{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Cui Li"],"organism":["Mus musculus"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-15797"],"description":["To investigate the molecular mechanisms underlying pain and emotion - related responses in the nervous system, this experiment focused on dorsal root ganglia (DRG), spinal cord (SC), and anterior cingulate cortex (ACC) tissues. Mice were divided into sham and complete Freund's adjuvant (CFA) - induced inflammatory pain groups. The experimental workflow involved: first, extracting total RNA from the tissues using the miRNeasy kit; then, depleting ribosomal RNA and constructing strand - specific libraries with Illumina kits; next, performing RNA sequencing on the Illumina Nova6000 platform; and finally, conducting bioinformatics analyses including read trimming, genome mapping, differential gene expression analysis, and functional enrichment (GO, KEGG) to identify molecular changes associate"],"repository":["biostudies-arrayexpress"],"sample_protocol":["Sample Collection - Mice were anesthetized with isoflurane. Dorsal root ganglia (DRG), spinal cord (SC), and anterior cingulate cortex (ACC) tissues were rapidly dissected from CFA - induced inflammatory pain model mice and sham - operated control mice. Tissues were immediately frozen in liquid nitrogen and stored at -80°C until RNA extraction.","Sequencing - RNA sequencing was performed on the Illumina Nova6000 platform. Libraries were sequenced in a 2 × 150 bp paired - end configuration, generating over 2.666 billion reads per lane, with a minimum of 50 million reads per sample.","Library Construction - Total RNA (1.0 µg per sample) was subjected to ribosomal RNA (rRNA) depletion using the Ribo - Zero rRNA Removal Kit (Illumina, San Diego, CA, USA). Strand - specific RNA libraries were constructed with the TruSeq Stranded Total RNA Prep Kit (Illumina) without poly - A selection, following the manufacturer's protocols.","Nucleic Acid Extraction - Total RNA was extracted from tissue samples using the miRNeasy kit (QIAGEN, Valencia, CA, United States) following the manufacturer's instructions. RNA was further purified with the RNeasy Micro Kit 50 (cat. 74004, Qiagen). Concentrations were measured using a NanoDrop 2000 Spectrophotometer (Thermo Fisher Scientific, Wilmington, DE), and RNA quality was assessed by A₂₆₀/₂₈₀ ratios (1.97 - 2.08) and RNA integrity numbers (RIN, 7.5 - 8.4) using an Agilent 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA)."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Data Transformation - Raw RNA-seq reads were quality-filtered with Trimmomatic v0.32 (minimum length 50 bp, Phred ≥ 30) and aligned to the Mus musculus reference genome (GRCm38.72, Ensembl) using CLC Genomics Workbench v7.0.2. Gene-level read counts were generated and normalized to FPKM (Fragments Per Kilobase of transcript per Million mapped reads) to correct for sequencing depth and gene length. The resulting FPKM values represent the processed expression data used for downstream differential expression and functional enrichment analyses."],"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["NanoDrop 2000 Spectrophotometer, Agilent 2100 Bioanalyzer","Illumina NovaSeq 6000","-"],"study_type":["RNA-seq of total RNA"],"species":["Mus musculus"],"pubmed_authors":["Cui Li","Songxue Su"],"additional_accession":[]},"is_claimable":false,"name":"RNA profiling of the dorsal root ganglia, spinal cord, and anterior cingulate cortex in mice with CFA-induced inflammatory pain","description":"To investigate the molecular mechanisms underlying pain and emotion - related responses in the nervous system, this experiment focused on dorsal root ganglia (DRG), spinal cord (SC), and anterior cingulate cortex (ACC) tissues. Mice were divided into sham and complete Freund's adjuvant (CFA) - induced inflammatory pain groups. The experimental workflow involved: first, extracting total RNA from the tissues using the miRNeasy kit; then, depleting ribosomal RNA and constructing strand - specific libraries with Illumina kits; next, performing RNA sequencing on the Illumina Nova6000 platform; and finally, conducting bioinformatics analyses including read trimming, genome mapping, differential gene expression analysis, and functional enrichment (GO, KEGG) to identify molecular changes associate","dates":{"release":"2026-08-30T00:00:00Z","modification":"2026-08-30T01:00:45.458Z","creation":"2025-10-21T10:56:42.176Z"},"accession":"E-MTAB-15797","cross_references":{"ENA":["ERP182565"],"EFO":["EFO_0002944","EFO_0004170","EFO_0009653","EFO_0005518","EFO_0003816","EFO_0004184"]}}