Sherif Abou Elela

A ribosomal pseudouridine drives an oncogenic translation program

The paper shows that SNORA81-guided pseudouridylation at a specific 28S rRNA site influences selective translation and ovarian cancer cell proliferation.

A Ribosomal RNA modification regulates translation of PI3K/AKT activators in high-grade serous ovarian carcinoma

This study identifies a ribosomal RNA modification regulated by SNORA81 that affects translation of PI3K/AKT activators in high-grade serous ovarian carcinoma.

A starvation-remodeled pre-mRNA structure controls U1 recruitment and nutrient-stress adaptation in yeast

The paper identifies a structural gate in pre-mRNA that regulates U1 recruitment and nutrient-stress adaptation in yeast.

Nanopore Direct RNA Sequencing Enables Reproducible, Site-Resolved Pseudouridine Quantification in Human Ribosomal RNA

This study benchmarks nanopore direct RNA sequencing for pseudouridine quantification in human ribosomal RNA, showing high accuracy and reproducibility across multiple cell types.

Mapping of in vivo cleavage sites uncovers a major role for yeast RNase III in regulating protein-coding genes

The paper identifies Rnt1 cleavage sites in yeast mRNA and shows Rnt1 regulates protein-coding genes by controlling mRNA degradation and expression.

snoFlake: A network model for snoRNA-RBP complexes reveals SNORD22 as a U5 snRNP-associated splicing regulator

snoFlake identifies snoRNA-RBP complexes and reveals SNORD22 as a splicing regulator by interacting with U5 snRNP components.

Dissociation of the nuclear basket triggers chromosome loss in aging yeast

This study shows that nuclear basket displacement in aging yeast causes chromosome loss by disrupting pre-mRNA quality control and asymmetric segregation.

SnoBIRD: A tool to identify C/D box snoRNAs and refine their annotation across all eukaryotes

SnoBIRD identifies and refines C/D box snoRNA annotations across eukaryotes by distinguishing expressed snoRNAs from pseudogenes.

Altered tRNA processing is linked to a distinct and unusual La protein in Tetrahymena thermophila

The paper shows that Tetrahymena thermophila's Mlp1, lacking the RRM1 domain, functions as a La protein and alters tRNA processing by stabilizing 3-trailers and preventing leader/trailer pairing.

The snoGloBe interaction predictor reveals a broad spectrum of C/D snoRNA RNA targets

The paper introduces snoGloBe, a predictor of C/D snoRNA interactions that identifies both known and novel RNA targets, including viral RNAs, and shows their regulatory roles.

Post translational modification of duplicated ribosomal protein paralogs promotes alternative translation and drug resistance

The paper shows that duplicated ribosomal protein paralogs in yeast undergo differential acetylation, altering translation of genes with short or long open reading frames and contributing to drug resistance.

Annotation of snoRNA abundance across human tissues reveals complex snoRNA-host gene relationships

The paper quantifies snoRNA abundance across seven human tissues and identifies two distinct abundance classes with different host gene relationships and regulatory features.

CoCo: RNA-seq Read Assignment Correction for Nested Genes and Multimapped Reads

CoCo improves RNA-seq read assignment by correcting misassignments for nested and multimapped reads, increasing retained reads and improving abundance estimates.