Patterned Gene Expression in Drosophila Development

果蝇发育中的模式基因表达

• 批准号: 8891749
• 负责人: SUSAN E CELNIKER
• 金额: $ 53.52万
• 依托单位: UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB
• 依托单位国家: 美国
• 财政年份: 2006
• 资助国家: 美国
• 起止时间: 2006-09-01 至 2019-07-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8891749
• 关键词: 3' Untranslated Regions; 5' Untranslated Regions; Address; Alzheimer' s Disease; Animal Model; Animals; Atlases; Binding Sites; Biochemical; Biological Assay; Code; Collection; Complement; Complex; Complex Mixtures; Computer Analysis; Computing Methodologies; Controlled Vocabulary; Data; Data Set; Databases; Deposition; Development; Developmental Biology; Differentiation and Growth; Disease; Drosophila genome; Drosophila genus; Elements; Embryo; Embryonic Development; Enhancers; Eukaryota; Event; Evolution; Exons; Factor Analysis; Foundations; Gene Expression; Gene Expression Profile; Gene Expression Regulation; Genes; Genetic; Genetic Transcription; Genome; Genomics; Goals; Health; Human; Image; Image Analysis; Imaging Device; In Situ Hybridization; Indium; Individual; Knowledge; Life; Link; Malignant Neoplasms; Maps; Messenger RNA; Methods; Modeling; Molecular Profiling; Neurodegenerative Disorders; Nucleic Acid Regulatory Sequences; Ontology; Organism; Organogenesis; Pattern; Play; Poly A; Post-Transcriptional Regulation; Process; Protein Kinase; Proteins; RNA; RNA Splicing; RNA-Binding Proteins; Regulator Genes; Research; Research Personnel; Resources; Role; Sequence-Specific DNA Binding Protein; Signaling Protein; Spatial Distribution; System; Systems Biology; Transcript; Transgenic Organisms; Translating; Translational Regulation; Untranslated RNA; base; bioimaging; embryonic protein; fly; functional group; gene function; genetic regulatory protein; human disease; insight; mRNA Expression; network models; novel; promoter; protein expression; public health relevance; research study; spatiotemporal; tool; transcription factor; transcription factor USF; transcriptome sequencing; virtual; web site

 DESCRIPTION (provided by applicant): In animals, development and differentiation proceeds by the sequential activation of gene expression. Our primary goal is to elucidate the complex network of genetic interactions that underlies the processes of normal development, disease and evolution. A comprehensive analysis of these interactions requires knowledge of the gene expression profiles for the full complement of genes in an organism. At the Berkeley Drosophila Genome Project (BDGP), we have established a gene expression resource for Drosophila development that contains spatial and temporal embryonic expression patterns determined from whole mount RNA in-situ hybridization. These patterns are annotated using a standardized, controlled vocabulary based on an anatomical ontology and a standardized virtual representation of the patterns to facilitate image based search and analysis. This resource now includes embryonic expression patterns for all sequence-specific DNA-binding proteins or transcription factors (TFs) that control the processes of animal organogenesis. Specifically we propose to continue to collect RNA expression patterns for the remaining protein-coding genes, including newly identified genes, and expand the collection to include non-coding genes and alternative transcripts with likely embryonic expression; assay patterns of expression driven by putative CRMs for transcription factors (TFs) and analyze the expression using our newly developed computational image analysis tools; and finally compare TF RNA expression patterns to corresponding protein expression determined from GFP-tagged lines for all TFs. The gene expression data produced by our study will provide fundamental information for elucidating gene function in Drosophila and, by homology, in other eukaryotes, including humans. The roles of most non-coding RNAs in particular remain unknown. The functional analysis of regulatory regions will provide insights into the developmental roles of the transcription factors. The integration of transcript, protein and CRM spatiotemporal expression data will promote discovery of networks of regulatory interactions. These studies are directed toward the understanding of life processes and lay the foundation for promoting better human health.

 描述（由申请人提供）：在动物中，发育和分化是通过基因表达的连续激活来进行的。我们的主要目标是阐明正常发育、疾病和进化过程中复杂的遗传相互作用网络。对这些相互作用的全面分析需要了解生物体中完整基因的基因表达谱。在伯克利果蝇基因组计划 (BDGP)，我们建立了果蝇发育的基因表达资源，其中包含通过整体 RNA 原位杂交确定的空间和时间胚胎表达模式。这些模式使用基于解剖本体论的标准化受控词汇和模式的标准化虚拟表示来注释，以促进基于图像的搜索和分析。该资源现在包括控制动物器官发生过程的所有序列特异性 DNA 结合蛋白或转录因子 (TF) 的胚胎表达模式。具体来说，我们建议继续收集剩余蛋白质编码基因（包括新发现的基因）的RNA表达模式，并扩大收集范围以包括非编码基因和可能具有胚胎表达的替代转录本；分析转录因子 (TF) 假定 CRM 驱动的表达模式，并使用我们新开发的计算图像分析工具分析表达；最后将 TF RNA 表达模式与所有 TF 的 GFP 标记系确定的相应蛋白质表达进行比较。我们的研究产生的基因表达数据将为阐明果蝇中的基因功能以及通过同源性阐明包括人类在内的其他真核生物中的基因功能提供基础信息。尤其是大多数非编码 RNA 的作用仍然未知。调节区域的功能分析将有助于深入了解转录因子的发育作用。转录本、蛋白质和 CRM 时空表达数据的整合将促进调控相互作用网络的发现。这些研究旨在了解生命过程，并为促进更好的人类健康奠定基础。