[HTML][HTML] The effects of death and post-mortem cold ischemia on human tissue transcriptomes

…, A Sousa, A Amadoz, R Sodaei, MR Hidalgo… - Nature …, 2018 - nature.com
Post-mortem tissues samples are a key resource for investigating patterns of gene expression.
However, the processes triggered by death and the post-mortem interval (PMI) can …

A comparison of mechanistic signaling pathway activity analysis methods

A Amadoz, MR Hidalgo, C Cubuk… - Briefings in …, 2019 - academic.oup.com
Understanding the aspects of cell functionality that account for disease mechanisms or drug
modes of action is a main challenge for precision medicine. Classical gene-based …

[HTML][HTML] Functional signatures in non-small-cell lung cancer: a systematic review and meta-analysis of sex-based differences in transcriptomic studies

I Pérez-Díez, MR Hidalgo, P Malmierca-Merlo… - Cancers, 2021 - mdpi.com
Simple Summary Differences in epidemiological and clinical patterns of lung adenocarcinoma
have been described between male and female patients. Our study aimed to assess the …

[HTML][HTML] A Comprehensive Transcriptional Signature in Pancreatic Ductal Adenocarcinoma Reveals New Insights into the Immune and Desmoplastic …

I Pérez-Díez, Z Andreu, MR Hidalgo… - Cancers, 2023 - mdpi.com
Simple Summary Pancreatic ductal adenocarcinoma (PDAC) is a highly lethal disease with
a few curative options. Desmoplastic stroma and immune system evasion in PDAC represent …

Babelomics 5.0: functional interpretation for new generations of genomic data

…, R Sanchez, C Cubuk, MR Hidalgo… - Nucleic acids …, 2015 - academic.oup.com
Babelomics has been running for more than one decade offering a user-friendly interface
for the functional analysis of gene expression and genomic data. Here we present its fifth …

[HTML][HTML] High throughput estimation of functional cell activities reveals disease mechanisms and predicts relevant clinical outcomes

MR Hidalgo, C Cubuk, A Amadoz, F Salavert… - Oncotarget, 2017 - ncbi.nlm.nih.gov
Understanding the aspects of the cell functionality that account for disease or drug action
mechanisms is a main challenge for precision medicine. Here we propose a new method that …

[HTML][HTML] Unveiling sex-based differences in Parkinson's disease: a comprehensive meta-analysis of transcriptomic studies

A López-Cerdán, Z Andreu, MR Hidalgo… - Biology of Sex …, 2022 - Springer
In recent decades, increasing longevity (among other factors) has fostered a rise in Parkinson's
disease incidence. Although not exhaustively studied in this devastating disease, the …

Gene expression integration into pathway modules reveals a pan-cancer metabolic landscape

C Cubuk, MR Hidalgo, A Amadoz, MA Pujana, F Mateo… - Cancer research, 2018 - AACR
Metabolic reprogramming plays an important role in cancer development and progression
and is a well-established hallmark of cancer. Despite its inherent complexity, cellular …

[HTML][HTML] A deep transcriptome meta-analysis reveals sex differences in multiple sclerosis

JF Català-Senent, Z Andreu, MR Hidalgo… - Neurobiology of …, 2023 - Elsevier
Background Multiple sclerosis (MS), a chronic auto-immune, inflammatory, and degenerative
disease of the central nervous system, affects both males and females; however, females …

[HTML][HTML] Differential metabolic activity and discovery of therapeutic targets using summarized metabolic pathway models

C Çubuk, MR Hidalgo, A Amadoz, K Rian… - NPJ systems biology …, 2019 - nature.com
In spite of the increasing availability of genomic and transcriptomic data, there is still a gap
between the detection of perturbations in gene expression and the understanding of their …