Pedro Carmona‐Sáez

This paper constructs a transcriptional patient map of SLE using single-cell and bulk RNA-seq data, identifying conserved immune programs in blood and kidney tissue.

This study shows ADAMTS1 modulates macrophage function and tumour progression via SDC4 shedding, with model-specific effects in B16F1 and LLC tumours.

This paper introduces singleDeep, a deep learning pipeline for scRNA-Seq data analysis that improves phenotype prediction and provides insights into gene importance and cell types.

The paper shows that Polycomb repression during S/G2 phases restricts differentiation gene activation, allowing it to occur primarily in G1 phase in mouse ESCs.

GeneCodis 4 extends functional enrichment analysis to regulatory elements like transcription factors, CpG sites, and miRNAs, with new databases and visualizations.

This study identifies placental DNA methylation changes linked to maternal smoking during pregnancy and their associations with birth outcomes using data from the PACE consortium.

ADEx is a database integrating omics data from autoimmune diseases, offering analysis tools for exploring transcriptomics and methylation studies.

The paper identifies four molecular clusters in systemic autoimmune diseases using transcriptome and methylome data, showing three stable aberrant patterns and one non-specific cluster.

DREIMT prioritizes immunomodulatory drugs by analyzing gene expression signatures and drug profiles.

The paper shows that PRC2 subunits are differentially recruited across the cell cycle in mESCs, enabling chromatin state changes that facilitate differentiation in G1.

mCSEA detects subtle differentially methylated regions in epigenetic data, outperforming existing tools and identifying methylation changes linked to metabolic disorders.