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PICALM - ENSG00000073921

phosphatidylinositol binding clathrin assembly protein

Also known as: CALM, CLTH

Location: chr11:85,668,727-85,780,924 reverse strand

Gene Type: protein coding

More information
NCBI Gene
8301
HUGO
HGNC:15514
Ensembl
ENSG00000073921
VEGA
OTTHUMG00000166981
OMIM
603025
UniProtKB
Q13492

Genomic Context

The genome browser snapshot is fully interactive. Mouse over track elements for more information. Click and drag to move tracks. Click and drag on top positional guide to zoom to a sub-region.

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Gene-based Trait Associations

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ADSP WES: Alzheimer's Disease ADSP

Results from gene-level rare and functional variant aggregation tests for association to AD supported by significane of p < 0.5 / #genes.

Individual score test statistics for rare, predicted functional, and loss of function variants colocated with the gene were aggregated to compute gene level p-values.

See NIAGADS Accession NG00065 for more information.

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Accession Population N SNPs p-value Sign. Level rho CMAF CMAC Covariates Variant Filter Caveats
NG00065 European 3 0.260 N/A 1 1.5e-04 3.1 PCs, sequencing center, sex, and age at AD onset or last-known dementia-free age (for controls) VEP HIGH
NG00065 European 3 0.263 N/A 1 1.5e-04 3.1 PCs, sequencing center, sex, age at AD onset or last-known dementia-free age (for controls), and APOE E2 and E4 genotypes VEP HIGH
NG00065 European 47 0.628 N/A 0 9.2e-03 192.2 PCs, sequencing center, sex, and age at AD onset or last-known dementia-free age (for controls) VEP MOD-HIGH N/A
NG00065 European 3 0.662 N/A 0 1.5e-04 3.1 PCs and sequencing center VEP HIGH
NG00065 Meta 48 0.711 N/A 0 9.1e-03 197.2 PCs, sequencing center, sex, and age at AD onset or last-known dementia-free age (for controls) VEP MOD-HIGH N/A
NG00065 European 47 0.731 N/A 0 9.2e-03 192.2 PCs, sequencing center, sex, age at AD onset or last-known dementia-free age (for controls), and APOE E2 and E4 genotypes VEP MOD-HIGH N/A
NG00065 Caribbean Hispanic 3 0.771 N/A 0 6.4e-03 5.0 PCs and sequencing center VEP MOD-HIGH
NG00065 Caribbean Hispanic 3 0.777 N/A 0 6.4e-03 5.0 PCs, sequencing center, sex, age at AD onset or last-known dementia-free age (for controls), and APOE E2 and E4 genotypes VEP MOD-HIGH
NG00065 Caribbean Hispanic 3 0.797 N/A 1 6.4e-03 5.0 PCs, sequencing center, sex, and age at AD onset or last-known dementia-free age (for controls) VEP MOD-HIGH
NG00065 Meta 48 0.810 N/A 0 9.1e-03 197.2 PCs, sequencing center, sex, age at AD onset or last-known dementia-free age (for controls), and APOE E2 and E4 genotypes VEP MOD-HIGH N/A
NG00065 European 47 0.866 N/A 0 9.2e-03 192.2 PCs and sequencing center VEP MOD-HIGH N/A
NG00065 Meta 48 0.893 N/A 0 9.1e-03 197.2 PCs and sequencing center VEP MOD-HIGH N/A

Genetic Variation and Variant-based Trait Associations (GWAS)

Variants contained within the PICALM gene.

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The PICALM gene contains 7,185 variants records (corresponding to 6,876 unique genomic positions).

The following variants, contained within ±100kb of PICALM, have been found to be associated with Alzheimer's disease in a GWAS study:

NIAGADS GWAS: Alzheimer's Disease

Variants contained within ±100kb of PICALM that have genome-wide significance in a NIAGADS Alzheimer's Disease GWAS summary statistics dataset; supported by a p-value < 5 x 10-8. For exome array studies, a cutoff of p-value < 1 x 10-3 was used.

Click on accession numbers to view a detailed report about the dataset or to request access to the data.

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Login in to select variants and add them to your basket.

