protein_xref_oglcnac_db", "A2AKX3", "G49108TO" ], [ "A2ALS5-1", "O-GlcNAcylation regulates dopamine neuron function, survival and degeneration in Parkinson disease.", "Brain : a journal of neurology", "2020 Dec 1", "Lee BE, Kim HY, Kim HJ, Jeong H, Kim BG, Lee HE, Lee J, Kim HB, Lee SE, Yang YR, Yi EC, Hanover JA, Myung K, Suh PG, Kwon T, Kim JI", "protein_xref_pubmed", "33300544", "protein_xref_oglcnac_db", "A2ALS5", "G49108TO" ], [ "A2ALS5-1", "Global identification and characterization of both O-GlcNAcylation and phosphorylation at the murine synapse.", "Molecular & cellular proteomics : MCP", "2012 Aug", "Trinidad JC, Barkan DT, Gulledge BF, Thalhammer A, Sali A, Schoepfer R, Burlingame AL", "protein_xref_pubmed", "22645316", "protein_xref_oglcnac_db", "A2ALS5", "G49108TO" ], [ "A2AMM0-1", "First comprehensive identification of cardiac proteins with putative increased O-GlcNAc levels during pressure overload hypertrophy.", "PloS one", "2022", "Zhu Wei Zhong, Palazzo Teresa, Zhou Mowei, Ledee Dolena, Olson Heather M, Pa\u0161a-Toli\u0107 Ljiljana, Olson Aaron K", "protein_xref_pubmed", "36288343", "protein_xref_oglcnac_db", "A2AMM0", "G49108TO" ], [ "A2AN08-1", "O-GlcNAcylation regulates dopamine neuron function, survival and degeneration in Parkinson disease.", "Brain : a journal of neurology", "2020 Dec 1", "Lee BE, Kim HY, Kim HJ, Jeong H, Kim BG, Lee HE, Lee J, Kim HB, Lee SE, Yang YR, Yi EC, Hanover JA, Myung K, Suh PG, Kwon T, Kim JI", "protein_xref_pubmed", "33300544", "protein_xref_oglcnac_db", "A2AN08", "G49108TO" ], [ "A2AN08-1", "Global identification and characterization of both O-GlcNAcylation and phosphorylation at the murine synapse.", "Molecular & cellular proteomics : MCP", "2012 Aug", "Trinidad JC, Barkan DT, Gulledge BF, Thalhammer A, Sali A, Schoepfer R, Burlingame AL", "protein_xref_pubmed", "22645316", "protein_xref_oglcnac_db", "A2AN08", "G49108TO" ], [ "A2APB8-1", "The New Chemical Reporter 6-Alkynyl-6-deoxy-GlcNAc Reveals O-GlcNAc Modification of the Apoptotic Caspases That Can Block the Cleavage/Activation of Caspase-8.", "Journal of the American Chemical Society", "2017 Jun 14", "Chuh KN, Batt AR, Zaro BW, Darabedian N, Marotta NP, Brennan CK, Amirhekmat A, Pratt MR", "protein_xref_pubmed", "28528544", "protein_xref_oglcnac_db", "A2APB8", "G49108TO" ], [ "A2APQ6-1", "Dynamic eIF3a O-GlcNAcylation controls translation reinitiation during nutrient stress.", "Nature chemical biology", "2022 Feb", "Shu XE, Mao Y, Jia L, Qian SB", "protein_xref_pubmed", "34887587", "protein_xref_oglcnac_db", "A2APQ6", "G49108TO" ], [ "A2APX8-1", "O-GlcNAcylation regulates dopamine neuron function, survival and degeneration in Parkinson disease.", "Brain : a journal of neurology", "2020 Dec 1", "Lee BE, Kim HY, Kim HJ, Jeong H, Kim BG, Lee HE, Lee J, Kim HB, Lee SE, Yang YR, Yi EC, Hanover JA, Myung K, Suh PG, Kwon T, Kim JI", "protein_xref_pubmed", "33300544", "protein_xref_oglcnac_db", "A2APX8", "G49108TO" ], [ "A2AQ19-1", "O-GlcNAcylation Is Essential for Rapid Pomc Expression and Cell Proliferation in Corticotropic Tumor Cells.", "Endocrinology", "2021 Dec 1", "Massman LJ, Pereckas M, Zwagerman NT, Olivier-Van