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：
10018883
负责人：
SUSAN E CELNIKER
金额：
$ 48.59万
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 2023-08-31
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/10018883
关键词：
Address Alzheimer&apos s Disease Anatomy Animals Antisense RNA Atlases Binding Binding Sites Biochemical Biological Assay Catalogs Cell division Code Collection Communities Complement Complex Complex Mixtures Computing Methodologies DNA Sequence Data Data Set Databases Development Developmental Biology Differentiated Gene Differentiation and Growth Disease Drosophila genome Drosophila genus Elements Embryo Embryonic Development Enhancers Eukaryota Event Evolution Expression Profiling Foundations Gene Activation Gene Expression Gene Expression Profile Gene Expression Regulation Gene Family Genes Genetic Genetic Transcription Genome Genomics Goals Health Human Image Image Analysis In Situ Hybridization Individual Knowledge Life Link Location Malignant Neoplasms Maps Metabolism Modeling Movement Network-based Nucleic Acid Regulatory Sequences Oncogenes Ontology Organ Organism Parents Pattern Phosphotransferases Play Process Proteins RNA Regulator Genes Regulatory Element Reporter Research Research Personnel Resources Role Standardization System Systems Biology Time Tissues Transcript Transcriptional Regulation Tumor Suppressor Genes Untranslated RNA analog automated image analysis base bioimaging body system chromatin modification experimental study fly functional group gene function gene interaction genome wide association study genomic data human disease insight knock-down network models small hairpin RNA spatiotemporal tool transcription factor transcriptome sequencing virtual web site

项目摘要

PROJECT SUMMARY Animal development and differentiation proceeds by the sequential activation of gene expression accompanied by cell division, differential development and movement to form organ primordia. Our primary goal is to elucidate the complex network of spatial and 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 complement of protein-coding and non-coding genes in an organism. The Berkeley Drosophila Genome Project (BDGP) has established a gene expression resource for Drosophila embryonic development that contains spatial and temporal expression patterns determined from whole mount RNA in-situ hybridization. These patterns are annotated using a standardized controlled anatomical ontology and the images are presented in a standardized virtual representation of the patterns to facilitate ontology and image based search and analysis. Specifically we propose to produce organ system and gene family RNA expression networks based on spatial patterns of expression and expand the collection to include non-coding genes; assay patterns of expression driven by putative CRMs for transcription factors (TFs) and selected TF target genes and analyze the expression using our computational image analysis tools. The organ system expression profiles produced by our study will provide fundamental information for elucidating embryonic development in Drosophila and, by homology, in other eukaryotes, including humans. The roles of most non- coding RNAs in particular remain unknown. The spatial expression driven by cis-regulatory regions will provide insights into the developmental roles of the transcription factors. The integration of spatiotemporal expression data from coding transcripts, non-coding transcripts and CRM reporters 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.

项目摘要动物发育和分化是通过伴随基因表达的顺序激活来进行的通过细胞分裂，形成器官原始的差异发育和运动。我们的主要目标是阐明了正常过程的基础的空间和遗传相互作用的复杂网络发展，疾病和进化。对这些互动的全面分析需要了解蛋白质编码和非编码基因的补体的基因表达谱。这伯克利果蝇基因组项目（BDGP）已建立了果蝇的基因表达资源胚胎发育包含由整个安装架确定的空间和时间表达模式 RNA的原位杂交。使用标准化的控制解剖本体来注释这些模式图像以标准化模式的虚拟表示表示，以促进本体论和基于图像的搜索和分析。具体而言，我们建议生产器官系统和基因家族RNA 基于表达空间模式并将集合扩展到非编码的表达网络基因；由推定的CRM驱动的转录因子（TF）和选定的TF的表达模式靶基因并使用我们的计算图像分析工具分析表达式。器官系统我们的研究产生的表达曲线将为阐明胚胎提供基本信息果蝇的发展以及同源性的其他真核生物，包括人类。大多数非 - 特别是编码RNA仍然未知。从顺式调节区域驱动的空间表达将提供洞悉转录因子的发育作用。时空表达的整合来自编码笔录，非编码成绩单和CRM记者的数据将促进发现的网络监管相互作用。这些研究是针对对生活过程的理解，并奠定了促进改善人类健康的基础。

项目成果

期刊论文数量（14）

专著数量（0）

科研奖励数量（0）

会议论文数量（0）

专利数量（0）

Diverse Hormone Response Networks in 41 Independent Drosophila Cell Lines.

41 个独立果蝇细胞系中的多种激素反应网络。

DOI：
10.1534/g3.115.023366
发表时间：
2016
期刊：
G3 (Bethesda, Md.)
影响因子：
0
作者：
Stoiber,Marcus;Celniker,Susan;Cherbas,Lucy;Brown,Ben;Cherbas,Peter
通讯作者：
Cherbas,Peter

Dynamic reprogramming of chromatin accessibility during Drosophila embryo development.

DOI：
10.1186/gb-2011-12-5-r43
发表时间：
2011
期刊：
Genome biology
影响因子：
12.3
作者：
Thomas S;Li XY;Sabo PJ;Sandstrom R;Thurman RE;Canfield TK;Giste E;Fisher W;Hammonds A;Celniker SE;Biggin MD;Stamatoyannopoulos JA
通讯作者：
Stamatoyannopoulos JA

Systematic image-driven analysis of the spatial Drosophila embryonic expression landscape.

DOI：
10.1038/msb.2009.102
发表时间：
2010
期刊：
MOLECULAR SYSTEMS BIOLOGY
影响因子：
9.9
作者：
Frise, Erwin;Hammonds, Ann S.;Celniker, Susan E.
通讯作者：
Celniker, Susan E.

Spatial expression of transcription factors in Drosophila embryonic organ development.

DOI：
10.1186/gb-2013-14-12-r140
发表时间：
2013-12-20
期刊：
Genome biology
影响因子：
12.3
作者：
Hammonds AS;Bristow CA;Fisher WW;Weiszmann R;Wu S;Hartenstein V;Kellis M;Yu B;Frise E;Celniker SE
通讯作者：
Celniker SE

Transcription factors bind thousands of active and inactive regions in the Drosophila blastoderm.

DOI：
10.1371/journal.pbio.0060027
发表时间：
2008-02
期刊：
PLoS biology
影响因子：
9.8
作者：
Li XY;MacArthur S;Bourgon R;Nix D;Pollard DA;Iyer VN;Hechmer A;Simirenko L;Stapleton M;Luengo Hendriks CL;Chu HC;Ogawa N;Inwood W;Sementchenko V;Beaton A;Weiszmann R;Celniker SE;Knowles DW;Gingeras T;Speed TP;Eisen MB;Biggin MD
通讯作者：
Biggin MD