PRJNA826964 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.

Acidified Higher Fdr Lt 0.05

Genes: 301; RefSeq-characterized descriptions: 138 (45.8%).

LOC117680495 (NCBI:GeneID:117680495): putative nuclease HARBI1 (log2FC=3.62; adjusted p=7.15e-17)
LOC117684023 (NCBI:GeneID:117684023): partner of bursicon (log2FC=3.75; adjusted p=4.22e-12)
LOC105334178 (NCBI:GeneID:105334178): solute carrier organic anion transporter family member 4A1 (log2FC=2.47; adjusted p=4.29e-11)
LOC117690492 (NCBI:GeneID:117690492): dehydrogenase/reductase SDR family member 9 (log2FC=1.23; adjusted p=6.14e-10)
LOC136274171 (NCBI:GeneID:136274171): putative nuclease HARBI1 (log2FC=3.69; adjusted p=4.82e-09)
LOC136276188 (NCBI:GeneID:136276188): N-glycosidase YbiA-like (log2FC=9.11; adjusted p=1.2e-07)
LOC117682593 (NCBI:GeneID:117682593): tripartite motif-containing protein 2-like (log2FC=1.85; adjusted p=1.3e-07)
LOC136270628 (NCBI:GeneID:136270628): ankyrin repeat, PH and SEC7 domain containing protein secG-like (log2FC=2.95; adjusted p=1.73e-07)
LOC105343533 (NCBI:GeneID:105343533): rh5-interacting protein (log2FC=2.63; adjusted p=2.05e-07)
LOC105324307 (NCBI:GeneID:105324307): frizzled-7-A (log2FC=1.07; adjusted p=5.43e-07)
LOC136270755 (NCBI:GeneID:136270755): ankyrin repeat, PH and SEC7 domain containing protein secG-like (log2FC=3.52; adjusted p=2.53e-06)
LOC105320850 (NCBI:GeneID:105320850): limbic system-associated membrane protein (log2FC=1.10; adjusted p=3.05e-06)
LOC105347243 (NCBI:GeneID:105347243): inter-alpha-trypsin inhibitor heavy chain H3 (log2FC=1.11; adjusted p=4.67e-06)
LOC136274492 (NCBI:GeneID:136274492): deoxyuridine 5’-triphosphate nucleotidohydrolase-like (log2FC=2.76; adjusted p=8.81e-06)
LOC105345002 (NCBI:GeneID:105345002): haloacid dehalogenase-like hydrolase domain-containing 5 (log2FC=0.75; adjusted p=8.99e-06)

Acidified Lower Fdr Lt 0.05

Genes: 589; RefSeq-characterized descriptions: 271 (46.0%).

LOC105332163 (NCBI:GeneID:105332163): equilibrative nucleobase transporter 1 (log2FC=-3.77; adjusted p=3.79e-28)
LOC105342677 (NCBI:GeneID:105342677): ATP-dependent DNA helicase RecQ (log2FC=-3.57; adjusted p=6.98e-25)
LOC136273029 (NCBI:GeneID:136273029): tigger transposable element-derived protein 4-like (log2FC=-4.65; adjusted p=1.18e-24)
LOC105345639 (NCBI:GeneID:105345639): tigger transposable element-derived protein 4 (log2FC=-4.59; adjusted p=2.04e-24)
LOC117691483 (NCBI:GeneID:117691483): perlucin-like (log2FC=-1.52; adjusted p=5.01e-19)
LOC136271589 (NCBI:GeneID:136271589): chitin synthase chs-1-like (log2FC=-5.41; adjusted p=5.98e-19)
LOC105317840 (NCBI:GeneID:105317840): von Willebrand factor A domain-containing protein 7 (log2FC=-1.69; adjusted p=1.14e-17)
LOC117691751 (NCBI:GeneID:117691751): complement C1q-like protein 2 (log2FC=-2.12; adjusted p=2.68e-16)
LOC105329937 (NCBI:GeneID:105329937): hypothetical protein (log2FC=-3.06; adjusted p=7.05e-14)
LOC136275337 (NCBI:GeneID:136275337): mucin-like protein (log2FC=-3.06; adjusted p=1.18e-11)
LOC105343641 (NCBI:GeneID:105343641): adiponectin-like (log2FC=-3.05; adjusted p=5.13e-10)
LOC105342651 (NCBI:GeneID:105342651): transforming growth factor-beta-induced protein ig-h3 (log2FC=-5.19; adjusted p=1.03e-09)
LOC105349071 (NCBI:GeneID:105349071): arylsulfatase B (log2FC=-1.52; adjusted p=1.56e-09)
LOC109620298 (NCBI:GeneID:109620298): semaphorin-5A (log2FC=-4.75; adjusted p=2.57e-09)
LOC105322786 (NCBI:GeneID:105322786): lysozyme 3 (log2FC=-1.67; adjusted p=5.12e-08)

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.

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.