{ "bcoid": "GLY_000738", "title": "Glycan Biomarkers Citations (Biomarker Database)", "description": "The Glycan Biomarkers Citations dataset contains details of the publications present in the Glycan Biomarkers ...", "filename": "glycan_citations_biomarkers.csv", "filetype": "csv", "categories": { "molecule": [ "Glycan" ], "tags": [ "Glycan Biomarkers Citations (Biomarker Database)" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ], "species": [ "Homo sapiens", "Mus musculus", "Rattus norvegicus", "Rattus", "Severe acute respiratory syndrome coronavirus 2", "Drosophila melanogaster", "Hepacivirus C" ] }, "minitable": { "content": [ [ "G78959US...", "Detection of..." ], [ "G53972TI...", "Chip-based r..." ] ], "headers": [ "glytoucan_ac...", "title..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "glytoucan_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" } ], [ "G78959US", "Detection of Chemotherapy-resistant Pancreatic Cancer Using a Glycan Biomarker, sTRA.", "Clinical cancer research : an official journal of the American Association for Cancer Research", "2021 Jan 1", "Gao C, Wisniewski L, Liu Y, Staal B, Beddows I, Plenker D, Aldakkak M, Hall J, Barnett D, Gouda MK, Allen P, Drake R, Zureikat A, Huang Y, Evans D, Singhi A, Brand RE, Tuveson DA, Tsai S, Haab BB", "glycan_xref_pubmed", "33093149", "glycan_xref_biomarkerdb", "A0414" ], [ "G53972TI", "Chip-based reversed-phase liquid chromatography-mass spectrometry of permethylated N-linked glycans: a potential methodology for cancer-biomarker discovery.", "Analytical chemistry", "2010 Jun 15", "Alley WR Jr, Madera M, Mechref Y, Novotny MV", "glycan_xref_pubmed", "20491449", "glycan_xref_biomarkerdb", "A0415" ], [ "G73813HX", "Chip-based reversed-phase liquid chromatography-mass spectrometry of permethylated N-linked glycans: a potential methodology for cancer-biomarker discovery.", "Analytical chemistry", "2010 Jun 15", "Alley WR Jr, Madera M, Mechref Y, Novotny MV", "glycan_xref_pubmed", "20491449", "glycan_xref_biomarkerdb", "A0416" ], [ "G33187NK", "Serum leucine-rich alpha-2-glycoprotein-1 with fucosylated triantennary N-glycan: a novel colorectal cancer marker.", "BMC cancer", "2018 Apr 11", "Shinozaki E, Tanabe K, Akiyoshi T, Tsuchida T, Miyazaki Y, Kojima N, Igarashi M, Ueno M, Suenaga M, Mizunuma N, Yamaguchi K, Nakayama K, Iijima S, Yamaguchi T", "glycan_xref_pubmed", "29642865", "glycan_xref_biomarkerdb", "A0417" ], [ "G36521AS", "A strategy to reveal potential glycan markers from serum glycoproteins associated with breast cancer progression.", "Glycobiology", "2008 Dec", "Abd Hamid UM, Royle L, Saldova R, Radcliffe CM, Harvey DJ, Storr SJ, Pardo M, Antrobus R, Chapman CJ, Zitzmann N, Robertson JF, Dwek RA, Rudd PM", "glycan_xref_pubmed", "18818422", "glycan_xref_biomarkerdb", "A0418" ], [ "G57321FI", "Lectins identify glycan biomarkers on glioblastoma-derived cancer stem cells.", "Stem cells and development", "2012 Sep 1", "Tucker-Burden C, Chappa P, Krishnamoorthy M, Gerwe BA, Scharer CD, Heimburg-Molinaro J, Harris W, Usta SN, Eilertson CD, Hadjipanayis CG, Stice SL, Brat DJ, Nash RJ", "glycan_xref_pubmed", "22435486", "glycan_xref_biomarkerdb", "A0419" ], [ "G68544GH", "Lectins