Protein Dossier — CRTAM (Cytotoxic and regulatory T-cell molecule)
MR feasibility tier: A — Published pQTL-MR estimates exist for this protein (retrieved below - not computed here).
1. Published MR estimates (retrieved, not computed)
| Outcome |
beta |
se |
p |
method |
nSNP |
cis/trans |
coloc |
| Systemic lupus erythematosus |
-0.665 |
0.207 |
0.00129 |
Wald ratio |
1 |
cis |
NA |
| Non-cancer illness code self-reported: muscle or soft tissue injuries |
0.263 |
0.099 |
0.00787 |
Wald ratio |
1 |
cis |
NA |
| Transferrin Saturation |
-0.112 |
0.0449 |
0.0124 |
Wald ratio |
1 |
cis |
NA |
| Lumbar spine bone mineral density |
0.0978 |
0.0392 |
0.0126 |
Wald ratio |
1 |
cis |
NA |
| Forced expiratory volume in 1-second (FEV1) |
0.0231 |
0.00933 |
0.0131 |
Wald ratio |
1 |
cis |
NA |
| Fasting insulin |
0.0331 |
0.014 |
0.0181 |
Wald ratio |
1 |
cis |
NA |
| Happiness |
-0.0314 |
0.0134 |
0.0186 |
Wald ratio |
1 |
cis |
NA |
| Age at menarche |
0.0593 |
0.0265 |
0.025 |
Wald ratio |
1 |
cis |
NA |
| Non-cancer illness code self-reported: kidney stone or ureter stone or bladder stone |
0.218 |
0.0991 |
0.0275 |
Wald ratio |
1 |
cis |
NA |
| Non-cancer illness code self-reported: hypertension |
-0.0413 |
0.0192 |
0.0313 |
Wald ratio |
1 |
cis |
NA |
| Forced vital capacity (FVC) |
0.019 |
0.00885 |
0.0317 |
Wald ratio |
1 |
cis |
NA |
| Femoral neck bone mineral density |
0.0714 |
0.0337 |
0.0343 |
Wald ratio |
1 |
cis |
NA |
| …and 82 more outcomes (see JSON) |
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2. pQTL instrument availability (Tier-B probe)
| Dataset |
Trait |
Author |
Year |
prot-c-5068_54_3 |
CRTAM |
Suhre K |
2019 |
3. GWAS Catalog results — traits with signal at this locus
48 association rows across 32 traits (40 genome-wide significant rows). Associations are loci, not causal claims; the mapped gene at a locus is not necessarily the effector gene.
| Trait |
best p |
lead SNP |
n assoc |
study |
MR status |
| CRTAM/LY9 protein level ratio |
2e-603 |
rs2370794 |
1 |
GCST90314278 |
no MR -> candidate analysis |
| CD48/CRTAM protein level ratio |
9e-558 |
rs2370794 |
1 |
GCST90313839 |
no MR -> candidate analysis |
| CRTAM/VCAM1 protein level ratio |
3e-539 |
rs2370794 |
1 |
GCST90314281 |
no MR -> candidate analysis |
| CRTAM/TNFRSF9 protein level ratio |
7e-534 |
rs2370794 |
1 |
GCST90314280 |
no MR -> candidate analysis |
| Circulating CRTAM levels (id: OID00304_OID20914) |
4e-529 |
rs4369419 |
4 |
GCST90859668 |
no MR -> candidate analysis |
| CRTAM/PDCD1 protein level ratio |
2e-520 |
rs2370794 |
1 |
GCST90314279 |
no MR -> candidate analysis |
| CRTAM/ICAM3 protein level ratio |
3e-510 |
rs2370794 |
1 |
GCST90314276 |
no MR -> candidate analysis |
| CRTAM/KLRD1 protein level ratio |
1e-505 |
rs2370794 |
1 |
GCST90314277 |
no MR -> candidate analysis |
| CRTAM/GZMA protein level ratio |
7e-503 |
rs2370794 |
1 |
GCST90314275 |
no MR -> candidate analysis |
| CD244/CRTAM protein level ratio |
2e-492 |
rs2370794 |
1 |
GCST90313763 |
no MR -> candidate analysis |
| Circulating CRTAM levels (id: OID00766_OID20914) |
3e-444 |
rs4369419 |
4 |
GCST90860101 |
no MR -> candidate analysis |
| CRTAM protein levels |
4e-136 |
rs3107610 |
5 |
GCST90468871 |
no MR -> candidate analysis |
| …and 20 more traits (see JSON) |
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4. Phenome map — where this gene is a genetic locus, vs. where MR exists
Top diseases by Open Targets association (of 108 total). Associations are loci, not causal claims. The causal-status column is a four-state triage per pair: established (curated) = a curated clinical assertion exists (ClinGen/G2P/GEL/Orphanet/ClinVar — any validity level, MR adds little); exploratory rare-variant signal = ExWAS burden evidence without curation — a candidate NEW gene-disease relationship; common-variant locus = GWAS signal, classic pQTL-MR territory; multi-layer = burden+GWAS together, an allelic-series candidate (the strongest causal setup). Burden estimand is carrier-vs-noncarrier, not per-SD MR.
