Zsolt Boldogkői

The paper reanalyzes sequencing data to reconstruct full-length monkeypox virus transcripts and shows temporal changes in gene regulation and transcript structure.

The paper examines how the canine fecal metabolome shifts during dietary changes and recovers when the diet is reverted, finding rapid and largely reversible changes with individual variation.

This study compares full-length ONT 16S and shotgun metagenomics in canine fecal samples, finding high functional concordance but lower taxonomic agreement, with host-specific references improving taxonomic consistency.

The paper presents DogMAG, a canine gut metagenome resource with assembled bacterial genomes and viral candidates using long-read and hybrid sequencing.

The paper profiles gut microbiota changes in astronauts during short-duration spaceflight and finds individualized, temporally localized shifts rather than uniform restructuring.

This study tracks the maturation of the canine gut microbiome through early life, showing it follows an age-diet trajectory but remains constrained by host-specific factors.

LoRTIA Plus improves transcriptome annotation from long-read RNA-seq data by achieving high F1 scores for TSSs, TESs, and transcripts across multiple chemistries and organisms.

This study uses longitudinal long-read 16S rRNA sequencing in dogs to show how age, diet, and birth mode shape gut microbiome development, revealing structured transitions and delivery-mode effects.

This paper uses long-read RNA sequencing to create a comprehensive transcriptomic atlas of Caviid Gammaherpesvirus 1, revealing its transcriptome and regulatory mechanisms.

This study evaluates how DNA extraction, primer selection, and sequencing platforms affect canine gut microbiome profiling by generating a large, standardized dataset for benchmarking bioinformatics pipelines.

This study compares gut metagenomic profiling strategies across multiple stages and introduces an optimized pipeline and software tool for reliable and comparable results.

This study uses CAGE and long-read RNA sequencing to analyze the transcriptional architecture of human monkeypox virus, identifying alternative TSSs, TESs, promoter elements, and novel genes.

This study enhances the annotation of the KSHV transcriptome using long-read and short-read sequencing, identifying novel transcripts and improving existing annotations.

The paper uses long-read sequencing to identify novel Ori-proximal transcripts in herpesviruses, revealing regulatory complexity in DNA replication and transcription.

The paper introduces SnISOr-Seq, a method for single-nuclei isoform RNA sequencing, and finds distinct combination patterns of transcript elements in human brain cell types.

This study uses high-temporal-resolution nanopore sequencing to analyze SARS-CoV-2 and host cell transcriptomes at high coverage with a high virus titer.

This study uses long-read sequencing to analyze the human cytomegalovirus transcriptome, identifying novel transcript variants and complex transcriptional overlaps.

This study combines short and long-read sequencing to reveal a complex transcriptomic architecture of African swine fever virus, identifying novel genes, transcripts, and polycistronic RNA structures.

This study uses long-read sequencing to analyze the complex transcriptome of vaccinia virus and its impact on host gene expression, revealing extensive transcript isoforms and gene interactions.

This study profiles the dynamic lytic transcriptome of BoHV-1 using long-read sequencing and assesses its impact on the host cell transcriptome, revealing complex transcriptional overlaps and upregulated antiviral and viral genes.

The paper compares short-read and long-read sequencing methods to analyze the dynamic transcriptome of African swine fever virus and its host.

The paper reanalyzes an HSV-1 transcriptome dataset using multiplatform and meta-analytic approaches to highlight the necessity of such methods for reliable transcriptome profiling.

This study investigates the role of Type IV collagen in Drosophila muscle fibers, showing that mutations lead to sarcomere structural defects and integrin-mediated adhesion issues.

This study uses long-read sequencing to characterize the HSV-1 lytic transcriptome, identifying over 160 new transcripts and revealing complex transcriptional overlaps and novel features.

The paper uses long-read sequencing to analyze the VZV transcriptome, identifying novel transcripts, spliced variants, and a new class of non-coding RNAs, revealing a complex transcriptomic structure.

This study compares whole exome sequencing to array-based and whole genome sequencing in population genetic analysis, finding exome sequencing offers a better alternative to array-based methods.

MITOMIX uses a new distance metric to analyze admixture in populations, showing modern Hungarians have mostly European ancestry with minor contributions from conquerors.