Patterned Gene Expression in Drosophila Development

果蝇发育中的模式基因表达

基本信息

批准号：
9321159
负责人：
SUSAN E CELNIKER
金额：
$ 48.67万
依托单位：
UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB
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：
2006-09-01 至 2019-07-31
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/9321159
关键词：
3&apos Untranslated Regions 5&apos Untranslated Regions Address Alzheimer&apos s Disease Anatomy Animal Model Animals Atlases Bacterial Artificial Chromosomes Binding Sites Biochemical Biological Assay Code Collection 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 Foundations Gene Activation 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 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 Standardization System Systems Biology Transcript Transgenic Organisms Translating Translational Regulation Untranslated RNA base bioimaging embryonic protein experimental study fly functional group gene complementation gene function genetic regulatory protein human disease insight mRNA Expression network models novel promoter protein expression public health relevance spatiotemporal tool transcription factor transcription factor USF transcriptome sequencing virtual web site

项目摘要

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（适用提供）：在动物中，通过基因表达的顺序激活进行动物和分化。我们的主要目标是阐明基于正常发育，疾病和进化过程的遗传相互作用的复杂网络。对这些相互作用的全面分析需要了解基因在组织中的完全完成的基因表达谱。在伯克利果蝇基因组项目（BDGP）中，我们为果蝇发育建立了一种基因表达资源，其中包含由整个RNA的空间和临时胚胎表达模式，该模式由整个RNA含量杂交确定。这些模式是使用基于解剖学上的解剖学和模式的标准化虚拟表示，使用标准化的，受控的词汇来注释这些模式，以促进基于图像的搜索和分析。现在，该资源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（TFS）的胚胎表达模式。具体而言，我们建议继续为剩余的蛋白质编码基因（包括新鉴定的基因）收集RNA表达模式，并将收集扩展到包括非编码基因和具有可能胚胎表达的替代转录本；通过推定的转录因子（TFS）驱动的表达模式的测定模式，并使用我们新开发的计算图像分析工具分析表达式；最后将TF RNA表达模式与所有TF的GFP标记线确定的相应蛋白表达进行了比较。我们的研究产生的基因表达数据将为果蝇和同源性，包括人类在内的其他真核生物中阐明基因功能提供基本信息。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提供有关转录因子的发育作用的见解。转录，蛋白质和CRM空间时间表达数据的整合将促进调节相互作用网络的发现。这些研究是针对对生活过程的理解，并为促进更好的人类健康奠定了基础。