Relative Position Variant ADSP? Allele p-Value Track Accession
upstream N/A 1.1e-45 ADSP Single-Variant Risk Association: Caribbean Hispanic (Model 1) NG00065
upstream N/A 1.1e-45 ADSP Single-Variant Risk Association: European (Model 1) NG00065
upstream N/A 1.1e-45 ADSP Single-Variant Risk Association: meta analysis (Model 1) NG00065
upstream N/A 2.7e-45 ADSP Single-Variant Risk Association: meta analysis (Model 2) NG00065
upstream N/A 2.7e-45 ADSP Single-Variant Risk Association: Caribbean Hispanic (Model 2) NG00065
upstream N/A 2.7e-45 ADSP Single-Variant Risk Association: European (Model 2) NG00065
downstream A 9.3e-26 IGAP 2013: Stages 1 and 2 NG00036
downstream T 6.0e-25 IGAP 2013: Stages 1 and 2 NG00036
downstream C 3.5e-24 IGAP 2013: Stages 1 and 2 NG00036
downstream C 3.6e-24 IGAP 2013: Stages 1 and 2 NG00036
downstream G 5.8e-24 IGAP 2013: Stages 1 and 2 NG00036
downstream A 2.8e-23 IGAP 2013: Stages 1 and 2 NG00036
downstream T 3.2e-23 IGAP 2013: Stages 1 and 2 NG00036
downstream T 7.9e-23 IGAP 2013: Stages 1 and 2 NG00036
downstream G 8.3e-23 IGAP 2013: Stages 1 and 2 NG00036
downstream T 2.3e-22 IGAP 2013: Stages 1 and 2 NG00036
downstream G 4.6e-22 IGAP 2013: Stages 1 and 2 NG00036
downstream A 3.8e-21 IGAP 2013: Stages 1 and 2 NG00036
downstream T 4.4e-21 IGAP 2013: Stages 1 and 2 NG00036
downstream A 6.3e-21 IGAP 2013: Stages 1 and 2 NG00036
downstream G 8.0e-21 IGAP 2013: Stages 1 and 2 NG00036
in gene A 4.9e-19 IGAP 2013: Stages 1 and 2 NG00036
in gene C 4.9e-19 IGAP 2013: Stages 1 and 2 NG00036
in gene G 5.9e-19 IGAP 2013: Stages 1 and 2 NG00036
in gene G 6.8e-19 IGAP 2013: Stages 1 and 2 NG00036
in gene C 1.1e-18 IGAP 2013: Stages 1 and 2 NG00036
in gene A 1.2e-18 IGAP 2013: Stages 1 and 2 NG00036
in gene C 1.3e-18 IGAP 2013: Stages 1 and 2 NG00036
in gene A 1.8e-18 IGAP 2013: Stages 1 and 2 NG00036
in gene A 2.2e-18 IGAP 2013: Stages 1 and 2 NG00036
in gene G 2.6e-18 IGAP 2013: Stages 1 and 2 NG00036
in gene T 2.8e-18 IGAP 2013: Stages 1 and 2 NG00036
in gene C 3.3e-18 IGAP 2013: Stages 1 and 2 NG00036
downstream C 3.3e-18 IGAP 2013: Stages 1 and 2 NG00036
in gene C 3.7e-18 IGAP 2013: Stages 1 and 2 NG00036
in gene A 4.2e-18 IGAP 2013: Stages 1 and 2 NG00036
downstream T 5.0e-18 IGAP 2013: Stages 1 and 2 NG00036
in gene T 6.1e-18 IGAP 2013: Stages 1 and 2 NG00036
downstream C 7.1e-18 IGAP 2013: Stages 1 and 2 NG00036
in gene C 1.6e-17 IGAP 2013: Stages 1 and 2 NG00036
in gene A 2.0e-17 IGAP 2013: Stages 1 and 2 NG00036
downstream T 2.7e-17 IGAP 2013: Stages 1 and 2 NG00036
downstream G 2.8e-17 IGAP 2013: Stages 1 and 2 NG00036
downstream C 2.9e-17 IGAP 2013: Stages 1 and 2 NG00036
downstream G 3.0e-17 IGAP 2013: Stages 1 and 2 NG00036