identify glycan biomarkers on glioblastoma-derived cancer stem cells.", "Stem cells and development", "2012 Sep 1", "Tucker-Burden C, Chappa P, Krishnamoorthy M, Gerwe BA, Scharer CD, Heimburg-Molinaro J, Harris W, Usta SN, Eilertson CD, Hadjipanayis CG, Stice SL, Brat DJ, Nash RJ", "glycan_xref_pubmed", "22435486", "glycan_xref_biomarkerdb", "A0420" ], [ "G00054MO", "Ovarian cancer is associated with changes in glycosylation in both acute-phase proteins and IgG.", "Glycobiology", "2007 Dec", "Saldova R, Royle L, Radcliffe CM, Abd Hamid UM, Evans R, Arnold JN, Banks RE, Hutson R, Harvey DJ, Antrobus R, Petrescu SM, Dwek RA, Rudd PM", "glycan_xref_pubmed", "17884841", "glycan_xref_biomarkerdb", "A0422" ], [ "G64669AQ", "Ovarian cancer is associated with changes in glycosylation in both acute-phase proteins and IgG.", "Glycobiology", "2007 Dec", "Saldova R, Royle L, Radcliffe CM, Abd Hamid UM, Evans R, Arnold JN, Banks RE, Hutson R, Harvey DJ, Antrobus R, Petrescu SM, Dwek RA, Rudd PM", "glycan_xref_pubmed", "17884841", "glycan_xref_biomarkerdb", "A0422" ], [ "G23384FD", "Increased sialylation of site specific O-glycoforms of hemopexin in liver disease.", "Clinical proteomics", "2016", "Sanda Miloslav, Benicky Julius, Wu Jing, Wang Yiwen, Makambi Kepher, Ahn Jaeil, Smith Coleman I, Zhao Peng, Zhang Lihua, Goldman Radoslav", "glycan_xref_pubmed", "27688741", "glycan_xref_biomarkerdb", "A0435" ], [ "G90233EO", "Increased sialylation of site specific O-glycoforms of hemopexin in liver disease.", "Clinical proteomics", "2016", "Sanda Miloslav, Benicky Julius, Wu Jing, Wang Yiwen, Makambi Kepher, Ahn Jaeil, Smith Coleman I, Zhao Peng, Zhang Lihua, Goldman Radoslav", "glycan_xref_pubmed", "27688741", "glycan_xref_biomarkerdb", "A0435" ], [ "G35622MN", "Breast cancer diagnosis and prognosis through quantitative measurements of serum glycan profiles.", "Clinical chemistry", "2008 Jul", "Kyselova Z, Mechref Y, Kang P, Goetz JA, Dobrolecki LE, Sledge GW, Schnaper L, Hickey RJ, Malkas LH, Novotny MV", "glycan_xref_pubmed", "18487288", "glycan_xref_biomarkerdb", "A0483" ], [ "G28790AT", "Breast cancer diagnosis and prognosis through quantitative measurements of serum glycan profiles.", "Clinical chemistry", "2008 Jul", "Kyselova Z, Mechref Y, Kang P, Goetz JA, Dobrolecki LE, Sledge GW, Schnaper L, Hickey RJ, Malkas LH, Novotny MV", "glycan_xref_pubmed", "18487288", "glycan_xref_biomarkerdb", "A0485" ], [ "G20102QS", "Breast cancer diagnosis and prognosis through quantitative measurements of serum glycan profiles.", "Clinical chemistry", "2008 Jul", "Kyselova Z, Mechref Y, Kang P, Goetz JA, Dobrolecki LE, Sledge GW, Schnaper L, Hickey RJ, Malkas LH, Novotny MV", "glycan_xref_pubmed", "18487288", "glycan_xref_biomarkerdb", "A0486" ], [ "G72750GQ", "Breast cancer diagnosis and prognosis through quantitative measurements of serum glycan profiles.", "Clinical chemistry", "2008 Jul", "Kyselova Z, Mechref Y, Kang P, Goetz JA, Dobrolecki LE, Sledge GW, Schnaper L, Hickey RJ, Malkas LH, Novotny MV", "glycan_xref_pubmed", "18487288", "glycan_xref_biomarkerdb", "A0487" ], [ "G66374JF", "Breast cancer diagnosis and prognosis through quantitative measurements of serum glycan