Nicholas M. Luscombe

The paper translates mitochondrial sequences of non-ascidian tunicates using the ascidian mitochondrial genetic code and recommends its systematic use for all tunicates.

The paper uses spliceosome iCLIP to map human spliceosome engagement with snRNAs and pre-mRNAs, identifying over 50,000 branchpoints and their associated splicing factor binding patterns.

The paper investigates FUS mislocalization in ALS, finding it occurs in both VCP-mutation related and sporadic ALS, and links it to aberrant intron retention in SFPQ transcripts.

The paper analyzes CRISPR-Cas9 editing precision in human cells, finding that indel profiles vary by site and can be predicted based on sequence and chromatin features.

The paper maps oxidative DNA damage and repair across the genome, revealing regioselective protection of regulatory and coding regions from mutations.

The paper challenges the established model of neural induction by showing that cells commit to anterior or posterior regional identities before acquiring neural identity.

The paper shows that LINE repeat sequences recruit RNA-binding proteins to repress splicing and 3' end processing in introns, contributing to lineage-specific RNA processing in mammals.

A Wasserstein GAN trained on three batch-uncorrected mouse epidermal scRNA-seq datasets simulates realistic cells, predicts differentiation via latent arithmetic, and infers gene networks recovering Gata6 targets.

The paper identifies post-transcriptional changes during motor neurogenesis in ALS models, showing premature intron retention in VCP-mutant cells and similar effects in SOD1 and FUS mutations.

The paper integrates genetic and cell biological data from human iPSC lines to identify intrinsic and extrinsic factors driving inter-individual variability in cell behavior.

The paper analyzes 200,000 human TSSs to understand how new TSSs originate and evolve, finding that repetitive sequences and regulatory modules influence their emergence and modification over time.

The paper investigates how Wnt/beta-catenin signaling in neighboring cells affects transcriptome heterogeneity and proliferative fate in mouse keratinocytes.

The paper evaluates computational methods for analyzing CLIP data to understand protein-RNA interactions and assesses their impact on regulatory insights.