Jiarui Ding

2017 PhD Graduate

Interpretable dimensionality reduction of single cell transcriptome data with deep generative models.

densityCut: an efficient and versatile topological approach for automatic clustering of biological data.

Identification of the epigenetic reader CBX2 as a potential drug target in advanced prostate cancer.

Systematic analysis of somatic mutations impacting gene expression in 12 tumour types.

Cis-regulatory somatic mutations and gene-expression alteration in B-cell lymphomas.

Intratumoral heterogeneity in a minority of ovarian low-grade serous carcinomas.

An RCOR1 loss-associated gene expression signature identifies a prognostically significant DLBCL subgroup.

TITAN: inference of copy number architectures in clonal cell populations from tumor whole-genome sequence data.

A robust hidden semi-Markov model with application to aCGH data processing.

Distinct evolutionary trajectories of primary high-grade serous ovarian cancers revealed through spatial mutational profiling.

Ovarian and endometrial endometrioid carcinomas have distinct CTNNB1 and PTEN mutation profiles.

Mutational and structural analysis of diffuse large B-cell lymphoma using whole-genome sequencing.

DriverNet: uncovering the impact of somatic driver mutations on transcriptional networks in cancer.

Mutation discovery in regions of segmental cancer genome amplifications with CoNAn-SNV: a mixture model for next generation sequencing of tumors.

Use of mutation profiles to refine the classification of endometrial carcinomas.

Integrative analysis of genome-wide loss of heterozygosity and monoallelic expression at nucleotide resolution reveals disrupted pathways in triple-negative breast cancer.

The clonal and mutational evolution spectrum of primary triple-negative breast cancers.

JointSNVMix: a probabilistic model for accurate detection of somatic mutations in normal/tumour paired next-generation sequencing data.

BRCA1 and BRCA2 mutations correlate with TP53 abnormalities and presence of immune cell infiltrates in ovarian high-grade serous carcinoma.

Feature-based classifiers for somatic mutation detection in tumour-normal paired sequencing data.