Genomewide discovery & analysis of alternative promoters

全基因组发现

基本信息

  • 批准号:
    7371108
  • 负责人:
  • 金额:
    $ 2.07万
  • 依托单位:
  • 依托单位国家:
    美国
  • 项目类别:
  • 财政年份:
    2006
  • 资助国家:
    美国
  • 起止时间:
    2006-04-27 至 2008-04-30
  • 项目状态:
    已结题

项目摘要

Promoters located at the 5'-ends of genes play a critical role in regulating transcriptional initiation. Emerging evidence suggests that a significant fraction of -30,000 human genes likely contain alternative promoters, which produce more elaborate regulation of gene expression in different tissues, cell-types and/or developmental stages. Despite vast information available for the human genome sequences, a comprehensive approach for identifying and characterizing alternative promoters of gene loci is still lacking. One effective approach is to analyze orthologous sequences in both mouse and human genomes. It has not been thoroughly explored as to what extent the 5'-end regulatory regions of a locus show sequence similarity between human and rodents. We hypothesize that the basal (core) promoter regions necessary for gene transcription are conserved between human and mouse. Computational approaches will be used to mine both human and mouse genomes to identify functional orthologous sequences. The derived information will be added into a prototype database for mammalian promoters, called MPromDb, developed by us. Next, these computationally derived sequences will be experimentally verified. We further hypothesize that a functional genomic sequence is in a euchromatic environment that presents an open chromatin configuration, allowing for the access of transcription factors for driving gene expression. Instead of taking the usual route to analyze gene expression, we will determine the chromatin status of a test genomic sequence as a measure for a functional promoter. The chromatin immunoprecipitation (ChIP) microarray, or the so-called ChlP-on-chip assay, previously developed in our laboratory will be extended to simultaneously assess the euchromatin status of ~1,500 putative promoters of 250 pairs of human and mouse orthologous genes. The combination of computational, statistical and highthroughput experimental approaches proposed in this grant application will help better characterize the gene regulatory regions in the human genome, one of the grand challenges of future genome research. Specifically we will: (1) Develop computational tools for annotating experimentally known alternative promoters and first exons. (2) Conduct ChlP-on-chip and luciferase assays to verify computationally annotated alternative promoter sequences of human and mouse orthologous genes, and (3) Develop computational methods to detect alternative promoters and first exons in the human and mouse genomes.
启动子位于基因的5'端,在调控转录起始中起关键作用。新兴

项目成果

期刊论文数量(0)
专著数量(0)
科研奖励数量(0)
会议论文数量(0)
专利数量(0)

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RAMANA V DAVULURI其他文献

RAMANA V DAVULURI的其他文献

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{{ truncateString('RAMANA V DAVULURI', 18)}}的其他基金

Developing novel deep-learning based methods for deciphering non-coding gene regulatory code
开发基于深度学习的新型方法来破译非编码基因调控密码
  • 批准号:
    10451673
  • 财政年份:
    2021
  • 资助金额:
    $ 2.07万
  • 项目类别:
Developing novel deep-learning based methods for deciphering non-coding gene regulatory code
开发基于深度学习的新型方法来破译非编码基因调控密码
  • 批准号:
    10615784
  • 财政年份:
    2021
  • 资助金额:
    $ 2.07万
  • 项目类别:
Informatics Platform for Mammalian Gene Regulation at Isoform-level
异构体水平的哺乳动物基因调控信息学平台
  • 批准号:
    10273985
  • 财政年份:
    2020
  • 资助金额:
    $ 2.07万
  • 项目类别:
Informatics Platform for Mammalian Gene Regulation at Isoform-level
异构体水平的哺乳动物基因调控信息学平台
  • 批准号:
    9922347
  • 财政年份:
    2013
  • 资助金额:
    $ 2.07万
  • 项目类别:
Informatics Platform for Mammalian Gene Regulation at Isoform-level
异构体水平的哺乳动物基因调控信息学平台
  • 批准号:
    8843951
  • 财政年份:
    2013
  • 资助金额:
    $ 2.07万
  • 项目类别:
Informatics platform for mammalian gene regulation at isoform-level
异构体水平的哺乳动物基因调控信息学平台
  • 批准号:
    8658144
  • 财政年份:
    2013
  • 资助金额:
    $ 2.07万
  • 项目类别:
Bioinformatics Facility
生物信息学设施
  • 批准号:
    7945001
  • 财政年份:
    2009
  • 资助金额:
    $ 2.07万
  • 项目类别:
Genomewide discovery & analysis of alternative promoters
全基因组发现
  • 批准号:
    7678211
  • 财政年份:
    2006
  • 资助金额:
    $ 2.07万
  • 项目类别:
Genomewide discovery & analysis of alternative promoters
全基因组发现
  • 批准号:
    7226994
  • 财政年份:
    2006
  • 资助金额:
    $ 2.07万
  • 项目类别:
Genomewide discovery & analysis of alternative promoters
全基因组发现
  • 批准号:
    7033451
  • 财政年份:
    2006
  • 资助金额:
    $ 2.07万
  • 项目类别:
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