PRJNA407831 (h6) 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.

H6 Higher Fdr Lt 0.05

Genes: 537; RefSeq-characterized descriptions: 334 (62.2%).

LOC105348305 (NCBI:GeneID:105348305): heat shock protein 68-like (log2FC=7.45; adjusted p=9.03e-63)
LOC105348304 (NCBI:GeneID:105348304): heat shock protein 68 (log2FC=7.42; adjusted p=6.05e-58)
LOC117680673 (NCBI:GeneID:117680673): heat shock protein 68 (log2FC=7.17; adjusted p=5.24e-52)
LOC105334510 (NCBI:GeneID:105334510): heat shock protein 68-like (log2FC=7.17; adjusted p=4.35e-47)
LOC105334580 (NCBI:GeneID:105334580): BAG family molecular chaperone regulator 3 (log2FC=5.37; adjusted p=9.79e-41)
LOC105331566 (NCBI:GeneID:105331566): transcription factor MafK (log2FC=0.64; adjusted p=4.81e-35)
LOC105346578 (NCBI:GeneID:105346578): major egg antigen (log2FC=5.90; adjusted p=2.14e-30)
LOC105331925 (NCBI:GeneID:105331925): serine/threonine-protein kinase PRP4 homolog (log2FC=0.84; adjusted p=8.73e-30)
LOC105322484 (NCBI:GeneID:105322484): heat shock protein 68-like (log2FC=6.55; adjusted p=7.35e-27)
LOC105340538 (NCBI:GeneID:105340538): protein hook homolog (log2FC=1.28; adjusted p=3.56e-23)
LOC105325106 (NCBI:GeneID:105325106): G-protein coupled receptor dmsr-1 (log2FC=1.03; adjusted p=1.7e-19)
LOC117691913 (NCBI:GeneID:117691913): alpha-crystallin A chain-like (log2FC=5.28; adjusted p=3.58e-19)
LOC105323151 (NCBI:GeneID:105323151): dnaJ homolog subfamily B member 4 (log2FC=2.64; adjusted p=2.21e-15)
LOC105343216 (NCBI:GeneID:105343216): heat shock protein Hsp-16.48/Hsp-16.49 (log2FC=4.99; adjusted p=3.23e-15)
LOC105322994 (NCBI:GeneID:105322994): E3 SUMO-protein ligase EGR2 (log2FC=1.10; adjusted p=4.57e-15)

H6 Lower Fdr Lt 0.05

Genes: 398; RefSeq-characterized descriptions: 262 (65.8%).

LOC105321326 (NCBI:GeneID:105321326): endoplasmic reticulum membrane sensor NFE2L1 (log2FC=-1.64; adjusted p=8.06e-60)
LOC105348520 (NCBI:GeneID:105348520): UBA-like domain-containing protein 1 (log2FC=-0.41; adjusted p=5.43e-40)
LOC105322996 (NCBI:GeneID:105322996): nuclear protein AMMECR1 (log2FC=-2.71; adjusted p=8.97e-31)
LOC105318591 (NCBI:GeneID:105318591): serine/threonine-protein kinase TBK1 (log2FC=-0.83; adjusted p=3.25e-26)
LOC105344547 (NCBI:GeneID:105344547): F-box and WD repeat domain-containing 11-B (log2FC=-1.06; adjusted p=4.26e-23)
LOC117687337 (NCBI:GeneID:117687337): E3 ubiquitin-protein ligase TRIM71 (log2FC=-0.47; adjusted p=1.75e-11)
LOC105345498 (NCBI:GeneID:105345498): semaphorin-1A (log2FC=-0.20; adjusted p=5.99e-10)
LOC105324775 (NCBI:GeneID:105324775): RNA-binding protein 24-A (log2FC=-0.31; adjusted p=3.24e-09)
LOC105344453 (NCBI:GeneID:105344453): band 4.1-like protein 1 (log2FC=-0.18; adjusted p=1.2e-08)
LOC105346591 (NCBI:GeneID:105346591): kelch-like protein 18 (log2FC=-0.30; adjusted p=5.54e-08)
LOC105334062 (NCBI:GeneID:105334062): frizzled-4-like (log2FC=-0.46; adjusted p=1.89e-07)
LOC105326215 (NCBI:GeneID:105326215): LIM domain-containing protein ajuba (log2FC=-0.18; adjusted p=4.54e-07)
LOC105330854 (NCBI:GeneID:105330854): DNA-directed RNA polymerases I, II, and III subunit RPABC3 (log2FC=-0.29; adjusted p=7.85e-07)
LOC105334522 (NCBI:GeneID:105334522): tyrosine-protein kinase Fyn (log2FC=-0.18; adjusted p=2.61e-06)
LOC105342529 (NCBI:GeneID:105342529): mitochondrial carnitine/acylcarnitine carrier protein (log2FC=-0.35; adjusted p=7.23e-06)

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.

h6 lower fdr lt 0.05: protein_coding (384 observed, 353.4 expected; fold=1.09; adjusted p=2.31e-07)

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.