| Disease |
genetic assoc. |
burden (ExWAS) |
causal status |
MR status |
| self-injurious ideation |
0.41 |
— |
common-variant locus |
no MR -> candidate analysis |
| eye disorder |
0.395 |
— |
common-variant locus |
no MR -> candidate analysis |
| kidney failure |
0.101 |
— |
common-variant locus |
no MR -> candidate analysis |
| COVID-19 |
0.073 |
— |
common-variant locus |
no MR -> candidate analysis |
| endocrine gland neoplasm |
0.07 |
— |
common-variant locus |
no MR -> candidate analysis |
| cerebral atherosclerosis |
0.07 |
— |
common-variant locus |
no MR -> candidate analysis |
| cholelithiasis |
0.06 |
— |
common-variant locus |
no MR -> candidate analysis |
| hypothyroidism |
0.048 |
— |
common-variant locus |
no MR -> candidate analysis |
| alcohol drinking |
0.041 |
— |
common-variant locus |
no MR -> candidate analysis |
Of the 9 rows above, 9 have no MR estimate in this resource. Across all retrieved diseases for this gene: 0 exploratory rare-variant signal(s), 0 multi-layer (allelic-series candidate) pair(s). Final triage still belongs to a statistical geneticist.
5. Downstream annotation (druggability & safety preview)
| Layer |
Result |
| ChEMBL druggability |
not available — no ChEMBL target (undrugged) |
| gnomAD constraint |
pLI=8.5e-14, LOEUF=1.13 — LoF-tolerant |
| GWAS Catalog |
119 unique SNPs / 232 rows |
| ClinVar |
126 records; 3 pathogenic in sample of 30 |
| PharmGKB/ClinPGx |
no annotations |
phenome — Top 30 of 108 associated diseases by overall score. genetic_association aggregates GWAS common-variant AND rare-variant evidence. These are ASSOCIATIONS (loci), not causal claims.chembl — No ChEMBL target for ‘CRTAM’.clinvar — Pathogenic count is over the 30 record(s) retrieved, NOT over all 126 ClinVar records for this gene; it is a sample, not a rate.pharmgkb — No PharmGKB/ClinPGx clinical annotations (gene may not be a pharmacogene).gwas_traits — Top 20 of 32 traits by best p-value, aggregated from 48 association rows. These are GWAS ASSOCIATIONS (loci), not causal claims; mapped genes at a locus are not necessarily the effector gene.
Sources
uniprot: https://www.uniprot.org/uniprotkb/O95727 — UniProt release 2026_02 (10-June-2026)mr_outcomes: https://epigraphdb.org/pqtl/ — EpiGraphDB pQTL MR (Zheng et al., Nat Genet 2020) — pre-computed two-sample MR; retrieved, not computed by this agent; EpiGraphDB build 1.0, pQTL dataset v3.0phenome: https://platform.opentargets.org/target/ENSG00000109943/associations — Open Targets data release 26.06gnomad: https://gnomad.broadinstitute.org/gene/CRTAM — gnomAD constraint via GraphQL API (reference genome GRCh38)gwas: https://www.ebi.ac.uk/gwas/genes/CRTAM — GWAS Catalog REST (live; release not exposed by this endpoint)clinvar: https://www.ncbi.nlm.nih.gov/clinvar/?term=CRTAM%5Bgene%5D — ClinVar build Build260809-1055.1gwas_traits: https://www.ebi.ac.uk/gwas/genes/CRTAM — GWAS Catalog search API (live; release not exposed)
Provenance
- Generated: 2026-08-14T02:05:01 · Tier: A
- Fully mechanical: every cell above is rendered from tool return values. No language model wrote any part of this dossier.
- MR estimates, where present, are retrieved from published work (EpiGraphDB pQTL, Zheng et al. Nat Genet 2020); nothing is computed here.
- Tool errors this run: none