Tülay Karakulak

Heterogeneous and Novel Transcript Expression in Single Cells of Patient-Derived ccRCC Organoids

This study uses single-cell long-read sequencing to analyze transcriptomes of ccRCC organoids, identifying novel transcripts and highlighting cell-specific alternative splicing events.

Comparison of Single-cell Long-read and Short-read Transcriptome Sequencing of Patient-derived Organoid Cells of ccRCC: Quality Evaluation of the MAS-ISO-seq Approach

CanIsoNet: A Database to Study the Functional Impact of Isoform Switching Events in Diseases

CanIsoNet is a database that integrates isoform expression data with interaction networks and ClinVar annotations to predict the pathogenic impact of isoform switching events in diseases.

Predicting the Specificity-Determining Positions of Paralogous Complexes

The paper evaluates sequence- and structure-based methods to predict specificity-determining positions in Axl complexes, finding sequence-based methods overpredict and that combining them with HADDOCK improves predictions.

How far are we in the rapid prediction of drug resistance caused by kinase mutations?

The paper evaluates six web-based tools for predicting kinase mutation effects on ligand binding using a benchmark dataset, finding that some tools perform well when assessing directional changes in binding affinity.