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Table 3 Terms significantly associated with genes within 50 kb of hair shedding GWAA variants with FDR < 0.05

From: Development of a genetic evaluation for hair shedding in American Angus cattle to improve thermotolerance

Term Ontology source p-value Associated genes
Modulation by virus of host morphology or physiology GO BP < 0.001 ATG7, SMAD3, VAPB, ZC3H12A
Modification by symbiont of host morphology or physiology GO BP < 0.001 ATG7, SMAD3, VAPB, ZC3H12A
Modification of morphology or physiology of other organism involved in symbiotic interaction GO BP 0.004 ATG7, SMAD3, VAPB, ZC3H12A, ZNF502
Modification of morphology or physiology of other organism GO BP 0.008 ATG7, SMAD3, VAPB, ZC3H12A, ZNF502
Interaction with host GO BP 0.010 ATG7, SMAD3, VAPB, ZC3H12A, ZNF502
dsRNA fragmentation GO BP 0.014 SNIP1, TARBP2, ZC3H12A
Production of small RNA involved in gene silencing by RNA GO BP 0.014 SNIP1, TARBP2, ZC3H12A
Production of miRNAs involved in gene silencing by miRNA GO BP 0.015 SNIP1, TARBP2, ZC3H12A
Gene silencing by miRNA GO BP 0.020 SNIP1, TARBP2, ZC3H12A
Positive regulation of fat cell differentiation GO BP 0.020 PRDM16, SH3PXD2B, ZC3H12A
Cellular response to extracellular stimulus GO BP 0.021 AQP3, ATF4, ATG7, KLF10, ZC3H12A
Cellular response to dsRNA GO BP 0.021 SNIP1, TARBP2, ZC3H12A
Vasopressin-regulated water reabsorption KEGG 0.021 AQP3, LOC784058, RAB11A
Posttranscriptional gene silencing GO BP 0.022 SNIP1, TARBP2, ZC3H12A
Regulation of viral genome replication GO BP 0.022 TARBP2, VAPB, ZC3H12A
Posttranscriptional gene silencing by RNA GO BP 0.022 SNIP1, TARBP2, ZC3H12A
Positive regulation of viral life cycle GO BP 0.022 TARBP2, VAPB, ZNF502
Prolactin signaling pathway KEGG 0.022 LOC100336962, PRP-VII, PRP14, PRP9
Regulation of viral life cycle GO BP 0.022 TARBP2, VAPB, ZC3H12A, ZNF502
Cellular response to starvation GO BP 0.023 ATF4, ATG7, KLF10, ZC3H12A
Regulation of mitochondrion organization GO BP 0.024 MIEF1, PEMT, SNIP1, TRIAP1, WDR75
Positive regulation of mitochondrion organization GO BP 0.024 MIEF1, PEMT, SNIP1, WDR75
Cellular response to nutrient levels GO BP 0.024 AQP3, ATF4, ATG7, KLF10, ZC3H12A
Regulation of fat cell differentiation GO BP 0.024 PRDM16, SH3PXD2B, SMAD3, ZC3H12A
Response to dsRNA GO BP 0.024 IFNE, SNIP1, TARBP2, ZC3H12A
Regulation of viral process GO BP 0.025 TARBP2, VAPB, ZC3H12A, ZNF502
Viral genome replication GO BP 0.025 TARBP2, VAPB, ZC3H12A
Regulation of protein targeting to mitochondrion GO BP 0.025 PEMT, SNIP1, WDR75
Gene silencing by RNA GO BP 0.025 SNIP1, TARBP2, ZC3H12A
Osteoclast differentiation GO BP 0.025 EPHA2, KLF10, OSTM1
Regulation of establishment of protein localization to mitochondrion GO BP 0.025 PEMT, SNIP1, WDR75
Oxidative phosphorylation GO BP 0.025 COX6A1, NDUFA12, TEFM
Response to starvation GO BP 0.025 ATF4, ATG7, KLF10, ZC3H12A
Negative regulation of defense response GO BP 0.026 KRT1, SMAD3, TARBP2, ZC3H12A
Positive regulation of viral process GO BP 0.026 TARBP2, VAPB, ZNF502
Positive regulation of establishment of protein localization to mitochondrion GO BP 0.026 PEMT, SNIP1, WDR75
Positive regulation of protein targeting to mitochondrion GO BP 0.026 PEMT, SNIP1, WDR75
Negative regulation of inflammatory response GO BP 0.036 KRT1, SMAD3, ZC3H12A
Ribosome biogenesis in eukaryotes KEGG 0.039 GNL2, NOL6, WDR75
Regulation of protein targeting GO BP 0.041 PEMT, SNIP1, WDR75
  1. We find enrichment for pathways involved in virus-host interaction, response to starvation, prolactin signalling, and other biological processes. P-value are corrected for multiple testing using Benjamini–Hochberg methodology. Enrichments represent gene ontology biological process (GO BP) or Kyoto Encyclopedia of Genes and Genomes pathways (KEGG)
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