Featured Publications

Get to know some of the latest publications by our faculties.

Locus-specific HERV expression associated with hepatocellular carcinoma

January 4, 2026

Human endogenous retroviruses (HERVs) harbor accessory proteins that influence cellular processes and have been linked to a wide variety of diseases, including cancer. This study investigates locus-specific HERV expression and its association with gene dysregulation in hepatocellular carcinoma (HCC), a highly prevalent and deadly form of liver cancer worldwide.

Analysis of metagenomic data

January 4, 2026

Metagenomics has revolutionized our understanding of microbial communities, offering unprecedented insights into their genetic and functional diversity across Earth’s diverse ecosystems.

Estimating rare disease prevalence and costs in the USA: a cohort study approach using the Healthcare Cost Institute claims data

January 4, 2026

Estimating rare disease prevalence and costs in the USA: a cohort study approach using the Healthcare Cost Institute claims data

Taxonomic composition of bacteriomes. Venn diagrams representing the core unique and shared microbiomes in cows faecal material and milk samples, and mouse faecal material and mammary tissues. Bacterial species detected in A cows faecal material, B cows milk, C mouse faecal material and D mouse mammary tissues. E Unique and shared bacterial species in CM, and F unique and shared bacterial species in H metagenomes of both cows and mice. Bacterial species shared in cow and mouse mastitis

Induction of mastitis by cow-to-mouse fecal and milk microbiota transplantation causes microbiome dysbiosis and genomic functional perturbation in mice

January 4, 2026

To understand the host-tropism phenomena of bovine-tropic mastitis microbiomes, we developed a cow-to-mouse mastitis model.

Differential expression of single-cell RNA-seq data using Tweedie models

January 4, 2026

To model the technological variability in cross-platform scRNA-seq data, here we propose to use Tweedie generalized linear models.

The Hi-C contact heat maps obtained after manual correction of genome assemblies. A, A. coluzzii AcolMOP1. B, A. arabiensis AaraD3. From left to right in each heat map, chromosome X, chromosome 2 (2R+2L), chromosome 3 (3R+3L). The heat maps were produced by JBAT.

Chromosome-level genome assemblies of the malaria vectors Anopheles coluzzii and Anopheles arabiensis

January 4, 2026

We produced chromosome-level genome assemblies for A. coluzzii and A. arabiensis using Oxford Nanopore sequencing technology and Hi-C scaffolding approach.

Impact of Antibiotics on the Lung Microbiome and Lung Function in Children With Cystic Fibrosis 1 Year After Hospitalization for an Initial Pulmonary Exacerbation

January 4, 2026

The purpose of this study was to evaluate changes in the microbiome and lung function in people with CF over 1 year after an initial pulmonary exacerbation.

LDA score and relative frequency (inlet) of differentially abundant enriched pathways in the control and treatment groups of the Mencía must (A) and wine (B). Bios: biosynthesis; DUA: degradation/utilization/assimilation; GPME: generation of precursor metabolites and energy; MM: macromolecule modification.

Integrated Fertilization with Bagasse Vermicompost Changes the Microbiome of Mencía Must and Wine

January 4, 2026

Grape marc, or bagasse, is a byproduct of wine production that can be vermicomposted and used as organic fertilizer, which improve grape yields and wine quality

Nasopharyngeal metatranscriptome profiles of infants with bronchiolitis and risk of childhood asthma: a multicentre prospective study

January 4, 2026

Our objectives were to identify metatranscriptome profiles of infant bronchiolitis, and to examine relationship with host transcriptome and asthma development.

Orienting Ordered Scaffolds: Complexity and Algorithms

January 4, 2026

We address the problem of orientating ordered scaffolds as an optimization problem based on given weighted orientations of scaffolds and their pairs.

Relationship of abundant microbial species with the risk of higher severity in infants hospitalized for bronchiolitis.

Integrated relationship of nasopharyngeal airway host response and microbiome associates with bronchiolitis severity

January 4, 2026

Bronchiolitis is a leading cause of infant hospitalizations but its immunopathology remains poorly understood.

Distribution of study participants by age and health outcome. (a) colors in all subplots reflect health status of groups as provided in the legend of subplot a. The sample population is not uniform for age ranges, with a higher proportion of older participants falling into the severe group. (b) age has a strong association with health outcomes (p-value = 0.001). (c) BMI is not associated with health outcomes (p-value = 0.1488). For assessing the association of age and gender with the health outcome status,

Metabolite, protein, and tissue dysfunction associated with COVID‑19 disease severity

January 4, 2026

Proteins are direct products of the genome and metabolites are functional products of interactions between the host and other factors.