biostudies-arrayexpressHomo sapienshttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-13739Giant cell arteritis and polymyalgia rheumatica are two frequently overlap conditions. A pathophysiological continuum between these two diseases has been highlighted by the demonstration of activated dendritic cells in the arterial wall of PMR and GCA patients. However, in PMR, activation of these dendritic cells was not associated with inflammatory infiltration of the arterial wall. The aim of this study was to characterize arterial wall dendritic cells during PMR and GCA. BulK RNA sequencing was performed from FFPE sections of temporal artery biopsies from control (n = 3), PMR (n = 5) and GCA (n = 3) patients. Total RNA was extracted from FFPE tissue sections using the Maxwell RSC RNA FFPE kit (Promega). Ribosomal RNA-depleted RNA was used for library preparation with the NEBNext Ultra II Directional RNA library prep kit for Illumina (New England Biolabs). Libraries were paired-end sequenced (2*76 base pairs) on a NextSeq500 device (Illumina), with a read depth of 40 million. Kallisto software was used for quantifying transcript abundance from RNA-seq data against GRCh38 cDNA reference transcriptome from the Ensembl database, v96.biostudies-arrayexpressLibrary Construction - Ribosomal RNA-depleted RNA was used for library preparation with the NEBNext Ultra II Directional RNA library prep kit for Illumina (New England Biolabs) according to the manufacturer’s instructions. Libraries were paired-end sequenced (2*76 base pairs) on a NextSeq500 device (Illumina), with a read depth of 40 millionNucleic Acid Extraction - Total RNA was extracted from FFPE tissue sections using the Maxwell RSC RNA FFPE kit (Promega) according to the manufacturer’s protocol.Sample Collection - FFPE tissue sections from control (n=3), polymyalgia rheumatica (n=5) and giant cell arteritis (n=3) temporal arteries biospiesSequencing - Kallisto software was used for quantifying transcript abundance from RNA-seq data against GRCh38 cDNA reference transcriptome from the Ensembl database, v96MINSEQE ScoreAssays and DataProcessed DataorganisationMAGE-TAB FilesData Transformation - For visualization and clustering of the samples, raw counts have been normalized using the variance stabilizing transformation method (Tibshirani 1988; Huber et al. 2003; Anders and Huber 2010) implemented in the DESeq2 package for R (Love 2014).MetabolomicsUnknownTranscriptomicsGenomicsProteomicsNextSeq 500RNA-seq of coding RNAHomo sapiensERP156938andre RAMONfalseCharacterization of arterial dendritic cells in giant cell arteritis and polymyalgia rheumaticaGiant cell arteritis and polymyalgia rheumatica are two frequently overlap conditions. A pathophysiological continuum between these two diseases has been highlighted by the demonstration of activated dendritic cells in the arterial wall of PMR and GCA patients. However, in PMR, activation of these dendritic cells was not associated with inflammatory infiltration of the arterial wall. The aim of this study was to characterize arterial wall dendritic cells during PMR and GCA. BulK RNA sequencing was performed from FFPE sections of temporal artery biopsies from control (n = 3), PMR (n = 5) and GCA (n = 3) patients. Total RNA was extracted from FFPE tissue sections using the Maxwell RSC RNA FFPE kit (Promega). Ribosomal RNA-depleted RNA was used for library preparation with the NEBNext Ultra II Directional RNA library prep kit for Illumina (New England Biolabs). Libraries were paired-end sequenced (2*76 base pairs) on a NextSeq500 device (Illumina), with a read depth of 40 million. Kallisto software was used for quantifying transcript abundance from RNA-seq data against GRCh38 cDNA reference transcriptome from the Ensembl database, v96.2026-01-18T00:00:00Z2026-01-18T02:02:23.671Z2024-01-26T18:55:51.171ZE-MTAB-13739ERP156938EFO_0002944EFO_0004170EFO_0005518EFO_0003816EFO_0003738EFO_0004184