Yuna Blum

The constitutive androstane receptor protects against metabolic dysfunction-associated steatotic liver disease through sex specific interactions with the gut microbiota

This study shows that the constitutive androstane receptor (CAR) protects against MASLD in males through interactions with gut microbiota, but not in females.

A single-nucleus atlas of the adult laying hen liver reveals metabolic specialization and improved cellular resolution through enhanced genome annotation

The paper creates a single-nucleus RNA sequencing atlas of the adult chicken liver, revealing cellular composition and showing improved resolution through enhanced genome annotation.

Benchmarking circRNA Detection Tools from Long-Read Sequencing Using Data-Driven and Flexible Simulation Framework

This paper benchmarks circRNA detection tools using a simulation framework and finds they vary in performance, with limited overlap in detected circRNAs and significant computational efficiency differences.

A robust workflow to benchmark deconvolution of multi-omic data

This paper benchmarks deconvolution algorithms for multi-omic data, identifying their strengths and limitations across different conditions and data types.

Hepatocyte ERα orchestrates sex-specific liver adaptation to fasting and feeding states

This study shows hepatocyte ERα regulates sex-specific liver responses to fasting and feeding, affecting gene expression and metabolic pathways differently in males and females.

Cirscan: a shiny application to identify differentially active sponge mechanisms and visualize circRNA-miRNA-mRNA networks.

Cirscan identifies differentially active circRNA sponge mechanisms and visualizes circRNA-miRNA-mRNA networks from transcriptomic data.

DECONbench: a benchmarking platform dedicated to deconvolution methods for tumor heterogeneity quantification

DECONbench benchmarks deconvolution methods for quantifying tumor cell-type heterogeneity by providing datasets, tools, and performance evaluation.

SMAP: exploiting high-throughput sequencing data of patient derived xenografts

SMAP improves sequencing analysis of xenografts by accurately mapping reads to both host and graft genomes and enhancing fusion transcript detection.