Tamara Hernández-Beeftink
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View article: Genome-wide association study of susceptibility to acute respiratory distress syndrome
Genome-wide association study of susceptibility to acute respiratory distress syndrome Open
View article: Sex-specific genetic effects on susceptibility to idiopathic pulmonary fibrosis
Sex-specific genetic effects on susceptibility to idiopathic pulmonary fibrosis Open
Background Idiopathic pulmonary fibrosis (IPF) is a chronic lung condition that is more prevalent in males than females. The reasons for this are not fully understood; differing environmental exposures due to historically sex-biased occupa…
View article: Rare genetic variant risks in patients with sepsis-associated acute respiratory distress syndrome
Rare genetic variant risks in patients with sepsis-associated acute respiratory distress syndrome Open
Background Acute respiratory distress syndrome (ARDS) is a complex, heterogeneous, and deadly condition often resulting from pulmonary lesions due to sepsis, among other causes. There is a lack of targeted therapies to specifically treat t…
View article: Genome-wide association study of susceptibility to acute respiratory distress syndrome
Genome-wide association study of susceptibility to acute respiratory distress syndrome Open
Introduction Acute respiratory distress syndrome (ARDS) is a severe inflammatory process of the lung, often due to sepsis, and poses significant mortality burden in intensive care units. Here we conducted the largest genome-wide associatio…
View article: Genome-wide association study of Idiopathic Pulmonary Fibrosis susceptibility using clinically-curated European-ancestry datasets
Genome-wide association study of Idiopathic Pulmonary Fibrosis susceptibility using clinically-curated European-ancestry datasets Open
Background Idiopathic pulmonary fibrosis (IPF) is a rare, incurable lung disease with a median survival of 3-5 years after diagnosis. Treatment options are limited. Genetic association studies can identify new genes involved in disease tha…
View article: Genetic regulation of the vascular endothelial growth factor receptor 1 during sepsis and association with ARDS susceptibility
Genetic regulation of the vascular endothelial growth factor receptor 1 during sepsis and association with ARDS susceptibility Open
Background Acute respiratory distress syndrome (ARDS) is associated with high mortality in Intensive Care Units (ICU). A previous genome-wide association study (GWAS) identified the vascular endothelial growth factor receptor 1 ( VEGFR1 ) …
View article: Tracheal Aspirate Metagenomics Reveals Association of Antibiotic Resistance with Nonpulmonary Sepsis Mortality
Tracheal Aspirate Metagenomics Reveals Association of Antibiotic Resistance with Nonpulmonary Sepsis Mortality Open
View article: BPF-GILD study: an observational cohort study of UK pigeon fanciers
BPF-GILD study: an observational cohort study of UK pigeon fanciers Open
Introduction Hypersensitivity pneumonitis (HP), a common interstitial lung disease (ILD), comprises two distinct but related forms, acute and fibrotic (fHP). HP is classically described as a disease triggered by antigen exposure. However, …
View article: Tracheal aspirate metagenomics reveals association of antibiotic resistance with non-pulmonary sepsis mortality
Tracheal aspirate metagenomics reveals association of antibiotic resistance with non-pulmonary sepsis mortality Open
Background Previous metabarcoding studies based on 16S rRNA sequencing in patients with extrapulmonary sepsis have found early pulmonary dysbiosis associated with a poor prognosis. To further discern this association, here we aimed to bett…
View article: Genome-wide SNP-sex interaction analysis of susceptibility to idiopathic pulmonary fibrosis
Genome-wide SNP-sex interaction analysis of susceptibility to idiopathic pulmonary fibrosis Open
Background Idiopathic pulmonary fibrosis (IPF) is a chronic lung condition that is more prevalent in males than females. The reasons for this are not fully understood, with differing environmental exposures due to historically sex-biased o…
View article: Association study of human leukocyte antigen variants and idiopathic pulmonary fibrosis
Association study of human leukocyte antigen variants and idiopathic pulmonary fibrosis Open
Introduction Idiopathic pulmonary fibrosis (IPF) is a chronic interstitial pneumonia marked by progressive lung fibrosis and a poor prognosis. Recent studies have highlighted the potential role of infection in the pathogenesis of IPF, and …
View article: Pharmacologic and Genetic Downregulation of Proprotein Convertase Subtilisin/Kexin Type 9 and Survival From Sepsis
Pharmacologic and Genetic Downregulation of Proprotein Convertase Subtilisin/Kexin Type 9 and Survival From Sepsis Open
OBJECTIVES: Treatments that prevent sepsis complications are needed. Circulating lipid and protein assemblies—lipoproteins play critical roles in clearing pathogens from the bloodstream. We investigated whether early inhibition of proprote…
View article: P191 Exploring the association between human leukocyte antigen (HLA) genetics and idiopathic pulmonary fibrosis
P191 Exploring the association between human leukocyte antigen (HLA) genetics and idiopathic pulmonary fibrosis Open
Introduction and Objective Idiopathic pulmonary fibrosis (IPF) is a chronic interstitial lung disease characterised by progressive lung fibrosis. Recent studies support the role of infection in IPF development. The Human Leukocyte Antigen …
View article: Association study of human leukocyte antigen (HLA) variants and idiopathic pulmonary fibrosis
Association study of human leukocyte antigen (HLA) variants and idiopathic pulmonary fibrosis Open
Introduction Idiopathic pulmonary fibrosis (IPF) is a chronic interstitial pneumonia marked by progressive lung fibrosis and a poor prognosis. Recent studies have highlighted the potential role of infection in the pathogenesis of IPF and a…
