BIOINFORMATICS OF 3 PRIME-UTR-BASED POST-TRANSCRIPTIONAL REGULATORY ELEMENTS

3 个基于 PRIME-UTR 的转录后调控元件的生物信息学

• 批准号: 7610065
• 负责人: JOEL H GRABER
• 金额: $ 3.19万
• 依托单位: MOUNT DESERT ISLAND BIOLOGICAL LAB
• 依托单位国家: 美国
• 财政年份: 2007
• 资助国家: 美国
• 起止时间: 2007-05-01 至 2008-04-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/7610065
• 关键词: Bioinformatics; Biological Models; Classification; Comparative Study; Complementary DNA; Computer Retrieval of Information on Scientific Projects Database; Conserved Sequence; Data Collection; Databases; Development; Expressed Sequence Tags; Funding; Gene Expression Regulation; Genome; Grant; Institution; Investigation; Libraries; Messenger RNA; Post-Transcriptional Regulation; Process; Regulator Genes; Research; Research Personnel; Resources; Sampling; Scheme; Sequence Analysis; Site; Source; Spermatogenesis; Testing; Transcript; United States National Institutes of Health; Work; base; computerized data processing; computerized tools; indexing; interest; mRNA Precursor

This subproject is one of many research subprojects utilizing the resources provided by a Center grant funded by NIH/NCRR. The subproject and investigator (PI) may have received primary funding from another NIH source, and thus could be represented in other CRISP entries. The institution listed is for the Center, which is not necessarily the institution for the investigator. Our work is focused on the development and use of computational tools to further our understanding of gene regulation, with an emphasis on the identification and characterization of the regulatory sequences that control post-transcriptional gene regulation. Post-transcriptional regulatory sequences are typically embedded within the sequence of the precursor mRNA, therefore our analysis is largely based on studies of expressed sequences, including, but not limited to, expressed sequence tags (ESTs) and indexing schemes, such as SAGE or MPSS. We are particularly interested in the delineation of evolutionarily conserved sequences that can be tested for functionality in the model systems utilized by our experimental collaborators. The principal efforts in my group are going into the continued improvement and collection of data for our integrated set of sequence analysis databases: pacdb, seqgen, and estdb. These databases combine to represent and make useable our genome-based analysis of expressed sequences, for the identification of functional features, specifically focusing on identification of mRNA 3-processing sites (Brockman et al, 2005). We have subsequently used our databases in further studies, including a broad comparative study of metazoan mRNA 3-processing signals (Salisbury et al, 2006), an investigation of systematic effects in the sampling of transcripts during cDNA/EST library creation (Liu and Graber, 2006), an investigation of systematic changes in 3-processing during mammalian spermatogenesis, and several collaborative studies (Peaston et al, 2004, Petkov et al, 2005, Graber et al, 2006, and Evsikov et al 2006).

这个子项目是许多研究子项目中的一个 由NIH/NCRR资助的中心赠款提供的资源。子项目和 研究者（PI）可能从另一个NIH来源获得了主要资金， 因此可以在其他CRISP条目中表示。所列机构为 研究中心，而研究中心不一定是研究者所在的机构。 我们的工作重点是开发和使用计算工具，以进一步了解基因调控，重点是识别和表征控制转录后基因调控的调控序列。 转录后调控序列通常嵌入前体mRNA的序列中，因此我们的分析主要基于对表达序列的研究，包括但不限于表达序列标签（EST）和索引方案，如SAGE或MPSS。 我们特别感兴趣的进化保守序列，可以测试我们的实验合作者利用的模型系统中的功能的划定。我们小组的主要工作是继续改进和收集我们整合的序列分析数据库：pacdb、seqgen和estdb。这些数据库联合收割机代表并利用我们基于基因组的表达序列分析，用于鉴定功能特征，特别是鉴定mRNA 3加工地点（Brockman等人，2005年）。 随后，我们将我们的数据库用于进一步的研究，包括后生动物mRNA 3的广泛比较研究。- 处理信号（Salisbury et al，2006），cDNA/EST文库创建期间转录物取样的系统性影响的调查（Liu和Graber，2006），3个转录物的系统性变化的调查（Salisbury et al，2006），- 哺乳动物精子发生过程中的处理，以及几项合作研究（Peaston等人，2004年，Petkov等人，2005年，Graber等人，2006年和Evsikov等人，2006年）。