Universal PBM Resource for Oligonucleotide Binding Evaluation

The UniPROBE (Universal PBM Resource for Oligonucleotide Binding Evaluation) database hosts data generated by universal protein binding microarray (PBM) technology on the in vitro DNA binding specificities of proteins. This initial release of the UniPROBE database provides a centralized resource for accessing comprehensive data on the preferences of proteins for all possible sequence variants ('words') of length k ('k-mers'), as well as position weight matrix (PWM) and graphical sequence logo representations of the k-mer data. In total, the database currently hosts DNA binding data for 406 nonredundant proteins from a diverse collection of organisms, including the prokaryote Vibrio harveyi, the eukaryotic malarial parasite Plasmodium falciparum, the parasitic Apicomplexan Cryptosporidium parvum, the yeast Saccharomyces cerevisiae, the worm Caenorhabditis elegans, mouse, and human. The database's web tools (on the right) include a text-based search, a function for assessing motif similarity between user-entered data and database PWMs, and a function for locating putative binding sites along user-entered nucleotide sequences

UniPROBE（通用寡核苷酸结合评估PBM资源）数据库存储了由通用蛋白质结合微阵列（PBM）技术生成的数据，这些数据涉及体外DNA结合特异性。该数据库的首次发布提供了一个集中的资源，用于访问关于蛋白质对所有可能的序列变体（'单词'）长度为k（'k-mer'）的偏好、k-mer数据的位置权重矩阵（PWM）以及图形序列标志表示的全面数据。总计，该数据库目前存储了来自多种生物体（包括原核生物霍乱弧菌Vibrio harveyi、真核生物疟原虫Plasmodium falciparum、寄生性阿米巴虫Cryptosporidium parvum、酵母Saccharomyces cerevisiae、线虫Caenorhabditis elegans、小鼠和人类）的406个非冗余蛋白质的DNA结合数据。数据库的在线工具（右侧）包括基于文本的搜索、评估用户输入数据与数据库PWM之间基序相似性的功能，以及定位用户输入核苷酸序列中潜在结合位点的功能。