Jernej Ule

TL;DR: A genome-wide means of mapping protein–RNA binding sites in vivo, by high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation (HITS-CLIP), which revealed a large number of Nova–RNA interactions in 3′ untranslated regions, leading to the discovery that Nova regulates alternative polyadenylation in the brain.

TL;DR: CLIP reveals that Nova coordinately regulates a biologically coherent set of RNAs encoding multiple components of the inhibitory synapse, an observation that may relate to the cause of abnormal motor inhibition in POMA.

TL;DR: Individual-nucleotide resolution UV cross-linking and immunoprecipitation (iCLIP) data show that hnRNP C recognizes uridine tracts with a defined long-range spacing consistent with hmRNP particle organization, and integration of transcriptome-wide iCLIP data and alternative splicing profiles into an 'RNA map' indicates how the positioning of hn RNP particles determines their effect on the inclusion of alternative exons.

TL;DR: Using individual nucleotide-resolution ultraviolet cross-linking and immunoprecipitation, it is found that TDP-43 preferentially bound long clusters of UG-rich sequences in vivo, highlighting the importance of T DP-43 for the regulation of splicing in the brain.

TL;DR: An improved protocol that performs RNA linker ligation before the SDS-PAGE step is presented, and its application to the specific purification and amplification of RNA ligands of Nova in neurons is described.