… positive calls is particularly apparent for lowly expressed genes and transcripts, for which
the true positive rate increases steeply up to 30 million reads (Additional file 6: Figure S6E, F). …

… d–f Immunofluorescence confirmed the expected nuclear or cytoplasmic localisation of FUS
CLIP constructs, visualised using anti-FUS antibodies. Nuclei were counterstained with DAPI…

Background Nonsense-mediated mRNA decay (NMD) is a eukaryotic, translation-dependent
degradation pathway that targets mRNAs with premature termination codons and also …

Argonaute proteins are at the core of the microRNA-mediated gene silencing pathway
essential for animals. In C. elegans, the microRNA-specific Argonautes ALG-1 and ALG-2 …

… For the mapping, we used Bowtie2 (49) in the local alignment mode with the following
command line parameters: -f -D100 -L 13 -i C, 1 –score-min C, 30 –local -k 10. For reads that …

Sequencing of RNA 3′ ends has uncovered numerous sites that do not correspond to the
termination sites of known transcripts. Through their 3′ untranslated regions, protein-coding …

Small RNA pathways defend the germlines of animals against selfish genetic elements, yet
pathway activities need to be contained to prevent silencing of self genes. Here, we reveal a …

… the ZNF609 pre-mRNA (Figure 4F). It is upregulated during … while circRNAs remain unaffected
(Figure 4F,G). In addition, … nature of this molecule (Figure 4F). Moreover, circZNF609 is …

RNA sequencing (RNA-seq) is a crucial technique for many scientific studies and multiple
models, and software packages have been developed for the processing and analysis of such …

… mutations in su(Hw) or su(f) genes. We have shown that binding to … (f) mutations which
activate gypsy transcription; therefore the su(f) gene seems to code for a protein capable of gypsy …