biostudies-arrayexpressMatteo BarcellaHomo sapienshttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-15962BulkRNAseq to identify Tie2+ macrophages signature. Cells were sorted for CD14+ and Tie2 (PTEK). Two fractions were hence sequenced on NextSeq platform (Illumina) after full length cDNA amplification using the SMART-Seq mRNA LP kit (Takara).biostudies-arrayexpressSequencing - Sequencing was performed on an Illumina NextSeq system using single-end (SE) sequencing chemistry, according to the manufacturer’s instructions. Libraries were loaded onto a specific NextSeq model, es. NextSeq 500 sequenced with a single-read strategy (1× 150 bp)Library Construction - The cDNA libraries were constructed using the SMART-Seq mRNA LP kit (Takara Bio) following the manufacturer’s protocolNucleic Acid Extraction - UnknownSample Collection - UnknownOrganizationMINSEQE ScoreAssays and DataProcessed DataMAGE-TAB FilesSequence Alignment - Raw data were processed and trimmed using TrimGalore (v0.5.0) to get rid of bad quality reads and adapters at the 3’ of reads. Trimmed reads were then aligned to the GRCh38 reference using STAR (v2.7.0d) with standard settings. Gencode genes primary assembly gene transfer file (GTF) v44 was used as reference gene annotation file.Data Transformation - Considering the lack of replicates, we set up a data analysis workflow based on in this setting. For the Tie2 high vs Tie2 low comparison we set up a biological variation coefficient (BCV) to 0.1 to simulate a gene expression dispersion, because no replicates were available to allow its estimation. Gene counts were then normalized using the Trimmed Mean of M-values (TMM) method and differential test was performed with the exactTest function provided by the edgeR package (v3.32).MetabolomicsUnknownTranscriptomicsGenomicsProteomicsNextSeq 500RNA-seq of coding RNAHomo sapiensMatteo BarcellafalseTie2+ vs Tie2- macrophages bulk RNAseqBulkRNAseq to identify Tie2+ macrophages signature. Cells were sorted for CD14+ and Tie2 (PTEK). Two fractions were hence sequenced on NextSeq platform (Illumina) after full length cDNA amplification using the SMART-Seq mRNA LP kit (Takara).2026-03-31T00:00:00Z2026-03-31T10:50:50.122Z2025-11-14T14:19:52.066ZE-MTAB-15962ERP184457EFO_0002944EFO_0004170EFO_0004917EFO_0005518EFO_0003816EFO_0003738EFO_0004184