gene_expression_data

A dataset containing simulated RNA-Seq data for \(G\) genes located on chromosomes 1 and 2, from \(R=2\) sample types, from \(N=4\) patients. The sample types are assumed to be benign and tumour tissues.

datasets

A joint mixture model has been developed by Majumdar et al. (2025) <doi:10.48550/arXiv.2412.17511> that integrates information from gene expression data and methylation data at the modelling stage to capture their inherent dependency structure, enabling simultaneous identification of differentially methylated cytosine-guanine dinucleotide (CpG) sites and differentially expressed genes. The model leverages a joint likelihood function that accounts for the nested structure in the data, with parameter estimation performed using an expectation-maximisation algorithm.

Koyel Majumdar

idiffomix

Integrated Differential Analysis of Multi Omics Data using a
Joint Mixture Model

Isobel Claire Gorley

Thomas Brendan Murphy

Florence Jaffrezic

Andrea Rau

gene_expression_data function

A data frame with 20 rows and 9 columns. The data contain no missing values.<ul>
<li>Gene: The gene name.</li>
<li>Patient1_GX1: Expression values from benign tissue from patient 1.</li>
<li>Patient2_GX1: Expression values from benign tissue from patient 2.</li>
<li>Patient3_GX1: Expression values from benign tissue from patient 3.</li>
<li>Patient4_GX1: Expression values from benign tissue from patient 4.</li>
<li>Patient1_GX2: Expression values from tumour tissue from patient 1.</li>
<li>Patient2_GX2: Expression values from tumour tissue from patient 2.</li>
<li>Patient3_GX2: Expression values from tumour tissue from patient 3.</li>
<li>Patient4_GX2: Expression values from tumour tissue from patient 4.</li>
</ul>

Format

Gene expression data for patients suffering from breast cancer — gene_expression_data

Gene expression data for patients suffering from breast cancer

gene_expression_data: Gene expression data for patients suffering from breast cancer

Description

Usage

Arguments

Format

Details

See Also