Integrative methods for high-dimensional genomics data

高维基因组数据的整合方法

• 批准号: 8685000
• 负责人: Veerabhadran Baladandayuthapani
• 金额: $ 45.11万
• 依托单位: UNIVERSITY OF TX MD ANDERSON CAN CTR
• 依托单位国家: 美国
• 财政年份: 2011
• 资助国家: 美国
• 起止时间: 2011-08-23 至 2017-12-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8685000
• 关键词: Bayesian Method; Bioinformatics; Biological; Biological Assay; Biology; Cancer Patient; Clinical; Clinical Data; Communication; Computational Biology; Computer Simulation; Computer software; Data; Data Analyses; Data Set; Dependence; Dependency; Development; Diagnosis; Documentation; Ensure; Family; Genetic; Genomics; Goals; Human Resources; Interdisciplinary Study; Joints; Laboratories; Letters; Link; Malignant Neoplasms; Methodology; Methods; Modeling; Multivariate Analysis; Patient Care; Prevention strategy; Principal Investigator; Process; Reproducibility; Research; Research Personnel; Risk; Scientist; Selection for Treatments; Statistical Methods; Statistical Models; Structure; Work; cancer prevention; computerized tools; epigenomics; experience; improved; indexing; novel; outcome forecast; response; software development; transcriptomics; treatment strategy; user-friendly

DESCRIPTION (provided by applicant): The primary objective of this proposal is to develop adaptive and exible statistical models for analyses of multivariate, functional and spatial data from high-throughput biomedical studies. These studies raise computational, modeling, and inferential challenges with respect to high-dimensionality as well as structured dependency induced by the various aspects of the processes generating the data. Our work is motivated by, and will be applied to, data from a variety of high- throughput cancer-related studies that were conducted by our biomedical collaborators, in genomics, epigenomics and transcriptomics; although our methods are generally applicable to other contexts. The short-term objective of this research is to develop novel statistical methods and computational tools for statistical and probabilistic modeling of such high-throughput data with particular emphasis on integrative methods to combine information within and across dierent assays as well as clinical data to answer important biological questions. Our long-term goal is to improve risk prediction and treatment selection in cancer prevention, diagnosis and prognosis. We will accomplish the objective of this application by pursuing the following ve specic aims (1) develop new methodology for Bayesian adaptive generalized functional linear mixed models, allowing for local and nonlinear association structures between scalar responses and functional predictors (2) develop hierarchical Bayesian joint models for integrating diverse types of multivariate and functional data. (3) develop Bayesian spatial-functional process models for spatially indexed high-dimensional functional data, methods for data requiring a broader class of within-function and between-function covariance structures using exible families of covariance functions. (4) develop multivariate Bayesian spatial-functional models for joint modeling of multiple spatially indexed functional data. (5) develop ecient, user-friendly and freely available software for the proposed methods.

DESCRIPTION (provided by applicant): The primary objective of this proposal is to develop adaptive and exible statistical models for analyses of multivariate, functional and spatial data from high-throughput biomedical studies. These studies raise computational, modeling, and inferential challenges with respect to high-dimensionality as well as structured dependency induced by the various aspects of the processes generating the data. Our work is motivated by, and will be applied to, data from a variety of high- throughput cancer-related studies that were conducted by our biomedical collaborators, in genomics, epigenomics and transcriptomics; although our methods are generally applicable to other contexts. The short-term objective of this research is to develop novel statistical methods and computational tools for statistical and probabilistic modeling of such high-throughput data with particular emphasis on integrative methods to combine information within and across dierent assays as well as clinical data to answer important biological questions. Our long-term goal is to improve risk prediction and treatment selection in cancer prevention, diagnosis and prognosis. We will accomplish the objective of this application by pursuing the following ve specic aims (1) develop new methodology for Bayesian adaptive generalized functional linear mixed models, allowing for local and nonlinear association structures between scalar responses and functional predictors (2) develop hierarchical Bayesian joint models for integrating diverse types of multivariate and functional data. (3) develop Bayesian spatial-functional process models for spatially indexed high-dimensional functional data, methods for data requiring a broader class of within-function and between-function covariance structures using exible families of covariance functions. (4) develop multivariate Bayesian spatial-functional models for joint modeling of multiple spatially indexed functional data. (5) develop ecient, user-friendly and freely available software for the proposed methods.

项目成果

A Two-Sample Test for Equality of Means in High Dimension.

• DOI: 10.1080/01621459.2014.934826
• 发表时间: 2015-06-01
• 期刊: Journal of the American Statistical Association
• 影响因子: 3.7
• 作者: Gregory KB;Carroll RJ;Baladandayuthapani V;Lahiri SN
• 通讯作者: Lahiri SN

Prediction-Oriented Marker Selection (PROMISE): With Application to High-Dimensional Regression.

• DOI: 10.1007/s12561-016-9169-5
• 发表时间: 2017-06
• 期刊: Statistics in biosciences
• 影响因子: 1
• 作者: Kim S;Baladandayuthapani V;Lee JJ
• 通讯作者: Lee JJ

Bayesian Variable Selection in Linear Regression in One Pass for Large Data Sets.

大型数据集一次性线性回归中的贝叶斯变量选择。

• DOI: 10.1145/2629617
• 发表时间: 2014
• 期刊: ACM transactions on knowledge discovery from data
• 影响因子: 3.6
• 作者: Ordonez,Carlos;Garcia-Alvarado,Carlos;Baladandayuthapani,Veerabhadran
• 通讯作者: Baladandayuthapani,Veerabhadran

STATISTICAL TESTS FOR LARGE TREE-STRUCTURED DATA.

• DOI: 10.1080/01621459.2016.1240081
• 发表时间: 2017
• 期刊: Journal of the American Statistical Association
• 影响因子: 3.7

Role of multiresolution vulnerability indices in COVID-19 spread in India: a Bayesian model-based analysis.

• DOI: 10.1136/bmjopen-2021-056292
• 发表时间: 2022-11-17
• 期刊: BMJ OPEN
• 影响因子: 2.9
• 作者: Bhattacharyya, Rupam;Burman, Anik;Singh, Kalpana;Banerjee, Sayantan;Maity, Subha;Auddy, Arnab;Rout, Sarit Kumar;Lahoti, Supriya;Panda, Rajmohan;Baladandayuthapani, Veerabhadran
• 通讯作者: Baladandayuthapani, Veerabhadran