profiles.", "Clinical chemistry", "2008 Jul", "Kyselova Z, Mechref Y, Kang P, Goetz JA, Dobrolecki LE, Sledge GW, Schnaper L, Hickey RJ, Malkas LH, Novotny MV", "glycan_xref_pubmed", "18487288", "glycan_xref_biomarkerdb", "A0488" ], [ "G46440UD", "Breast cancer diagnosis and prognosis through quantitative measurements of serum glycan profiles.", "Clinical chemistry", "2008 Jul", "Kyselova Z, Mechref Y, Kang P, Goetz JA, Dobrolecki LE, Sledge GW, Schnaper L, Hickey RJ, Malkas LH, Novotny MV", "glycan_xref_pubmed", "18487288", "glycan_xref_biomarkerdb", "A0489" ], [ "G41793DV", "Breast cancer diagnosis and prognosis through quantitative measurements of serum glycan profiles.", "Clinical chemistry", "2008 Jul", "Kyselova Z, Mechref Y, Kang P, Goetz JA, Dobrolecki LE, Sledge GW, Schnaper L, Hickey RJ, Malkas LH, Novotny MV", "glycan_xref_pubmed", "18487288", "glycan_xref_biomarkerdb", "A0490" ], [ "G85767HW", "A Potential Serum N-glycan Biomarker for Hepatitis C Virus-Related Early-Stage Hepatocellular Carcinoma with Liver Cirrhosis.", "International journal of molecular sciences", "2020 Nov 24", "Higashi M, Yoshimura T, Usui N, Kano Y, Deguchi A, Tanabe K, Uchimura Y, Kuriyama S, Suzuki Y, Masaki T, Ikenaka K", "glycan_xref_pubmed", "33255418", "glycan_xref_biomarkerdb", "A0491" ], [ "G36123IU", "Probing the O-glycoproteome of gastric cancer cell lines for biomarker discovery.", "Molecular & cellular proteomics : MCP", "2015 Jun", "Campos D, Freitas D, Gomes J, Magalhaes A, Steentoft C, Gomes C, Vester-Christensen MB, Ferreira JA, Afonso LP, Santos LL, Pinto de Sousa J, Mandel U, Clausen H, Vakhrushev SY, Reis CA", "glycan_xref_pubmed", "25813380", "glycan_xref_biomarkerdb", "A0492" ], [ "G52069SB", "Quantitative serum glycomics of esophageal adenocarcinoma and other esophageal disease onsets.", "Journal of proteome research", "2009 Jun", "Mechref Y, Hussein A, Bekesova S, Pungpapong V, Zhang M, Dobrolecki LE, Hickey RJ, Hammoud ZT, Novotny MV", "glycan_xref_pubmed", "19441788", "glycan_xref_biomarkerdb", "A0494" ], [ "G86265JV", "Quantitative serum glycomics of esophageal adenocarcinoma and other esophageal disease onsets.", "Journal of proteome research", "2009 Jun", "Mechref Y, Hussein A, Bekesova S, Pungpapong V, Zhang M, Dobrolecki LE, Hickey RJ, Hammoud ZT, Novotny MV", "glycan_xref_pubmed", "19441788", "glycan_xref_biomarkerdb", "A0495" ], [ "G06014UR", "Quantitative serum glycomics of esophageal adenocarcinoma and other esophageal disease onsets.", "Journal of proteome research", "2009 Jun", "Mechref Y, Hussein A, Bekesova S, Pungpapong V, Zhang M, Dobrolecki LE, Hickey RJ, Hammoud ZT, Novotny MV", "glycan_xref_pubmed", "19441788", "glycan_xref_biomarkerdb", "A0496" ], [ "G80966KZ", "Comprehensive N-Glycome Profiling of Cells and Tissues for Breast Cancer Diagnosis.", "Journal of proteome research", "2019 Jun 7", "Li Q, Li G, Zhou Y, Zhang X, Sun M, Jiang H, Yu G", "glycan_xref_pubmed", "30889355", "glycan_xref_biomarkerdb", "A0497" ], [ "G36059IK", "Comprehensive N-Glycome Profiling of Cells and Tissues for Breast Cancer Diagnosis.", "Journal of proteome research", "2019 Jun 7", "Li Q, Li G, Zhou Y, Zhang X, Sun M, Jiang H, Yu