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1/2 Discovery and validation of neuronal enhancers associated with the development of psychiatric disorders

1/2 与精神疾病发展相关的神经元增强剂的发现和验证

基本信息

批准号：
10801125
负责人：
Mark Bender Gerstein
金额：
$ 28.01万
依托单位：
UNIV OF MASSACHUSETTS MED SCH WORCESTER
依托单位国家：
美国
项目类别：
财政年份：
2023
资助国家：
美国
起止时间：
2023-04-01 至 2024-03-31
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/10801125
关键词：
Award Brain Cells Collaborations Communities Core Grant Custom Data Data Analyses Data Coordinating Center Data Set Development Enhancers Ensure Funding Grant Individual Knowledge Portal Manuscripts Massachusetts Mental disorders Metadata Methods National Institute of Mental Health Neurons Phase Process Publications Publishing Records Reporting Research Resources Role Science Services Standardization Synapses Tissues Training United States National Institutes of Health Universities Validation Work analytical method computerized data processing data access data archive data curation data dictionary data harmonization data modeling data preservation data repository data resource data sharing design distributed data epigenomics genome resource genomic data member migration parent grant petabyte programs repository terabyte transcriptomics

项目摘要

Project Summary/Abstract This proposal is designed to extend the work of the PsychENCODE Data Analysis Core (DAC) grant to implement a long term stewardship plan for the data and resources generated both by the parent grant and the broader PsychENCODE consortium, and continue to support data coordinating for the PsychENCODE consortium for an additional year. Sage Bionetwork, as the DCC of the PsychENCODE program over the last 7 years has been responsible for tracking, curating, distributing of data, methods, and analysis results as well as supporting the DAC through access to raw data and re-distribution of harmonized datasets. In this role we have built out processes for collecting and curating data, analytical methods and provided spaces for collaborative analysis. This effort culminated in the phase I analysis of a harmonized bulk tissue dataset of genomic, transcriptomic, and epigenomic data from >2000 donor brains resulting in manuscripts published in a special issue of Science. A similar effort is ongoing in phase II focusing on single cell data. Combined, the PsychENCODE data corpus is close to 500 terabytes of data stored in Synapse, an NIH data repository and made available in a custom knowledge portal, the PsychEncode portal. Here we propose how to transition long term stewardship of this data to the NIMH data archive (NDA), and support of data from 14 phase II grants with an end date beyond the March-31 2023 project end of the parent grant.

项目总结/摘要该建议旨在扩展PsychENCODE数据分析核心（DAC）的工作资助实施一项长期的数据和资源管理计划，家长赠款和更广泛的PsychENCODE财团，并继续支持数据为PsychENCODE联盟再协调一年。Sage Bionetwork作为在过去的7年里，PsychENCODE项目的DCC一直负责跟踪，管理、分发数据、方法和分析结果，并通过以下方式支持DAC 获取原始数据和重新分发统一数据集。在这个角色中，我们已经建立了收集和整理数据的过程，分析方法，并为以下方面提供空间：协同分析这一努力最终在第一阶段的分析协调散装组织来自>2000个供体大脑的基因组、转录组和表观基因组数据集，在《科学》特刊上发表的手稿。在第二阶段也在进行类似的努力，单细胞数据。PsychENCODE数据集的总数据量接近500 TB 存储在Synapse中，一个NIH数据存储库，并在自定义知识门户中提供， PsychEncode门户。在这里，我们建议如何将这些数据的长期管理过渡到 NIMH数据存档（NDA），并支持14个第二阶段赠款的数据，结束日期超过 2023年3月31日，项目结束。

项目成果

期刊论文数量（16）

专著数量（0）

科研奖励数量（0）

会议论文数量（0）

专利数量（0）

Predicting brain-regional gene regulatory networks from multi-omics for Alzheimer's disease phenotypes and Covid-19 severity.

DOI：
10.1093/hmg/ddad009
发表时间：
2023-05-18
期刊：
Human molecular genetics
影响因子：
3.5
作者：
通讯作者：

Varmole: a biologically drop-connect deep neural network model for prioritizing disease risk variants and genes.

DOI：
10.1093/bioinformatics/btaa866
发表时间：
2021-07-19
期刊：
Bioinformatics (Oxford, England)
影响因子：
0
作者：
Nguyen ND;Jin T;Wang D
通讯作者：
Wang D

BOMA, a machine-learning framework for comparative gene expression analysis across brains and organoids.

DOI：
10.1016/j.crmeth.2023.100409
发表时间：
2023-02-27
期刊：
Cell reports methods
影响因子：
0
作者：
通讯作者：

Genome-wide histone acetylation analysis reveals altered transcriptional regulation in the Parkinson's disease brain.

DOI：
10.1186/s13024-021-00450-7
发表时间：
2021-05-05
期刊：
Molecular neurodegeneration
影响因子：
15.1
作者：
Toker L;Tran GT;Sundaresan J;Tysnes OB;Alves G;Haugarvoll K;Nido GS;Dölle C;Tzoulis C
通讯作者：
Tzoulis C

Insights from incorporating quantum computing into drug design workflows.