2026-10-06T14:09:15Z https://api.figshare.com/v2/oai

oai:figshare.com:article/34057137 2026-10-02T16:10:18Z category_24838 item_type_3 month_year_10_2026

Differentially expressed LncRNAs in the lung tissue of BPD mice Huanqing Yin (25302804) Infant and child health Bronchopulmonary dysplasia High-throughput sequencing LncRNA <p dir="ltr"><b>Data source and experimental design</b></p><p dir="ltr">This dataset contains transcriptomic data from lung tissues of a neonatal mouse model of bronchopulmonary dysplasia (BPD). BPD was induced in newborn C57BL/6 mice by intranasal administration of lipopolysaccharide (LPS; 3 μg/10 μL) on postnatal days 3, 5, 7, and 10. Control mice received an equal volume of saline. Lung tissues were collected on postnatal day 14. Total RNA was extracted using TRIzol reagent, and rRNA was removed to enrich polyadenylated and non-polyadenylated lncRNAs. Sequencing libraries were prepared and subjected to paired-end 150 bp sequencing on an Illumina NovaSeq 6000 platform.</p><p dir="ltr"><b>Contents of this dataset</b></p><p dir="ltr">This dataset includes quality control, mapping, transcript assembly, expression quantification, differential expression, functional enrichment, alternative splicing, and SNP analysis results for lncRNAs and mRNAs. 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> 2026-10-02T16:10:18Z Dataset Dataset 10.6084/m9.figshare.34057137.v1 https://figshare.com/articles/dataset/Differentially_expressed_LncRNAs_in_the_lung_tissue_of_BPD_mice/34057137 CC BY 4.0