downstream A 3.1e-17 IGAP 2013: Stages 1 and 2 NG00036
in gene C 3.2e-17 IGAP 2013: Stages 1 and 2 NG00036
downstream C 4.7e-17 IGAP 2013: Stages 1 and 2 NG00036
downstream A 6.0e-17 IGAP 2013: Stages 1 and 2 NG00036
downstream G 7.1e-17 IGAP 2013: Stages 1 and 2 NG00036
downstream C 1.3e-16 IGAP 2013: Stages 1 and 2 NG00036
downstream A 6.5e-16 IGAP 2013: Stage 1 NG00036
downstream T 2.8e-15 IGAP 2013: Stage 1 NG00036
downstream A 2.9e-15 IGAP 2013: Stages 1 and 2 NG00036
downstream C 9.3e-15 IGAP 2013: Stage 1 NG00036
downstream C 1.2e-14 IGAP 2013: Stage 1 NG00036
downstream T 1.4e-14 IGAP 2013: Stages 1 and 2 NG00036
downstream G 2.2e-14 IGAP 2013: Stage 1 NG00036
downstream A 2.4e-14 IGAP 2013: Stage 1 NG00036
downstream C 3.9e-14 IGAP 2013: Stage 1 NG00036
downstream T 4.3e-14 IGAP 2013: Stage 1 NG00036
downstream G 5.6e-14 IGAP 2013: Stage 1 NG00036
downstream T 5.8e-14 IGAP 2013: Stage 1 NG00036
downstream T 6.0e-14 IGAP 2013: Stage 1 NG00036
downstream G 1.6e-13 IGAP 2013: Stage 1 NG00036
downstream T 2.5e-13 IGAP 2013: Stage 1 NG00036
downstream G 2.9e-13 IGAP 2013: Stage 1 NG00036
downstream A 4.5e-13 IGAP 2013: Stage 1 NG00036
downstream T 4.5e-13 IGAP 2013: Stage 1 NG00036
downstream G 4.7e-13 IGAP 2013: Stage 1 NG00036
downstream T 5.0e-13 Transethnic LOAD: All Samples NG00056
downstream C 5.7e-13 IGAP 2013: Stage 1 NG00036
downstream C 6.8e-13 IGAP 2013: Stage 1 NG00036
downstream A 7.4e-13 IGAP 2013: Stage 1 NG00036
downstream T 8.0e-13 IGAP 2013: Stage 1 NG00036
downstream C 8.6e-13 IGAP 2013: Stage 1 NG00036
downstream C 1.0e-12 Transethnic LOAD: All Samples NG00056
downstream T 1.1e-12 IGAP 2013: Stage 1 NG00036
downstream A 1.2e-12 IGAP 2013: Stage 1 NG00036
downstream A 1.6e-12 IGAP 2013: Stage 1 NG00036
in gene A 1.9e-12 IGAP 2013: Stage 1 NG00036
downstream C 2.5e-12 Transethnic LOAD: All Samples NG00056
in gene A 2.5e-12 IGAP 2013: Stage 1 NG00036
downstream A 2.6e-12 Transethnic LOAD: All Samples NG00056
in gene G 2.7e-12 IGAP 2013: Stage 1 NG00036
downstream A 2.7e-12 IGAP 2013: Stage 1 NG00036
in gene A 2.8e-12 IGAP 2013: Stage 1 NG00036
in gene T 3.0e-12 IGAP 2013: Stage 1 NG00036
downstream T 3.5e-12 Transethnic LOAD: All Samples NG00056
downstream A 3.6e-12 Transethnic LOAD: All Samples NG00056
in gene A 4.3e-12 IGAP 2013: Stage 1 NG00036
downstream A 4.5e-12 Transethnic LOAD: All Samples NG00056
in gene G 4.8e-12 IGAP 2013: Stage 1 NG00036
downstream T 4.8e-12 Transethnic LOAD: All Samples NG00056
downstream A 5.1e-12 Transethnic LOAD: All Samples NG00056
in gene T 5.1e-12 IGAP 2013: Stage 1 NG00036
in gene C 5.2e-12 IGAP 2013: Stage 1 NG00036
downstream C 5.3e-12 IGAP 2013: Stage 1 NG00036
in gene G 5.4e-12 IGAP 2013: Stage 1 NG00036
