PRJNA593309 (oshv1) RefSeq functional annotations

Descriptions and gene biotypes come directly from GCF_963853765.1 / RS_2024_06. This is annotation and ranking, not ontology or pathway enrichment.

Oshv1 Higher Fdr Lt 0.05

Genes: 663; RefSeq-characterized descriptions: 346 (52.2%).

  • LOC105343805 (NCBI:GeneID:105343805): interferon regulatory factor 2 (log2FC=4.93; adjusted p=2.18e-35)
  • LOC105345480 (NCBI:GeneID:105345480): probable ATP-dependent RNA helicase DDX46 (log2FC=5.00; adjusted p=1.2e-28)
  • LOC105325188 (NCBI:GeneID:105325188): DNA polymerase III PolC-type-like (log2FC=8.66; adjusted p=2.08e-25)
  • LOC105334815 (NCBI:GeneID:105334815): baculoviral IAP repeat-containing protein 2 (log2FC=6.42; adjusted p=2.45e-24)
  • LOC105342241 (NCBI:GeneID:105342241): hypothetical protein (log2FC=8.35; adjusted p=1.49e-23)
  • LOC105319712 (NCBI:GeneID:105319712): interferon-induced helicase C domain-containing protein 1 (log2FC=4.82; adjusted p=1.88e-21)
  • LOC105321257 (NCBI:GeneID:105321257): proline-rich transmembrane protein 1 (log2FC=5.35; adjusted p=8.95e-20)
  • LOC105323546 (NCBI:GeneID:105323546): 3’-5’ exoribonuclease HELZ2 (log2FC=4.09; adjusted p=2.59e-18)
  • LOC105321178 (NCBI:GeneID:105321178): NF-kappa-B inhibitor alpha (log2FC=4.42; adjusted p=1.03e-16)
  • LOC105337045 (NCBI:GeneID:105337045): centrosome-associated protein CEP250 (log2FC=5.27; adjusted p=1.03e-16)
  • LOC105342144 (NCBI:GeneID:105342144): E3 ubiquitin-protein ligase MYCBP2 (log2FC=4.67; adjusted p=1.12e-16)
  • LOC105347306 (NCBI:GeneID:105347306): myeloid differentiation primary response protein MyD88-like (log2FC=5.46; adjusted p=7.98e-16)
  • LOC105334011 (NCBI:GeneID:105334011): suppressor of cytokine signaling 2 (log2FC=3.99; adjusted p=1.58e-15)
  • LOC117682758 (NCBI:GeneID:117682758): interferon-induced protein 44-like (log2FC=4.17; adjusted p=1.6e-15)
  • LOC105332517 (NCBI:GeneID:105332517): BPTI/Kunitz domain-containing protein-like (log2FC=11.60; adjusted p=2.78e-14)

Oshv1 Lower Fdr Lt 0.05

Genes: 183; RefSeq-characterized descriptions: 132 (72.1%).

  • LOC105349013 (NCBI:GeneID:105349013): superoxide dismutase [Cu-Zn]-like (log2FC=-2.95; adjusted p=2.38e-06)
  • LOC105317414 (NCBI:GeneID:105317414): testis-specific gene A8 protein-like (log2FC=-4.96; adjusted p=4.77e-06)
  • LOC105322476 (NCBI:GeneID:105322476): macrophage mannose receptor 1 (log2FC=-3.25; adjusted p=3.31e-05)
  • LOC105326272 (NCBI:GeneID:105326272): enolase-phosphatase E1 (log2FC=-3.24; adjusted p=6.04e-05)
  • LOC105343642 (NCBI:GeneID:105343642): cerebellin-1 (log2FC=-5.42; adjusted p=6.92e-05)
  • LOC105338083 (NCBI:GeneID:105338083): myosin light chain kinase, smooth muscle (log2FC=-3.11; adjusted p=0.000269)
  • LOC117687498 (NCBI:GeneID:117687498): talin-1-like (log2FC=-3.47; adjusted p=0.00037)
  • LOC105324686 (NCBI:GeneID:105324686): far upstream element-binding protein 1 (log2FC=-2.35; adjusted p=0.000616)
  • LOC105340590 (NCBI:GeneID:105340590): dihydropyrimidinase (log2FC=-2.05; adjusted p=0.00081)
  • LOC105322208 (NCBI:GeneID:105322208): Na(+)/H(+) exchange regulatory cofactor NHE-RF2 (log2FC=-3.02; adjusted p=0.000953)
  • LOC105327860 (NCBI:GeneID:105327860): mucin-2 (log2FC=-2.97; adjusted p=0.00122)
  • LOC105323047 (NCBI:GeneID:105323047): connector enhancer of kinase suppressor of ras 2 (log2FC=-2.57; adjusted p=0.00126)
  • LOC105345251 (NCBI:GeneID:105345251): frizzled-5 (log2FC=-2.01; adjusted p=0.00169)
  • LOC105322271 (NCBI:GeneID:105322271): transforming growth factor-beta-induced protein ig-h3 (log2FC=-1.94; adjusted p=0.00169)
  • LOC105323023 (NCBI:GeneID:105323023): twitchin (log2FC=-2.32; adjusted p=0.00169)

Gene-biotype over-representation

One-sided hypergeometric tests compare each significant direction with all genes having DESeq2 results; Benjamini-Hochberg adjustment covers both directions and all biotypes.

  • oshv1 higher fdr lt 0.05: lncRNA (90 observed, 35.5 expected; fold=2.53; adjusted p=2.15e-15)
  • oshv1 higher fdr lt 0.05: rRNA (5 observed, 0.7 expected; fold=7.32; adjusted p=0.00277)

Many oyster loci retain automated or uncharacterized RefSeq labels. Functional claims should be based on formal ontology/pathway enrichment or orthology-aware analysis rather than names alone.