G", "glycan_xref_pubmed", "30889355", "glycan_xref_biomarkerdb", "A0498" ], [ "G66676MI", "Comprehensive N-Glycome Profiling of Cells and Tissues for Breast Cancer Diagnosis.", "Journal of proteome research", "2019 Jun 7", "Li Q, Li G, Zhou Y, Zhang X, Sun M, Jiang H, Yu G", "glycan_xref_pubmed", "30889355", "glycan_xref_biomarkerdb", "A0499" ], [ "G09503CT", "Serum N-glycan profiling is a potential biomarker for castration-resistant prostate cancer.", "Scientific reports", "2019 Nov 14", "Matsumoto T, Hatakeyama S, Yoneyama T, Tobisawa Y, Ishibashi Y, Yamamoto H, Yoneyama T, Hashimoto Y, Ito H, Nishimura SI, Ohyama C", "glycan_xref_pubmed", "31727974", "glycan_xref_biomarkerdb", "A0500" ], [ "G12638YK", "Serum N-glycan profiling is a potential biomarker for castration-resistant prostate cancer.", "Scientific reports", "2019 Nov 14", "Matsumoto T, Hatakeyama S, Yoneyama T, Tobisawa Y, Ishibashi Y, Yamamoto H, Yoneyama T, Hashimoto Y, Ito H, Nishimura SI, Ohyama C", "glycan_xref_pubmed", "31727974", "glycan_xref_biomarkerdb", "A0500" ], [ "G42079FQ", "Serum N-glycan profiling is a potential biomarker for castration-resistant prostate cancer.", "Scientific reports", "2019 Nov 14", "Matsumoto T, Hatakeyama S, Yoneyama T, Tobisawa Y, Ishibashi Y, Yamamoto H, Yoneyama T, Hashimoto Y, Ito H, Nishimura SI, Ohyama C", "glycan_xref_pubmed", "31727974", "glycan_xref_biomarkerdb", "A0500" ], [ "G67579EM", "Serum N-glycan profiling is a potential biomarker for castration-resistant prostate cancer.", "Scientific reports", "2019 Nov 14", "Matsumoto T, Hatakeyama S, Yoneyama T, Tobisawa Y, Ishibashi Y, Yamamoto H, Yoneyama T, Hashimoto Y, Ito H, Nishimura SI, Ohyama C", "glycan_xref_pubmed", "31727974", "glycan_xref_biomarkerdb", "A0500" ], [ "G53972TI", "Serum N-glycan profiling is a potential biomarker for castration-resistant prostate cancer.", "Scientific reports", "2019 Nov 14", "Matsumoto T, Hatakeyama S, Yoneyama T, Tobisawa Y, Ishibashi Y, Yamamoto H, Yoneyama T, Hashimoto Y, Ito H, Nishimura SI, Ohyama C", "glycan_xref_pubmed", "31727974", "glycan_xref_biomarkerdb", "A0500" ], [ "G46440UD", "Serum N-glycan profiling is a potential biomarker for castration-resistant prostate cancer.", "Scientific reports", "2019 Nov 14", "Matsumoto T, Hatakeyama S, Yoneyama T, Tobisawa Y, Ishibashi Y, Yamamoto H, Yoneyama T, Hashimoto Y, Ito H, Nishimura SI, Ohyama C", "glycan_xref_pubmed", "31727974", "glycan_xref_biomarkerdb", "A0500" ], [ "G41793DV", "Serum N-glycan profiling is a potential biomarker for castration-resistant prostate cancer.", "Scientific reports", "2019 Nov 14", "Matsumoto T, Hatakeyama S, Yoneyama T, Tobisawa Y, Ishibashi Y, Yamamoto H, Yoneyama T, Hashimoto Y, Ito H, Nishimura SI, Ohyama C", "glycan_xref_pubmed", "31727974", "glycan_xref_biomarkerdb", "A0500" ], [ "G44246UD", "Serum N-glycan profiling is a potential biomarker for castration-resistant prostate cancer.", "Scientific reports", "2019 Nov 14", "Matsumoto T, Hatakeyama S, Yoneyama T, Tobisawa Y, Ishibashi Y, Yamamoto H, Yoneyama T, Hashimoto Y, Ito H, Nishimura SI, Ohyama C", "glycan_xref_pubmed", "31727974", "glycan_xref_biomarkerdb", "A0500" ], [ "G36949LL", "Clinical utility of a serum glycome analysis in