Martin Modrák

HelD is a Global Transcription Factor Enhancing Gene Expression in Rapidly Growing Mycobacteria

The paper identifies HelD as a transcription factor that enhances gene expression in rapidly growing mycobacteria and reduces it in stationary phase, with implications for rifampicin resistance.

An imbalance of naive and effector T-cell phenotypes in early type 1 diabetes across conventional and regulatory subsets

The paper identifies reduced effector and cytotoxic T-cell gene expression in early type 1 diabetes across multiple T-cell subsets using single-cell transcriptomics and flow cytometry.

Retinitis pigmentosa associated mutations in mouse Prpf8 cause misexpression of circRNAs and degeneration of cerebellar granule neurons

This study shows that mutations in Prpf8 in mice lead to misexpression of circRNAs and cerebellar granule neuron degeneration.

Low miRNA abundance disables microRNA pathway in mammalian oocytes

The paper shows that low miRNA abundance in mammalian oocytes disables the miRNA pathway, as demonstrated by functional assays and cross-species analysis.

A Bayesian inference tool for identifying artifactual calls from differential transcript abundance analyses

The paper introduces ppcseq, a Bayesian tool to detect artifactual calls in differential transcript abundance analyses by identifying outliers in negative binomial models.

Reparametrizing the Sigmoid Model of Gene Regulation for Bayesian Inference

The paper reparametrizes a gene regulation ODE model to enable stable Bayesian inference using Hamiltonian Monte Carlo methods.

An algorithm for template-based prediction of secondary structures of individual RNA sequences

The paper presents a method for predicting RNA secondary structures using templates from other RNA molecules, achieving higher accuracy than existing methods.