Journal of Shanghai University(Natural Science Edition)

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UBROAD: A Web Based Platform of Gene and Protein Data

GUO Jing kang;ZHANG Xiang yun;YANG Xu zhi   

  1. 1. School of Life Sciences, Shanghai University, Shanghai 200444, China; 2. Shanghai Institute of Hematology, Ruijin Hospital, Shanghai Jiaotong Universi ty, Shanghai 200025, China
  • Received:2006-04-25 Online:2007-02-28 Published:2007-02-28

Abstract: High throughput experiments like microarray or protein mass spectromet ry can produce huge amount of data efficiently. These data, after some basic pre processing, are often presented in the form of a list of gene/protein identifier s accompanied by (semi) quantitative experimental data such as expression profil es. It is necessary to obtain detailed annotation information about these genes/ proteins to further analyze these data and to extract biological meanings. We de veloped a web based platform UBROAD (Unified Batch Retriever of Annotation Data ) to facilitate quick and efficient retrieval of annotation data for genes and pr oteins from various sources. UBROAD integrates several biological data sources i ncluding NCBI, Swiss Prot, BIND, Enzyme, genetounigene and genetoaccession, and supports mixed searches of eight types of identifiers including Uniprot/trEMBL A C, Uniprot Entryname, Genbank Protein Accession Number, Genbank mRNA gi, Genbank mRNA Accession Number, Gene name, Gene ID and Unigene ID. The output file inclu des 38 annotation items downloadable in the form of Microsoft Excel. UBROAD is f reely available at http://www.bioscience.org.cn/ubroad.

Key words: batched annotation, bioinformatics, database integrated