ArticleCell genomics2023
Learning functional conservation between human and pig to decipher evolutionary mechanisms underlying gene expression and complex traits.
Article in Cell genomics, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed, 13 citations in OpenAlex.
- Multi-Layer Transcriptomic Comparison Across Human, Pig, and Mouse Informs Tissue- and Trait-Specific Animal Model Selection.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Bridging precision agriculture and human medicine through comparative genetics.Nature reviews. Genetics · 2026Review
- Understanding super enhancers in genome architecture and their roles in livestock breeding.BMC genomics · 2026Review
- Characteristics between porcine bone marrow-derived mesenchymal stem and peripheral blood mononuclear cells.Journal of animal science and technology · 2026Article
- Genome-Wide Association Studies for 24 Hematological Traits in Production Pigs Before and After Weaning.Animal genetics · 2026Article
- Learning a pairwise epigenomic and transcription factor binding association score across the human genome.Bioinformatics (Oxford, England) · 2026Article
- Allelic variation in CYP3A4 and PLB1 drives feed efficiency and immunometabolic resilience in beef cattle.BMC genomics · 2025Article
- EnhancerMatcher: comparing cell-type-specific enhancer activity of DNA sequences using deep convolutional neural networks and explainable AI.NAR genomics and bioinformatics · 2025Article
- Localisation-Dependent Variations in Articular Cartilage ECM: Implications for Tissue Engineering and Cartilage Repair.International journal of molecular sciences · 2025Article
- Pig models reveal the interplay between fatty acids and cytokines in skeletal muscle.Scientific reports · 2025Article
- The Farm Animal Genotype-Tissue Expression (FarmGTEx) Project.Nature genetics · 2025Review
- Integrating multi-layered biological priors to improve genomic prediction accuracy in beef cattle.Biology direct · 2024Article
- Evaluation of Bayesian Linear Regression derived gene set test methods.BMC genomics · 2024Article
- Potential Role of Pig UCP3 in Modulating Adipocyte Browning via the Beta-Adrenergic Receptor Signaling Pathway.Biology · 2024Article
Corrections and comments
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Authors and funding
12 authors at 5 institutions in 4 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Assessment of genomic conservation between humans and pigs at the functional level can improve the potential of pigs as a human biomedical model. To address this, we developed a deep learning-based approach to learn the genomic conservation at the functional level (DeepGCF) between species by integrating 386 and 374 functional profiles from humans and pigs, respectively. DeepGCF demonstrated better prediction performance compared with the previous method. In addition, the resulting DeepGCF score captures the functional conservation between humans and pigs by examining chromatin states, sequence ontologies, and regulatory variants. We identified a core set of genomic regions as functionally conserved that plays key roles in gene regulation and is enriched for the heritability of complex traits and diseases in humans. Our results highlight the importance of cross-species functional comparison in illustrating the genetic and evolutionary basis of complex phenotypes.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.