Jernej Ule

Research interests

Publications

• TDP-43 loss and ALS-risk SNPs drive mis-splicing and depletion of UNC13A

  Nature · 2022 · https://doi.org/10.1038/s41586-022-04436-3

• Alternative Splicing Regulatory Networks: Functions, Mechanisms, and Evolution

  Molecular Cell · 2019 · https://doi.org/10.1016/j.molcel.2019.09.017

• High-Resolution RNA Maps Suggest Common Principles of Splicing and Polyadenylation Regulation by TDP-43

  Cell Reports · 2017 · https://doi.org/10.1016/j.celrep.2017.04.028

• Orthogonal matrix factorization enables integrative analysis of multiple RNA binding proteins

  Bioinformatics · 2016 · https://doi.org/10.1093/bioinformatics/btw003

• Recursive splicing in long vertebrate genes

  Nature · 2015 · https://doi.org/10.1038/nature14466

• The RNA-binding protein HuR is essential for the B cell antibody response

  Nature Immunology · 2015 · https://doi.org/10.1038/ni.3115

• Aberrant methylation of tRNAs links cellular stress to neuro‐developmental disorders

  The EMBO Journal · 2014 · https://doi.org/10.15252/embj.201489282

• Rbfox2-Coordinated Alternative Splicing of Mef2d and Rock2 Controls Myoblast Fusion during Myogenesis

  Molecular Cell · 2014 · https://doi.org/10.1016/j.molcel.2014.06.035

• Analysis of CLIP and iCLIP methods for nucleotide-resolution studies of protein-RNA interactions

  Genome biology · 2012 · https://doi.org/10.1186/gb-2012-13-8-r67

• CELF4 Regulates Translation and Local Abundance of a Vast Set of mRNAs, Including Genes Associated with Regulation of Synaptic Function

  PLoS Genetics · 2012 · https://doi.org/10.1371/journal.pgen.1003067

• The RNA-binding landscapes of two SR proteins reveal unique functions and binding to diverse RNA classes

  Genome biology · 2012 · https://doi.org/10.1186/gb-2012-13-3-r17

• Widespread binding of FUS along nascent RNA regulates alternative splicing in the brain

  Scientific Reports · 2012 · https://doi.org/10.1038/srep00603

• Analysis of alternative splicing associated with aging and neurodegeneration in the human brain

  Genome Research · 2011 · https://doi.org/10.1101/gr.122226.111

• Characterizing the RNA targets and position-dependent splicing regulation by TDP-43

  Nature Neuroscience · 2011 · https://doi.org/10.1038/nn.2778

• iCLIP - Transcriptome-wide Mapping of Protein-RNA Interactions with Individual Nucleotide Resolution

  Journal of Visualized Experiments · 2011 · https://doi.org/10.3791/2638

• The Cyclin K/Cdk12 complex maintains genomic stability via regulation of expression of DNA damage response genes

  Genes & Development · 2011 · https://doi.org/10.1101/gad.16962311

• iCLIP reveals the function of hnRNP particles in splicing at individual nucleotide resolution

  Nature Structural & Molecular Biology · 2010 · https://doi.org/10.1038/nsmb.1838

• iCLIP Predicts the Dual Splicing Effects of TIA-RNA Interactions

  PLoS Biology · 2010 · https://doi.org/10.1371/journal.pbio.1000530

• HITS-CLIP yields genome-wide insights into brain alternative RNA processing

  Nature · 2008 · https://doi.org/10.1038/nature07488

• CLIP Identifies Nova-Regulated RNA Networks in the Brain

  Science · 2003 · https://doi.org/10.1126/science.1090095

Current projects

No projects listed.