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Construction of an integrated human osteosarcoma database, HOsDb, based on literature mining, microarray analysis, and database retrieval.
Sun, Yifu; Wang, Lishan; Li, Changkuan; Gu, Rui; Zang, Weidong; Song, Wei; Xia, Peng.
Afiliación
  • Sun Y; Department of Orthopedics, China-Japan Union Hospital of Jilin University, Changchun, 130033, P.R. China.
  • Wang L; Eryun (Shanghai) Information Technology Co., Ltd, Shanghai, 200241, P.R. China.
  • Li C; Department of Orthopedics, China-Japan Union Hospital of Jilin University, Changchun, 130033, P.R. China.
  • Gu R; Department of Orthopedics, China-Japan Union Hospital of Jilin University, Changchun, 130033, P.R. China.
  • Zang W; Eryun (Shanghai) Information Technology Co., Ltd, Shanghai, 200241, P.R. China.
  • Song W; Eryun (Shanghai) Information Technology Co., Ltd, Shanghai, 200241, P.R. China.
  • Xia P; Department of Orthopedics, The Second Hospital of Jilin University, No.218 Ziqiang Street, Changchun, 130022, China. xuanliuuil@163.com.
BMC Cancer ; 20(1): 390, 2020 May 06.
Article en En | MEDLINE | ID: mdl-32375685
BACKGROUND: Osteosarcoma (OS) is the most frequent primary malignancy of bone with a high incidence in adolescence. This study aimed to construct a publicly available, integrated database of human OS, named HOsDb. METHODS: Microarray data, current databases, and a literature search of PubMed were used to extract information relevant to human OS-related genes and their transcription factors (TFs) and single nucleotide polymorphisms (SNPs), as well as methylation sites and microRNAs (miRNAs). This information was collated for constructing the HOsDb. RESULTS: In total, we identified 7191 OS tumor-related genes, 763 OS metastasis-related genes, and 1589 OS drug-related genes, corresponding to 190,362, 21,131, and 41,135 gene-TF pairs, respectively, 3,749,490, 358,361, and 767,674 gene-miRNA pairs, respectively; and 28,386, 2532, and 3943 SNPs, respectively. Additionally, 240 OS-related miRNAs, 1695 genes with copy number variations in OS, and 18 genes with methylation sites in OS were identified. These data were collated to construct the HOsDb, which is available at www.hosdatabase.com. Users can search OS-related molecules using this database. CONCLUSION: The HOsDb provides a platform that is comprehensive, quick, and easily accessible, and it will enrich our current knowledge of OS.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Neoplasias Óseas / Biomarcadores de Tumor / Osteosarcoma / Bases de Datos Factuales / MicroARNs / Análisis por Micromatrices / Minería de Datos Tipo de estudio: Prognostic_studies / Systematic_reviews Límite: Humans Idioma: En Revista: BMC Cancer Asunto de la revista: NEOPLASIAS Año: 2020 Tipo del documento: Article Pais de publicación: Reino Unido
Texto completo
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Neoplasias Óseas / Biomarcadores de Tumor / Osteosarcoma / Bases de Datos Factuales / MicroARNs / Análisis por Micromatrices / Minería de Datos Tipo de estudio: Prognostic_studies / Systematic_reviews Límite: Humans Idioma: En Revista: BMC Cancer Asunto de la revista: NEOPLASIAS Año: 2020 Tipo del documento: Article Pais de publicación: Reino Unido