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Structural motifs in RNA

RNA 中的结构基序

基本信息

批准号：
9474334
负责人：
Howard Y Chang
金额：
$ 3.33万
依托单位：
STANFORD UNIVERSITY
依托单位国家：
美国
项目类别：
财政年份：
2017
资助国家：
美国
起止时间：
2017-09-01 至 2019-01-31
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/9474334
关键词：
3&apos Untranslated Regions Acylation Address Adopted Base Pairing Binding Sites Biochemical Biochemical Genetics Biological Assay Biological Process Biotechnology Cell Nucleus Cells Chemicals Chromatin Cytoplasm DNA Sequence Data Disease Elements Frequencies Gene Expression Gene Expression Regulation Genes Genetic Medicine Genetic Transcription Genetic screening method Genome Germ Layers Goals Health Heart Human Hydroxyl Radical In Vitro Lead Life Life Cycle Stages Maps Measures Mediating Messenger RNA Methods MicroRNAs Modification Molecular Conformation Nature Nucleic Acids Nucleotides Polyribosomes Post-Transcriptional Regulation RNA RNA Conformation RNA Decay RNA Splicing RNA Transport RNA-Binding Proteins Regulation Reporter Genes Research Personnel Resolution Resources Shapes Site Speed Structure Structure-Activity Relationship Testing Time Translating Translations Untranslated RNA Variant base cell type combinatorial experimental study genome-wide high throughput technology human disease improved in vivo insight mRNA Precursor new technology programs tool transcription factor transcriptome

项目摘要

Project Summary Proper control of gene expression is essential for life. While substantial advances have been made in the discovery of DNA sequences and transcription factors that act combinatorially to regulate transcription, much less is known about later steps in the gene expression program. Nevertheless, it is now clear that substantial regulation of gene expression occurs post-transcriptionally, in pre-mRNA splicing, RNA localization, translation, and RNA decay, and in the coordination of RNAs by RNA binding proteins (RBPs), microRNAs, and RNA chemical modifications. While many sequence motifs are known to mediate post-transcriptional regulation, RNA secondary structures that govern access to these motifs are much less well understood. The long term goal of this project is to enable structural characterization of RNAs on a genome-wide scale. First, we will apply a recently developed method to map secondary structures of most human RNAs in living cells. Second, we will develop methods to follow the fate of RNA secondary structures through the RNA life cycle. Third, we will develop high throughput methods to perturb and test functions of RNA structures. This integrated pipeline of new technologies will enable investigators to identify and decode regulatory RNA elements in the genome with unprecedented speed and accuracy.

项目摘要适当地控制基因表达对生命是至关重要的。虽然在发现联合作用调节转录的DNA序列和转录因子方面取得了实质性的进展，但人们对基因表达程序的后续步骤知之甚少。然而，现在很清楚的是，基因表达的实质性调节发生在转录后，在RNA前剪接、RNA定位、翻译和RNA衰退中，以及在RNA结合蛋白(RBPs)、microRNAs和RNA化学修饰的RNA协调中。虽然已知许多序列基序介导转录后调控，但控制这些基序访问的RNA二级结构却知之甚少。该项目的长期目标是能够在全基因组范围内对RNA进行结构表征。首先，我们将应用最近开发的一种方法来绘制活细胞中大多数人类RNA的二级结构。其次，我们将开发方法，在RNA生命周期中跟踪RNA二级结构的命运。第三，我们将开发高通量的方法来干扰和测试RNA结构的功能。这一新技术的集成管道将使研究人员能够以前所未有的速度和准确性识别和解码基因组中的调控RNA元件。

项目成果

期刊论文数量（13）

专著数量（0）

科研奖励数量（0）

会议论文数量（0）

专利数量（0）

Genome-wide measurement of RNA folding energies.

DOI：
10.1016/j.molcel.2012.08.008
发表时间：
2012-10-26
期刊：
MOLECULAR CELL
影响因子：
16
作者：
Wan, Yue;Qu, Kun;Ouyang, Zhengqing;Kertesz, Michael;Li, Jun;Tibshirani, Robert;Makino, Debora L.;Nutter, Robert C.;Segal, Eran;Chang, Howard Y.
通讯作者：
Chang, Howard Y.

Molecular mechanisms of long noncoding RNAs.

DOI：
10.1016/j.molcel.2011.08.018
发表时间：
2011-09-16
期刊：
Molecular cell
影响因子：
16
作者：
Wang KC;Chang HY
通讯作者：
Chang HY

Tandem stem-loops in roX RNAs act together to mediate X chromosome dosage compensation in Drosophila.

DOI：
10.1016/j.molcel.2013.07.001
发表时间：
2013-07-25
期刊：
Molecular cell
影响因子：
16
作者：
Ilik IA;Quinn JJ;Georgiev P;Tavares-Cadete F;Maticzka D;Toscano S;Wan Y;Spitale RC;Luscombe N;Backofen R;Chang HY;Akhtar A
通讯作者：
Akhtar A

SeqFold: genome-scale reconstruction of RNA secondary structure integrating high-throughput sequencing data.