Morten Muhlig Nielsen

This paper identifies circHIPK3 as a competing endogenous RNA that sequesters IGF2BP2 to regulate target mRNAs, including STAT3, and shows its correlation with bladder cancer survival.

The paper estimates miRNA activity from single-cell RNA sequencing data by analyzing motif enrichment, validated on bulk and single-cell datasets.

The paper identifies circRNA-RBP interactions in cancer, showing their role in circRNA biogenesis and cancer gene expression, with implications for bladder cancer prognosis.

The paper introduces the Cancer LncRNA Census (CLC), a curated resource of lncRNAs with causative roles in cancer, and shows their genomic and evolutionary features.

The paper identifies hundreds of genes deregulated by SVs in cancer, showing increased expression linked to SV breakpoints and enhancer elements.

ActivePathways integrates multivariate omics data to identify enriched pathways, revealing cancer driver genes and prognostic pathways in breast cancer.

Regmex identifies overrepresented motifs in ranked sequence lists using regular expressions and Markov models, with options for enrichment evaluation.

The paper develops a site-specific model to predict mutation rates in cancer genomes, showing it outperforms regional models by incorporating local genomic variables.

The paper analyzes 2500 cancer genomes to assess the molecular functional impact of mutations, finding that some putative passenger variants may influence gene activity and contribute to cancer phenotypes.

The paper identifies and characterizes coding and non-coding driver mutations across 2,500 cancer genomes, revealing new candidates and questioning previous findings.