biostudies-arrayexpressMetabolomicsUnknownTranscriptomicsGenomicsProteomicsNares TrakooljulNextSeq 2000RNA-seq of coding RNASus scrofaSus scrofahttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-14452This study aims to investigate the transcriptomic profile of the pig limbic and endocrine tissues, which are important in stress response and hence the pig’s health and welfare and production. We performed a total of 48 RNA-seq of the amygdala, hippocampus, thalamus, hypothalamus, pituitary gland, and adrenal gland obtained from 8 individual pigs. We identified differentially expressed genes across tissue-types, co-expressed gene modules and their associations with specific tissue types by Weighted Gene Co-expression Network Analysis (WGCNA) and allele-specific expression (ASE) within and between tissues.biostudies-arrayexpressSample Collection - Animal handling and compassionate euthanasia were performed in compliance with pertinent ethical laws, standards, and regulations. The study included 8 female German Landrace pigs, with an average age of 170 ± 14 days and weight of 105 ± 8 kg. The adrenal gland and brain tissues, including the amygdala, hippocampus, hypothalamus, pituitary gland, and thalamus were swiftly removed, flash-frozen in liquid nitrogen, and preserved at − 80 °C for subsequent analyses.Library Construction - DNA libraries were generated using the Illumina Stranded mRNA preparation kit (Illumina, San Diego, CA, USA).Sequencing - DNA libraries were multiplxed and paired-end sequenced for 2x101bp reads at 750 pM concentration on the NextSeq 2000 system using a P3 flowcell at the sequencing facility of Research Institute for Farm Animal Biology (FBN), Dummerstorf, Germany. Raw sequencing reads (fastq) were generated using dragen bcl convert v3.10.11 and quality-checked using FastQC version 0.11.9 (http://www.bioinformatics.babraham.ac.uk/projects/fastqc/).Nucleic Acid Extraction - Tissue sample was finely grounded in liquid nitrogen into powder. Total RNA was purified using the RNeasy Mini Kit (Qiagen, Germany) and treated with DNase I (Roche Diagnostics, Mannheim, Germany) to remove trace DNA contamination. The RNA quantity and purity were assessed using a NanoDrop ND-1000 spectrophotometer (Peqlab) and the RNA integrity was determined using the RNA 6000 Nano Kit for 2100 Bioanalyzer System (Agilent Technologies).OrganizationMINSEQE ScoreAssays and DataMAGE-TAB FilesNares TrakooljulSiriluck PonsuksilifalseTranscriptomic profiling of the pig limbic and endocrine tissuesThis study aims to investigate the transcriptomic profile of the pig limbic and endocrine tissues, which are important in stress response and hence the pig’s health and welfare and production. We performed a total of 48 RNA-seq of the amygdala, hippocampus, thalamus, hypothalamus, pituitary gland, and adrenal gland obtained from 8 individual pigs. We identified differentially expressed genes across tissue-types, co-expressed gene modules and their associations with specific tissue types by Weighted Gene Co-expression Network Analysis (WGCNA) and allele-specific expression (ASE) within and between tissues.2025-07-30T00:00:00Z2025-07-31T00:00:44.334Z2024-09-17T21:53:42.83ZE-MTAB-14452ERP164262EFO_0002944EFO_0004170EFO_0005518EFO_0003738EFO_0004184