Core B
核心B
基本信息
- 批准号:9978143
- 负责人:
- 金额:$ 12.62万
- 依托单位:
- 依托单位国家:美国
- 项目类别:
- 财政年份:2011
- 资助国家:美国
- 起止时间:2011-07-12 至 2021-06-30
- 项目状态:已结题
- 来源:
- 关键词:AddressAdolescenceAdolescentAnimal ModelAutopsyBase PairingBrainCRISPR/Cas technologyCell modelCellsCollaborationsCollectionComputer softwareDNA Sequence AlterationDataData AnalysesData SetDevelopmentDexamethasoneFunctional disorderGene ExpressionGenesGeneticGenetic TranscriptionGenome ScanGenomic SegmentGoalsHumanIn VitroInduced MutationKnockout MiceMediatingMental disordersMicrotubulesModelingMusMutagenesisNeuronsPathway AnalysisPrefrontal CortexProtein IsoformsQuality ControlResolutionResourcesSchizophreniaSerumSocial isolationStandardizationStatistical ModelsStressTranscriptTranslatingUpdateVisualizationWorkanalysis pipelinebasebrain tissuecohesionconditional knockoutcritical perioddesigndifferential expressiongene environment interactiongenetic varianthuman subjectinduced pluripotent stem cellinnovationmouse modelnovelprospectivereference genometranscriptometranscriptome sequencing
项目摘要
Our main goal is to identify the transcript expression changes induced by mutations in microtubule-related
genes associated with schizophrenia (SZ) and stress exposure in human cell and mouse models, which are
enriched among genes specifically regulated in adolescent human brains and differentially expressed in
psychiatric disease conditions, such as SZ. Aim 1 will examine the transcript expression changes in iPS cells-
derived human neuronal cells resulting from CRISPR/Cas9 mediated mutagenesis of KCTD13, DPYSL2,
SDCCAG8 and CKAP5 by conducting a RNA-seq analysis. We will also use these genetic cell models to
determine changes in transcript expression with and without treatment with dexamethasone as a model of
stress exposure in vitro. Aim 2 will examine the transcript expression changes in the prefrontal cortex (PFC) of
Pcm1 knockout mice, 16p11(dup) mice model, 16p11(dup)/Kctd13+/- mice, and other mouse models such as
Dpysl2 conditional knockout mice by conducting a RNA-seq analysis. We will also examine if observed
changes are exacerbated by adolescent social isolation. Aim 3 will compare genomic regions and transcripts
identified in Aims 1 and 2 as differentially expressed due to genetic mutations and stress exposure in cell and
mouse models to transcripts and genes identified in large-scale postmortem human brain tissue RNA-seq
collections. Using unique human post-mortem RNA-seq datasets, we will address whether our findings can be
translated in two contexts relevant to human adolescent brain maturation and psychiatric disease conditions.
We will also cross-validate differentially expressed stress-associated molecules in serum of prospective human
subjects developed SZ and mouse models resulting from genetic mutations and social isolation as well as
adolescent human brains and PFC region of the mouse models.
我们的主要目标是确定微管相关基因突变引起的转录表达变化
人类细胞和小鼠模型中与精神分裂症(SZ)和应激暴露相关的基因,这些基因是
在青春期人脑中特异调控的基因中丰富,并在
精神疾病状况,如SZ。Aim 1将研究iPS细胞中转录表达的变化-
CRISPR/Cas9诱变KCTD13、DPYSL2、
SDCCAG8和CKAP5通过进行RNA-seq分析。我们还将使用这些遗传细胞模型来
以地塞米松为模型,检测地塞米松治疗前后转录表达的变化
体外应激暴露。目标2将检测大鼠前额叶皮质(PFC)转录表达的变化
