List of works - Chris Holmes

A Bayesian approach using covariance of single nucleotide polymorphism data to detect differences in linkage disequilibrium patterns between groups of individuals

scientific article

A boosting approach to structure learning of graphs with and without prior knowledge.

scientific article

A cautionary note on the use of unsupervised machine learning algorithms to characterise malaria parasite population structure from genetic distance matrices

scientific article published on 09 October 2020

A general framework for updating belief distributions.

scientific article published on 23 February 2016

A statistical approach for detecting genomic aberrations in heterogeneous tumor samples from single nucleotide polymorphism genotyping data

scientific article

Accounting for control mislabeling in case-control biomarker studies

scientific article

Bayesian coclustering of Anopheles gene expression time series: study of immune defense response to multiple experimental challenges.

scientific article

Bayesian partitioning for estimating disease risk.

scientific article published in March 2001

Bayesian wavelet networks for nonparametric regression.

scientific article published in January 2000

CNV discovery using SNP genotyping arrays.

scientific article published on January 2008

Dietary chitosan inhibits hypercholesterolaemia and atherogenesis in the apolipoprotein E-deficient mouse model of atherosclerosis ⬇️

scientific article published on June 1, 1998

GREVE: Genomic Recurrent Event ViEwer to assist the identification of patterns across individual cancer samples ⬇️

scientific article published on September 8, 2012

Generalized monotonic regression using random change points.

scientific article published in February 2003

GenoSNP: a variational Bayes within-sample SNP genotyping algorithm that does not require a reference population.

scientific article published on 24 July 2008

Germline mutations affecting the proofreading domains of POLE and POLD1 predispose to colorectal adenomas and carcinomas ⬇️

scientific article

High-throughput mouse phenomics for characterizing mammalian gene function

scientific article published on 6 April 2018

Integrative network-based Bayesian analysis of diverse genomics data

scientific article

Machine learning analysis plans for randomised controlled trials: detecting treatment effect heterogeneity with strict control of type I error

scientific article published on 10 February 2020

Machine learning and artificial intelligence research for patient benefit: 20 critical questions on transparency, replicability, ethics, and effectiveness

scientific article published on 20 March 2020

Methods for qPCR gene expression profiling applied to 1440 lymphoblastoid single cells.

scientific article

NucleoFinder: a statistical approach for the detection of nucleosome positions.

scientific article

On the Utility of Graphics Cards to Perform Massively Parallel Simulation of Advanced Monte Carlo Methods ⬇️

scientific article published on December 1, 2010

Principles of Bayesian Inference Using General Divergence Criteria

scientific article published on 06 June 2018

Quantification of subclonal distributions of recurrent genomic aberrations in paired pre-treatment and relapse samples from patients with B-cell chronic lymphocytic leukemia ⬇️

scientific article published on January 19, 2012

Reprioritizing Genetic Associations in Hit Regions Using LASSO‐Based Resample Model Averaging ⬇️

scientific article published on April 30, 2012

Robust Linear Models for Cis-eQTL Analysis

scientific article published on 18 May 2015

Scalable Bayesian nonparametric measures for exploring pairwise dependence via Dirichlet Process Mixtures.

scientific article

Scalable Bayesian nonparametric regression via a Plackett-Luce model for conditional ranks.

scientific article

Statistical Inference in Hidden Markov Models Using k-Segment Constraints

scientific article

Statistical estimation of cell-cycle progression and lineage commitment in Plasmodium falciparum reveals a homogeneous pattern of transcription in ex vivo culture.

scholarly article

Survival in stage II/III colorectal cancer is independently predicted by chromosomal and microsatellite instability, but not by specific driver mutations

scientific article published on 17 September 2013

Use of multivariate analysis to suggest a new molecular classification of colorectal cancer.

scientific article published on February 2013

Variance decomposition of protein profiles from antibody arrays using a longitudinal twin model.

scientific article published on 17 November 2011

List of works by Chris Holmes

A Bayesian approach using covariance of single nucleotide polymorphism data to detect differences in linkage disequilibrium patterns between groups of individuals

A boosting approach to structure learning of graphs with and without prior knowledge.

A cautionary note on the use of unsupervised machine learning algorithms to characterise malaria parasite population structure from genetic distance matrices

A general framework for updating belief distributions.

A statistical approach for detecting genomic aberrations in heterogeneous tumor samples from single nucleotide polymorphism genotyping data

Accounting for control mislabeling in case-control biomarker studies

Bayesian coclustering of Anopheles gene expression time series: study of immune defense response to multiple experimental challenges.

Bayesian partitioning for estimating disease risk.

Bayesian wavelet networks for nonparametric regression.

CNV discovery using SNP genotyping arrays.

Dietary chitosan inhibits hypercholesterolaemia and atherogenesis in the apolipoprotein E-deficient mouse model of atherosclerosis ⬇️

GREVE: Genomic Recurrent Event ViEwer to assist the identification of patterns across individual cancer samples ⬇️

Generalized monotonic regression using random change points.

GenoSNP: a variational Bayes within-sample SNP genotyping algorithm that does not require a reference population.

Germline mutations affecting the proofreading domains of POLE and POLD1 predispose to colorectal adenomas and carcinomas ⬇️

High-throughput mouse phenomics for characterizing mammalian gene function

Integrative network-based Bayesian analysis of diverse genomics data

Machine learning analysis plans for randomised controlled trials: detecting treatment effect heterogeneity with strict control of type I error

Machine learning and artificial intelligence research for patient benefit: 20 critical questions on transparency, replicability, ethics, and effectiveness

Methods for qPCR gene expression profiling applied to 1440 lymphoblastoid single cells.

NucleoFinder: a statistical approach for the detection of nucleosome positions.

On the Utility of Graphics Cards to Perform Massively Parallel Simulation of Advanced Monte Carlo Methods ⬇️

Principles of Bayesian Inference Using General Divergence Criteria

Quantification of subclonal distributions of recurrent genomic aberrations in paired pre-treatment and relapse samples from patients with B-cell chronic lymphocytic leukemia ⬇️

Reprioritizing Genetic Associations in Hit Regions Using LASSO‐Based Resample Model Averaging ⬇️

Robust Linear Models for Cis-eQTL Analysis

Scalable Bayesian nonparametric measures for exploring pairwise dependence via Dirichlet Process Mixtures.

Scalable Bayesian nonparametric regression via a Plackett-Luce model for conditional ranks.

Statistical Inference in Hidden Markov Models Using k-Segment Constraints

Statistical estimation of cell-cycle progression and lineage commitment in Plasmodium falciparum reveals a homogeneous pattern of transcription in ex vivo culture.

Survival in stage II/III colorectal cancer is independently predicted by chromosomal and microsatellite instability, but not by specific driver mutations

Use of multivariate analysis to suggest a new molecular classification of colorectal cancer.

Variance decomposition of protein profiles from antibody arrays using a longitudinal twin model.