Differentially expressed LncRNAs in the lung tissue of BPD mice

Both raw sequencing data and processed expression matrices are provided where applicable. The dataset is intended to support studies on the molecular mechanisms of BPD, particularly the role of lncRNAs and macrophage polarization in lung injury.</p><p dir="ltr"><b>Methods summary</b></p><p dir="ltr">Raw reads were processed with an in-house Perl script. Clean reads were aligned to the mouse reference genome using HISAT2 v2.0.5.

Transcript assembly and quantification were performed with StringTie v1.3.3b, and expression levels were calculated as FPKM. Differential expression analysis was conducted using edgeR v3.22.5, with Benjamini-Hochberg correction. Functional enrichment analyses (GO, KEGG, and Reactome) were performed using clusterProfiler v3.8.1.

LncRNA target genes were predicted based on co-location and co-expression with protein-coding genes. Alternative splicing and SNP analyses were also performed.</p><p dir="ltr"><b>File list</b></p><ul><li>Expression matrices: mRNA_gene.FPKM.xls, mRNA_genes.readcount.xls, lnc_transcripts.FPKM.xls, lnc_transcripts.readcount.xls</li><li>Differentially expressed gene lists: mRNA_deglist and LncRNA_deglist (including all comparison groups)</li><li>Functional enrichment results: GO, KEGG, and Reactome analyses for differentially expressed mRNAs</li><li>LncRNA target prediction and enrichment results (if applicable)</li><li>Gene and LncRNA annotation files: gene_description.xls, lncRNA_description.xls</li></ul><p></p>