Functional analysis of the zebrafish genome through RNA-seq and ribosome profile

描述（由申请人提供）：斑马鱼基因的功能表征需要准确了解基因结构和基因表达。在提案中，我们将联合收割机高通量测序技术结合起来（核糖体谱和RNA-seq）和生物信息学来改进编码和非编码基因的当前注释，通过确定每个编码基因中的翻译起始和终止位点（Aim 2），定义转录起始位点、5'和3' UTR（Aim 1），注释斑马鱼基因中推定的可变剪接外显子（Aim 1），并开发胚胎发生和器官发生过程中的基因表达图谱（目标1）本提案中概述的实验的最终目标是改善斑马鱼的功能基因组学，并将为社区提供两个基本工具：i）改进的斑马鱼基因注释，包括编码潜能、翻译起始位点和转录物结构，和ii）定义的群落，开放获取斑马鱼胚胎/幼虫阶段和器官发生的表达图谱。本项目的研究结果将有助于斑马鱼基因功能的研究，并为深入了解脊椎动物基因的结构和功能奠定基础。

DESCRIPTION (provided by applicant): Functional characterization of the zebrafish genes requires accurate knowledge of the gene structure and gene expression. In proposal we combine high-throughput sequencing techniques (Ribosome profile and RNA-seq) and bioinformatics to improve the current annotation of coding and non-coding genes, by determining the translation start and stop sites in each coding gene (Aim 2), define the transcription start site, 5' and 3'UTRs (Aim 1), annotate putative alternatively spliced exons in the zebrafish genes (Aim 1), and develop a gene expression atlas during embryogenesis and organogenesis (Aim 1) The experiments outlined in this proposal have the ultimate goal of improving functional genomics in zebrafish and will provide two fundamental tools to the community: i) improved annotation of the zebrafish genes including coding potential, translation start site and transcript structure and ii) community defined, open access zebrafish expression atlas across embryonic/ larval stages and organogenesis. In the future, the results derived from this project will facilitate the functional characterization of the zebrafish genes and will establsh a frame work to understand the structure and the function of vertebrate genes.