ArticleBMC genomics2020
A transcriptional landscape of 28 porcine tissues obtained by super deepSAGE sequencing.
Article in BMC genomics, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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Who cites it
6 citing papers in PubMed, 11 citations in OpenAlex.
- Follicle-Stimulating Hormone in Peripheral Metabolism: Novel Insights into Growth Regulation and Potential Applications in Boar Production.Animals : an open access journal from MDPI · 2026Review
- The Effects of FSH Versus GnRH Vaccination on Growth Performance and Meat Quality of Surgically Castrated Male Growing-Finishing Pigs.Animals : an open access journal from MDPI · 2025Article
- Integrated Transcriptome and Metabolome Analysis of the Porcine Small Intestine During Weaning.Genes · 2025Article
- Correlating gene expression levels with transcription factor binding sites facilitates identification of key transcription factors from transcriptome data.Frontiers in genetics · 2024Article
- Phenelzine-based probes reveal Secernin-3 is involved in thermal nociception.Molecular and cellular neurosciences · 2023Article
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Authors and funding
16 authors at 1 institution in 1 country.
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Abstract
backgroundGene expression regulators identified in transcriptome profiling experiments may serve as ideal targets for genetic manipulations in farm animals.
resultsIn this study, we developed a gene expression profile of 76,000+ unique transcripts for 224 porcine samples from 28 tissues collected from 32 animals using Super deepSAGE technology. Excellent sequencing depth was achieved for each multiplexed library, and replicated samples from the same tissues clustered together, demonstrating the high quality of Super deepSAGE data. Comparison with previous research indicated that our results not only have good reproducibility but also have greatly extended the coverage of the sample types as well as the number of genes. Clustering analysis revealed ten groups of genes showing distinct expression patterns among these samples. Our analysis of over-represented binding motifs identified 41 regulators, and we demonstrated a potential application of this dataset in infectious diseases and immune biology research by identifying an LPS-dependent transcription factor, runt-related transcription factor 1 (RUNX1), in peripheral blood mononuclear cells (PBMCs). The selected genes are specifically responsible for the transcription of toll-like receptor 2 (TLR2), lymphocyte-specific protein tyrosine kinase (LCK), and vav1 oncogene (VAV1), which belong to the T and B cell signaling pathways.
conclusionsThe Super deepSAGE technology and tissue-differential expression profiles are valuable resources for investigating the porcine gene expression regulation. The identified RUNX1 target genes belong to the T and B cell signaling pathways, making them novel potential targets for the diagnosis and therapy of bacterial infections and other immune disorders.
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