Gökhan Karakülah

MOCHI identifies candidate independent intronic transcripts from short-read RNA-seq data, revealing novel transcripts associated with cancer survival.

The paper reports a novel neurodevelopmental disorder caused by a frameshift mutation in ATG9B, and characterizes its effects using cell models and knock-in mice.

BrAIn quantifies brain organoid morphology and evaluates growth conditions' effects on development and complexity.

regulaTER is an R library that predicts the regulatory roles of transposable elements using genomics data and validates its capabilities using EMT/MET transition data.

The paper benchmarks six structure-based binding affinity predictors on Spike-ACE2 mutations, finding FoldX performs best with R = -0.51 and 64% accuracy in binary classification.

The paper examines mutations in SARS-CoV-2 proteins and finds that nsp14 mutations are strongly linked to increased genome-wide mutation load.

The paper examines how mutation density changes in SARS-CoV-2 relate to pandemic stages and finds differences between strains with and without key mutations in spike and RdRp genes.

The paper investigates the impact of RdRp mutations on SARS-CoV-2 mutation rate and spread by analyzing viral genome sequences.

The paper identifies ~8,000 barley lncRNAs, finds their tissue-specific expression under boron stress, and shows their potential role in B-stress response through miRNA-eTM-coding transcript interactions.

The paper uses next-generation sequencing and synthetic neurotransmission to show that large dense-core vesicles contain miRNAs and that miRNA exocytosis is mediated by SNARE and accelerated by Ca2+.