patients with colorectal cancer.", "Journal of gastroenterology and hepatology", "2022 Apr", "Takei D, Harada K, Nouso K, Miyahara K, Dohi C, Matsushita H, Kinugasa H, Hiraoka S, Nishimura SI, Okada H", "glycan_xref_pubmed", "35064597", "glycan_xref_biomarkerdb", "A0501" ], [ "G52069SB", "Clinical utility of a serum glycome analysis in patients with colorectal cancer.", "Journal of gastroenterology and hepatology", "2022 Apr", "Takei D, Harada K, Nouso K, Miyahara K, Dohi C, Matsushita H, Kinugasa H, Hiraoka S, Nishimura SI, Okada H", "glycan_xref_pubmed", "35064597", "glycan_xref_biomarkerdb", "A0501" ], [ "G57321FI", "Evaluation of serum CA125-Tn glycoform in peritoneal dissemination and surgical completeness of high-grade serous ovarian cancer.", "Journal of ovarian research", "2022-12-23", "Jin Xiayu, Du Ming, Wang Yisheng, Wang Yuefei, Lu Yingying, Xu Congjian, Zhang Xiaoyan", "glycan_xref_pubmed", "36564848", "glycan_xref_biomarkerdb", "A0503" ], [ "G09737HO", "Serum fucosylated prostate-specific antigen (PSA) improves the differentiation of aggressive from non-aggressive prostate cancers.", "Theranostics", "2015", "Li Qing Kay, Chen Li, Ao Ming-Hui, Chiu Joyce Hanching, Zhang Zhen, Zhang Hui, Chan Daniel W", "glycan_xref_pubmed", "25553114", "glycan_xref_biomarkerdb", "A0504" ] ] }, "readme": "Name\n - Glycan Biomarkers Citations (Biomarker Database)\n\nVersion\n - v-2.1.1\n\nCreated on\n - 2023-03-14T20:13:36.255Z\n\nModified on\n - 2023-03-14T20:18:19.753Z\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Dan Lyman [danlyman@gwu.edu], Jingyue Wu [jingyue.wu@email.gwu.edu]\n\nAuthors\n - \n\nChecksum\n - \n\nUsability Domain\n - The Glycan Biomarkers Citations dataset contains details of the publications present in the Glycan Biomarkers dataset (https://data.glygen.org/GLY_000737).\n\nDescription Domain\n Keywords\n - Publications\n - Citations\n - PubMed\n - Biomarker DB\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: glycan_biomarkers.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.1.1/reviewed/glycan_biomarkers.csv\n Name: glycan_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.1.1/reviewed/glycan_masterlist.csv\n Output Subdomain\n Name: glycan_citations_biomarkers.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.1.1/reviewed/glycan_citations_biomarkers.csv\n Name: glycan_citations_biomarkers.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.1.1/reviewed/glycan_citations_biomarkers.stat.csv\n\nFields\n Name: \"glytoucan_ac\"\n Description: \"Unique accession assigned to the registered glycan structure in GlyTouCan database\"\n Unique Values: \"33\"\n Name: \"title\"\n Description: \"Title of the published article in the journal\"\n Unique Values: \"16\"\n Name: \"journal_name\"\n Description: \"The name of the journal in which the article is published\"\n Unique Values: \"14\"\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: \"16\"\n Name: \"authors\"\n Description: \"NA\"\n Unique Values: \"16\"\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: \"16\"\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: \"28\"", "downloadurl": "/ln2data/releases/data/v-2.1.1/reviewed/glycan_citations_biomarkers.csv" }