RNA-seq transcriptome dataset of murine macrophages under hypoxic conditions

Raw and processed RNA sequencing data from bone marrow-derived macrophages (BMDMs) isolated from C57BL/6 mice exposed to hypoxia (1% O₂, 24 h) versus normoxia controls. Samples were processed using the TRIzol extraction protocol; sequencing was performed on Illumina NovaSeq 6000 (2×150 bp, paired-end). The dataset includes raw FASTQ files, trimmed reads, STAR-aligned BAM files, and DESeq2 differential expression results (TSV). This dataset supports the study of hypoxia-induced transcriptional reprogramming in innate immune cells. Local repository identifier: TP-DATA-2026-S1-004 Record kind: dataset Processing status: published Data/software format: csv Registered files in project system: Lesson 03 - pd.csv Usage notes: Raw reads require quality trimming (Trim Galore v0.6.7) before alignment. Reference genome: GRCm39 (Ensembl release 109). Alignment: STAR 2.7.10a. Quantification: featureCounts. Differential expression: DESeq2 1.38. Scripts available at GitHub (see related identifiers). Minimum 16 GB RAM recommended for alignment steps.