Novel statistical methods for controlled variable selection of microbiome data

微生物组数据受控变量选择的新统计方法

基本信息

项目摘要

Project Summary/Abstract The scientific community is increasingly appreciative of the important role that the microbiome community plays in many diseases and health conditions. The structure of the microbiome community (e.g., relative abundances of different taxa and microbial network/interactions) is subject to change in response to many environment and host factors. Scientific investigation of how microbiome interact with each other, with their environment and with their host can shed light on our understanding of the underlying biological mechanism of microbiome-related disease and health conditions. Despite the incredible amount of research interest and availability of massive data through the innovative use of cutting-edge techniques (16S rRNA gene sequencing, shotgun metagenomics sequencing and metabolomics), there are still insufficient statistical tools that can fully handle the complexity of microbiome data, including the high-dimensionality, phylogenetic relatedness, relatively small sample size, compositional constraint and others. The main goal of this proposal is to develop statistically powerful and computationally efficient methods to address these challenges in analyzing microbiome data. In particular, this research will be applied to high-throughput microbiome data and lead to new statistical controlled variable selection methods that 1) select a subgroup of taxa that are genuinely associated with disease-related outcomes under a pre-specified false discovery rate (FDR), where the outcomes can be either a single disease outcome of interest or multivariate such as multiple secondary phenotypes related to the disease; and b) identify taxa and taxa-metabolite interactions that are associated with a disease outcome under a certain FDR threshold. Our proposed methods are innovative in that it can both select important taxa features or taxa-metabolites interactions and have the FDR being controlled, which largely enhances the reproducibility and reliability of the discovery results in microbiome association studies. The enhanced taxa selection would further facilitate downstream laboratory-based functional studies, eventually leading to potential improvements in prevention, detection, treatment and monitoring of many health and disease conditions from a microbiome's perspective. Completion of this proposal will also help bridging the gap between the burgeoning research interest in microbiome studies and the lack of analytical tools. In addition to publication in peer-reviewed journals, we will make our results disseminated through conferences and open-source software that is freely available to the wider scientific community. The proposed methods are essential for improved understanding of microbiome mechanism along with its interaction with host genome or metabolome in the pathology of certain diseases, which are of central importance to human health.
项目总结/文摘

项目成果

期刊论文数量(1)
专著数量(0)
科研奖励数量(0)
会议论文数量(0)
专利数量(0)
Variant-set association test for generalized linear mixed model.
  • DOI:
    10.1002/gepi.22378
  • 发表时间:
    2021-06
  • 期刊:
  • 影响因子:
    2.1
  • 作者:
    Zhan X;Banerjee K;Chen J
  • 通讯作者:
    Chen J
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Vernon M Chinchilli其他文献

Estrogen or Testosterone Increases Facial and Body Attractiveness in Hypogonadal Adolescents 13
  • DOI:
    10.1203/00006450-199804001-00034
  • 发表时间:
    1998-04-01
  • 期刊:
  • 影响因子:
    3.100
  • 作者:
    Jennifer Neuffer;Glenn Cohen;Steven Foreman;Howard E Kulin;Elizabeth J Susman;Vernon M Chinchilli;Susan J Kunselman;Lynn S Liben;Jacqueline Schwab;Lawrence M Demers;M Rose D'Arcangelo;Traci Wojtkowski;Daniela E Rusovici;Jordan W Finkelstein
  • 通讯作者:
    Jordan W Finkelstein
The epidemiology of berry consumption and association of berry consumption with diet quality and cardiometabolic risk factors in US adults: the National Health and Nutrition Examination Survey, 2003-2018.
美国成年人浆果消费的流行病学以及浆果消费与饮食质量和心脏代谢危险因素的关联:2003-2018 年国家健康和营养检查调查。
  • DOI:
  • 发表时间:
    2024
  • 期刊:
  • 影响因子:
    0
  • 作者:
    Li Zhang;Joshua E Muscat;Penny M. Kris;Vernon M Chinchilli;Laila Al;John P. Richie
  • 通讯作者:
    John P. Richie
Hematologic manifestations of systemic mast cell disease: a prospective study of laboratory and morphologic features and their relation to prognosis.
系统性肥大细胞疾病的血液学表现:实验室和形态学特征及其与预后关系的前瞻性研究。
  • DOI:
  • 发表时间:
    1991
  • 期刊:
  • 影响因子:
    5.9
  • 作者:
    Jeffry B. Lawrence;B. S. Friedman;William D. Travis;Vernon M Chinchilli;Vernon M Chinchilli;D. Metcalfe;Harvey R. Gralnick
  • 通讯作者:
    Harvey R. Gralnick

Vernon M Chinchilli的其他文献

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{{ truncateString('Vernon M Chinchilli', 18)}}的其他基金

The Biostatistics Research Center for the Impaired Awareness of Hypoglycemia Consortium
低血糖意识障碍联盟生物统计学研究中心
  • 批准号:
    10599379
  • 财政年份:
    2022
  • 资助金额:
    $ 22.57万
  • 项目类别:
Data Coordinating Center for the Type 1 Diabetes in Acute Pancreatitis Consortium
急性胰腺炎联盟 1 型糖尿病数据协调中心
  • 批准号:
    10907944
  • 财政年份:
    2020
  • 资助金额:
    $ 22.57万
  • 项目类别:
Data Coordinating Center for the Type 1 Diabetes in Acute Pancreatitis Consortium
急性胰腺炎联盟 1 型糖尿病数据协调中心
  • 批准号:
    10461052
  • 财政年份:
    2020
  • 资助金额:
    $ 22.57万
  • 项目类别:
Data Coordinating Center for the Type 1 Diabetes in Acute Pancreatitis Consortium
急性胰腺炎联盟 1 型糖尿病数据协调中心
  • 批准号:
    10672905
  • 财政年份:
    2020
  • 资助金额:
    $ 22.57万
  • 项目类别:
Data Coordinating Center for the Type 1 Diabetes in Acute Pancreatitis Consortium
急性胰腺炎联盟 1 型糖尿病数据协调中心
  • 批准号:
    10471067
  • 财政年份:
    2020
  • 资助金额:
    $ 22.57万
  • 项目类别:
Data Coordinating Center for the Type 1 Diabetes in Acute Pancreatitis Consortium
急性胰腺炎联盟 1 型糖尿病数据协调中心
  • 批准号:
    10265554
  • 财政年份:
    2020
  • 资助金额:
    $ 22.57万
  • 项目类别:
Ambulatory Methods for Measuring Cognitive Change
测量认知变化的流动方法
  • 批准号:
    10213642
  • 财政年份:
    2018
  • 资助金额:
    $ 22.57万
  • 项目类别:
Ambulatory Methods for Measuring Cognitive Change
测量认知变化的流动方法
  • 批准号:
    10426148
  • 财政年份:
    2018
  • 资助金额:
    $ 22.57万
  • 项目类别:
Data Coordinating Center for the Natural History of AKI Consortium
AKI 联盟自然历史数据协调中心
  • 批准号:
    7687205
  • 财政年份:
    2008
  • 资助金额:
    $ 22.57万
  • 项目类别:
Data Coordinating Center for the Natural History of AKI Consortium
AKI 联盟自然历史数据协调中心
  • 批准号:
    8143961
  • 财政年份:
    2008
  • 资助金额:
    $ 22.57万
  • 项目类别:

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