View article: Xanthine oxidoreductase gene polymorphisms are associated with high risk of sepsis and organ failure
Xanthine oxidoreductase gene polymorphisms are associated with high risk of sepsis and organ failure Open
Background Sepsis and associated organ failures confer substantial morbidity and mortality. Xanthine oxidoreductase (XOR) is implicated in the development of tissue oxidative damage in a wide variety of respiratory and cardiovascular disor…
View article: Genetic Determinants of the Acute Respiratory Distress Syndrome
Genetic Determinants of the Acute Respiratory Distress Syndrome Open
Acute respiratory distress syndrome (ARDS) is a life-threatening lung condition that arises from multiple causes, including sepsis, pneumonia, trauma, and severe coronavirus disease 2019 (COVID-19). Given the heterogeneity of causes and th…
View article: PCSK6 and Survival in Idiopathic Pulmonary Fibrosis
PCSK6 and Survival in Idiopathic Pulmonary Fibrosis Open
Rationale: Idiopathic pulmonary fibrosis (IPF) is a devastating disease characterized by limited treatment options and high mortality. A better understanding of the molecular drivers of IPF progression is needed. Objectives: …
View article: A genome-wide association study of survival in patients with sepsis
A genome-wide association study of survival in patients with sepsis Open
View article: ISCB RSG-Spain and highlights from the VIII Spanish Student Symposium in Bioinformatics and Computational Biology in 2021
ISCB RSG-Spain and highlights from the VIII Spanish Student Symposium in Bioinformatics and Computational Biology in 2021 Open
The Regional Student Group of Spain is recognized by the Student Council and the International Society for Computational Biology. The objective of these institutions is to connect and share useful information among all professionals and st…
View article: A Genome-Wide Association Study of Survival in Patients with Sepsis
A Genome-Wide Association Study of Survival in Patients with Sepsis Open
Background Sepsis is a severe systemic inflammatory response to infections that is accompanied by organ dysfunction and has a high mortality rate in adult intensive care units (ICUs). Most genetic studies have identified gene variants asso…
View article: PCSK6 and Survival in Idiopathic Pulmonary Fibrosis
PCSK6 and Survival in Idiopathic Pulmonary Fibrosis Open
Rationale Idiopathic pulmonary fibrosis (IPF) is a devastating disease characterized by limited treatment options and high mortality. Novel therapies and prognostic biomarkers are needed. Objective To identify and validate molecular determ…
View article: Admixture Mapping of Sepsis in European Individuals With African Ancestries
Admixture Mapping of Sepsis in European Individuals With African Ancestries Open
Sepsis is a severe systemic inflammatory response to infections that is accompanied by organ dysfunction. Although the ancestral genetic background is a relevant factor for sepsis susceptibility, there is a lack of studies using the geneti…
View article: S65 Genome-wide association study of survival times after diagnosis of idiopathic pulmonary fibrosis
S65 Genome-wide association study of survival times after diagnosis of idiopathic pulmonary fibrosis Open
Introduction Idiopathic pulmonary fibrosis (IPF) is a devastating lung disease where the lungs become progressively scarred. The median survival time after diagnosis is three years, albeit disease progression varies greatly between individ…
View article: Whole-Blood Mitochondrial DNA Copies Are Associated With the Prognosis of Acute Respiratory Distress Syndrome After Sepsis
Whole-Blood Mitochondrial DNA Copies Are Associated With the Prognosis of Acute Respiratory Distress Syndrome After Sepsis Open
Acute respiratory distress syndrome (ARDS) is an inflammatory process of the lungs that develops primarily in response to pulmonary or systemic sepsis, resulting in a disproportionate death toll in intensive care units (ICUs). Given its ro…
View article: Early Lung Bacterial Dysbiosis Predicts Patient Mortality by Non-Pulmonary Sepsis
Early Lung Bacterial Dysbiosis Predicts Patient Mortality by Non-Pulmonary Sepsis Open
View article: Sepsis-associated acute respiratory distress syndrome in individuals of European ancestry: a genome-wide association study
Sepsis-associated acute respiratory distress syndrome in individuals of European ancestry: a genome-wide association study Open
View article: Genomics and the Acute Respiratory Distress Syndrome: Current and Future Directions
Genomics and the Acute Respiratory Distress Syndrome: Current and Future Directions Open
The excessive hospital mortality associated with acute respiratory distress syndrome (ARDS) in adults mandates an urgent need for developing new therapies and tools for the early risk assessment of these patients. ARDS is a heterogeneous s…
View article: NanoDJ: a Dockerized Jupyter notebook for interactive Oxford Nanopore MinION sequence manipulation and genome assembly
NanoDJ: a Dockerized Jupyter notebook for interactive Oxford Nanopore MinION sequence manipulation and genome assembly Open
View article: NanoDJ: A Dockerized Jupyter Notebook for Interactive Oxford Nanopore MinION Sequence Manipulation and Genome Assembly
NanoDJ: A Dockerized Jupyter Notebook for Interactive Oxford Nanopore MinION Sequence Manipulation and Genome Assembly Open
Background The Oxford Nanopore Technologies (ONT) MinION portable sequencer makes it possible to use cutting-edge genomic technologies in the field and the academic classroom. Results We present NanoDJ, a Jupyter notebook integration of to…
View article: Shallow MinION sequencing to assist <i>de novo</i> assembly of the <i>Streptococcus agalactiae</i> genome
Shallow MinION sequencing to assist <i>de novo</i> assembly of the <i>Streptococcus agalactiae</i> genome Open
Despite the reduced read length, the so-called Next-Generation Sequencing (NGS) of second-generation has allowed rapid and complete genome characterization of many species. MinION (Oxford Nanopore Technologies), a portable third-generation…