Mark Hartmann

scIRES-seq reveals multimodal molecular heterogeneity in CTCs from small cell cervical cancer

This study introduces scIRES-seq to analyze CTCs from cervical cancer, revealing multimodal molecular heterogeneity through integrated genetic, epigenomic, and transcriptomic profiling.

Hierarchical classification of hematologic malignancies using epigenetic and genetic information

The paper develops a hierarchical classification framework combining epigenetic and genetic data with machine learning to improve diagnosis and risk stratification in hematologic malignancies.

Pipeline Olympics: continuable benchmarking of computational workflows for DNA methylation sequencing data against an experimental gold-standard

The paper benchmarks DNA methylation sequencing workflows against an experimental gold-standard, identifying superior workflows and developing a sustainable benchmarking platform.

Pyjacker identifies enhancer hijacking events in acute myeloid leukemia including MNX1 activation via deletion 7q

Pyjacker detects enhancer hijacking in AML, identifying MNX1 activation via 7q deletion as a novel oncogenic mechanism.

Dynamic DNA methylation reveals novel cis-regulatory elements in murine hematopoiesis

The paper develops a computational framework for analyzing DNA methylation data in mouse hematopoiesis, identifying novel cis-regulatory elements associated with gene expression during differentiation.

Statistically robust methylation calling for whole-transcriptome bisulfite sequencing reveals distinct methylation patterns for mouse RNAs

The paper develops a computational method to accurately call methylation in whole-transcriptome bisulfite sequencing data, revealing new methylation patterns in mouse RNAs.