Stichelen S", "protein_xref_pubmed", "34418053", "protein_xref_oglcnac_db", "A2AQ19", "G49108TO" ], [ "A2AQ25-1", "Novel Antibodies for the Simple and Efficient Enrichment of Native O-GlcNAc Modified Peptides.", "Molecular & cellular proteomics : MCP", "2021", "Burt RA, Dejanovic B, Peckham HJ, Lee KA, Li X, Ounadjela JR, Rao A, Malaker SA, Carr SA, Myers SA", "protein_xref_pubmed", "34678516", "protein_xref_oglcnac_db", "A2AQ25", "G49108TO" ], [ "A2AQ25-1", "Tandem mass spectrometry identifies many mouse brain O-GlcNAcylated proteins including EGF domain-specific O-GlcNAc transferase targets.", "Proceedings of the National Academy of Sciences of the United States of America", "2012 May 8", "Alfaro JF, Gong CX, Monroe ME, Aldrich JT, Clauss TR, Purvine SO, Wang Z, Camp DG 2nd, Shabanowitz J, Stanley P, Hart GW, Hunt DF, Yang F, Smith RD", "protein_xref_pubmed", "22517741", "protein_xref_oglcnac_db", "A2AQ25", "G49108TO" ], [ "A2AQ25-1", "O-linked N-acetylglucosamine proteomics of postsynaptic density preparations using lectin weak affinity chromatography and mass spectrometry.", "Molecular & cellular proteomics : MCP", "2006 May", "Vosseller K, Trinidad JC, Chalkley RJ, Specht CG, Thalhammer A, Lynn AJ, Snedecor JO, Guan S, Medzihradszky KF, Maltby DA, Schoepfer R, Burlingame AL", "protein_xref_pubmed", "16452088", "protein_xref_oglcnac_db", "A2AQ25", "G49108TO" ], [ "A2AQ25-1", "Global identification and characterization of both O-GlcNAcylation and phosphorylation at the murine synapse.", "Molecular & cellular proteomics : MCP", "2012 Aug", "Trinidad JC, Barkan DT, Gulledge BF, Thalhammer A, Sali A, Schoepfer R, Burlingame AL", "protein_xref_pubmed", "22645316", "protein_xref_oglcnac_db", "A2AQ25", "G49108TO" ], [ "A2AQ25-1", "Chemoproteomic and Transcriptomic Analysis Reveals that O-GlcNAc Regulates Mouse Embryonic Stem Cell Fate through the Pluripotency Network.", "Angewandte Chemie (International ed. in English)", "2023-02-27", "Hao Yi, Li Xiang, Qin Ke, Shi Yujie, He Yanwen, Zhang Che, Cheng Bo, Zhang Xiwen, Hu Guangyu, Liang Shuyu, Tang Qi, Chen Xing", "protein_xref_pubmed", "36852467", "protein_xref_oglcnac_db", "A2AQ25", "G49108TO" ], [ "A2AQ25-1", "Defining the Dynamic Regulation of O-GlcNAc Proteome in the Mouse Cortex---the O-GlcNAcylation of Synaptic and Trafficking Proteins Related to Neurodegenerative Diseases.", "Frontiers in aging", "2021", "Huynh Van N, Wang Sheng, Ouyang Xiaosen, Wani Willayat Y, Johnson Michelle S, Chacko Balu K, Jegga Anil G, Qian Wei-Jun, Chatham John C, Darley-Usmar Victor M, Zhang Jianhua", "protein_xref_pubmed", "35822049", "protein_xref_oglcnac_db", "A2AQ25", "G49108TO" ], [ "A2AQH4-1", "Novel Antibodies for the Simple and Efficient Enrichment of Native O-GlcNAc Modified Peptides.", "Molecular & cellular proteomics : MCP", "2021", "Burt RA, Dejanovic B, Peckham HJ, Lee KA, Li X, Ounadjela JR, Rao A, Malaker SA, Carr SA, Myers SA", "protein_xref_pubmed", "34678516", "protein_xref_oglcnac_db", "A2AQH4", "G49108TO" ], [ "A2AQH4-1", "Chemoproteomic and Transcriptomic Analysis Reveals that O-GlcNAc Regulates Mouse Embryonic Stem Cell Fate through the Pluripotency