Pcm1基因敲除小鼠、16p11(DUP)小鼠模型、16p11(DUP)/KCTD13+/-小鼠以及其他小鼠模型,如
Dpysl2条件性基因敲除小鼠进行RNA-seq分析。我们还将检查是否观察到
青少年的社交孤立加剧了这种变化。目标3将比较基因组区域和转录本
在AIMS 1和AIMS 2中发现由于遗传突变和细胞和
小鼠模型到大规模人脑组织中发现的转录和基因的RNA-seq
收藏。使用独特的人类死后rna-seq数据集,我们将解决我们的发现是否可以
在两个与人类青春期大脑成熟和精神疾病状况相关的背景下翻译。
我们还将交叉验证未来人类血清中差异表达的应激相关分子。
受试者开发了基因突变和社会隔离导致的SZ和小鼠模型,以及
青春期人脑和小鼠PFC区模型。
项目成果
期刊论文数量(0)
专著数量(0)
科研奖励数量(0)
会议论文数量(0)
专利数量(0)
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Jeffrey T. Leek其他文献
Tackling the widespread and critical impact of batch effects in high-throughput data
解决批效应在高通量数据中广泛且关键的影响
- DOI:
10.1038/nrg2825 - 发表时间:
2010-09-14 - 期刊:
- 影响因子:52.000
- 作者:
Jeffrey T. Leek;Robert B. Scharpf;Héctor Corrada Bravo;David Simcha;Benjamin Langmead;W. Evan Johnson;Donald Geman;Keith Baggerly;Rafael A. Irizarry - 通讯作者:
Rafael A. Irizarry
Transparency and reproducibility in artificial intelligence
人工智能中的透明度和可重复性
- DOI:
10.1038/s41586-020-2766-y - 发表时间:
2020-10-14 - 期刊:
- 影响因子:48.500
- 作者:
Benjamin Haibe-Kains;George Alexandru Adam;Ahmed Hosny;Farnoosh Khodakarami;Levi Waldron;Bo Wang;Chris McIntosh;Anna Goldenberg;Anshul Kundaje;Casey S. Greene;Tamara Broderick;Michael M. Hoffman;Jeffrey T. Leek;Keegan Korthauer;Wolfgang Huber;Alvis Brazma;Joelle Pineau;Robert Tibshirani;Trevor Hastie;John P. A. Ioannidis;John Quackenbush;Hugo J. W. L. Aerts - 通讯作者:
Hugo J. W. L. Aerts
Erratum to: Practical impacts of genomic data “cleaning” on biological discovery using surrogate variable analysis
- DOI:
10.1186/s12859-016-1152-0 - 发表时间:
2016-08-10 - 期刊:
- 影响因子:3.300
- 作者:
Andrew E. Jaffe;Thomas Hyde;Joel Kleinman;Daniel R. Weinberger;Joshua G. Chenoweth;Ronald D. McKay;Jeffrey T. Leek;Carlo Colantuoni - 通讯作者:
Carlo Colantuoni
Jeffrey T. Leek的其他文献
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{{ truncateString('Jeffrey T. Leek', 18)}}的其他基金
Data analysis tools for leveraging massive public data to improve hypothesis-driven research
数据分析工具,利用大量公共数据来改进假设驱动的研究
- 批准号:
10598130 - 财政年份:2022
- 资助金额:
$ 12.62万 - 项目类别:
Data analysis tools for leveraging massive public data to improve hypothesis-driven research
数据分析工具,利用大量公共数据来改进假设驱动的研究
- 批准号:
10330636 - 财政年份:2022
- 资助金额:
$ 12.62万 - 项目类别:
Data analysis tools for leveraging massive public data to improve hypothesis-driven research
数据分析工具,利用大量公共数据来改进假设驱动的研究
- 批准号:
10654376 - 财政年份:2022
- 资助金额:
$ 12.62万 - 项目类别:
A massive study of data science to address the scientific reproducibility crisis
大规模数据科学研究以解决科学再现性危机
- 批准号:
9100338 - 财政年份:2016
- 资助金额:
$ 12.62万 - 项目类别:
A massive study of data science to address the scientific reproducibility crisis
大规模数据科学研究以解决科学再现性危机
- 批准号:
9244046 - 财政年份:2016
- 资助金额:
$ 12.62万 - 项目类别:
Statistical models for biological and technical variation in RNA sequencing
RNA 测序中生物和技术变异的统计模型
- 批准号:
8593469 - 财政年份:2013
- 资助金额:
$ 12.62万 - 项目类别:
Statistical models for biological and technical variation in RNA sequencing
RNA 测序中生物和技术变异的统计模型
- 批准号:
9264553 - 财政年份:2013
- 资助金额:
$ 12.62万 - 项目类别:
Statistical models for biological and technical variation in RNA sequencing
RNA 测序中生物和技术变异的统计模型
- 批准号:
8722575 - 财政年份:2013
- 资助金额:
$ 12.62万 - 项目类别:
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