Network.", "Angewandte Chemie (International ed. in English)", "2023-02-27", "Hao Yi, Li Xiang, Qin Ke, Shi Yujie, He Yanwen, Zhang Che, Cheng Bo, Zhang Xiwen, Hu Guangyu, Liang Shuyu, Tang Qi, Chen Xing", "protein_xref_pubmed", "36852467", "protein_xref_oglcnac_db", "A2AQH4", "G49108TO" ], [ "A2AQH4-1", "O-GlcNAcylation is required for B cell homeostasis and antibody responses.", "Nature communications", "2017 Nov 30", "Wu JL, Chiang MF, Hsu PH, Tsai DY, Hung KH, Wang YH, Angata T, Lin KI", "protein_xref_pubmed", "29187734", "protein_xref_oglcnac_db", "A2AQH4", "G49108TO" ], [ "A2AQP0-1", "O-GlcNAcylation Is Essential for Rapid Pomc Expression and Cell Proliferation in Corticotropic Tumor Cells.", "Endocrinology", "2021 Dec 1", "Massman LJ, Pereckas M, Zwagerman NT, Olivier-Van Stichelen S", "protein_xref_pubmed", "34418053", "protein_xref_oglcnac_db", "A2AQP0", "G49108TO" ] ] }, "readme": "Name\n - Mouse Proteoform O-GlcNAc Glycosylation Citations (MCW)\n\nVersion\n - v-2.3.1\n\nCreated on\n - 2022-09-06T16:49:22.879070\n\nModified on\n - 2023-03-14T17:13:05.482Z\n\nCreated by\n - [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Jingyue Wu [jingyue.wu@email.gwu.edu]\n\nAuthors\n - Stephanie Olivier-Van Stichelen [solivier@mcw.edu], Eugenia Wulff-Fuentes [ewulff@mcw.edu], Rex R. Berendt [rberendt@mcw.edu], Logan Massman [lmassman@mcw.edu], Laura Danner [ldanner@mcw.edu]\n\nChecksum\n - \n\nUsability Domain\n - The Mouse O-GlcNAc Glycosylation Citations (MCW) dataset contains details of the publication present in the dataset Mouse O-GlcNAc Glycosylation Sites (MCW) contributed by Stephanie Olivier's group.\n\nDescription Domain\n Keywords\n - O-GlcNAc\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-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: mouse_proteoform_glycosylation_sites_oglcnac_mcw.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.3.1/reviewed/mouse_proteoform_glycosylation_sites_oglcnac_mcw.csv\n Output Subdomain\n Name: mouse_proteoform_citations_glycosylation_sites_oglcnac_mcw.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.3.1/reviewed/mouse_proteoform_citations_glycosylation_sites_oglcnac_mcw.csv\n Name: mouse_proteoform_citations_glycosylation_sites_oglcnac_mcw.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.3.1/reviewed/mouse_proteoform_citations_glycosylation_sites_oglcnac_mcw.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"3967\"\n Name: \"title\"\n Description: \"Title of the published article in the journal\"\n Unique Values: \"230\"\n Name: \"journal_name\"\n Description: \"The name of the journal in which the article is published\"\n Unique Values: \"119\"\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: \"211\"\n Name: \"authors\"\n Description: \"NA\"\n Unique Values: \"226\"\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: \"230\"\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: \"3967\"\n Name: \"glytoucan_ac\"\n Description: \"Unique accession assigned to the registered glycan structure in GlyTouCan database\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-2.3.1/reviewed/mouse_proteoform_citations_glycosylation_sites_oglcnac_mcw.csv" }