downstream C 5.6e-12 IGAP 2013: Stage 1 NG00036
in gene C 5.7e-12 IGAP 2013: Stage 1 NG00036
in gene A 5.7e-12 IGAP 2013: Stage 1 NG00036
in gene A 5.8e-12 IGAP 2013: Stage 1 NG00036
in gene C 6.4e-12 IGAP 2013: Stage 1 NG00036
in gene C 7.6e-12 IGAP 2013: Stage 1 NG00036
downstream T 9.1e-12 AD Age of Onset Survival (IGAP) NG00058
in gene C 1.0e-11 IGAP 2013: Stage 1 NG00036
in gene C 1.0e-11 IGAP 2013: Stage 1 NG00036
in gene T 1.1e-11 IGAP 2013: Stage 1 NG00036
downstream A 1.1e-11 Transethnic LOAD: All Samples NG00056
downstream A 1.3e-11 AD Age of Onset Survival (IGAP) NG00058
in gene A 1.3e-11 IGAP 2013: Stage 1 NG00036
downstream T 1.4e-11 AD Age of Onset Survival (IGAP) NG00058
downstream A 1.6e-11 AD Age of Onset Survival (IGAP) NG00058
downstream A 1.6e-11 IGAP 2013: Stage 1 NG00036
in gene T 1.7e-11 IGAP 2013: Stage 1 NG00036
downstream T 1.9e-11 IGAP (2013): ADGC Subset NG00053
downstream A 2.0e-11 Transethnic LOAD: All Samples NG00056
downstream C 2.1e-11 IGAP (2013): ADGC Subset NG00053
downstream T 2.1e-11 Transethnic LOAD: All Samples NG00056
downstream T 2.6e-11 Transethnic LOAD: All Samples NG00056
downstream A 3.0e-11 Transethnic LOAD: All Samples NG00056
downstream A 3.1e-11 Transethnic LOAD: All Samples NG00056
downstream T 3.1e-11 ADGC 2011: Stages 1 and 2 NG00027
downstream T 3.4e-11 Transethnic LOAD: All Samples NG00056
downstream A 3.5e-11 IGAP (2013): ADGC Subset NG00053
downstream T 3.5e-11 AD Age of Onset Survival (IGAP) NG00058
downstream A 3.6e-11 IGAP (2013): ADGC Subset NG00053
downstream A 3.6e-11 Transethnic LOAD: All Samples NG00056
downstream A 3.6e-11 Transethnic LOAD: All Samples NG00056
in gene A 3.7e-11 Transethnic LOAD: All Samples NG00056
downstream A 3.8e-11 IGAP (2013): ADGC Subset NG00053
in gene C 4.0e-11 IGAP 2013: Stage 1 NG00036
downstream T 4.1e-11 AD Age of Onset Survival (IGAP) NG00058
downstream A 4.4e-11 AD Age of Onset Survival (IGAP) NG00058
downstream A 5.1e-11 AD Age of Onset Survival (IGAP) NG00058
in gene T 5.2e-11 Transethnic LOAD: All Samples NG00056
downstream T 5.7e-11 ADGC 2011: Stages 1 and 2 NG00027
downstream T 5.7e-11 IGAP (2013): ADGC Subset NG00053
downstream A 5.9e-11 IGAP (2013): ADGC Subset NG00053
downstream T 6.1e-11 ADGC 2011: Stages 1 and 2 NG00027
in gene T 6.6e-11 Transethnic LOAD: All Samples NG00056
in gene T 6.6e-11 Transethnic LOAD: All Samples NG00056
downstream A 7.0e-11 ADGC 2011: Stages 1 and 2 NG00027
downstream A 7.1e-11 IGAP (2013): ADGC Subset NG00053
downstream A 7.1e-11 AD Age of Onset Survival (IGAP) NG00058
downstream T 7.2e-11 AD Age of Onset Survival (IGAP) NG00058
downstream A 7.4e-11 ADGC 2011: Stages 1 and 2 NG00027
downstream A 7.9e-11 ADGC 2011: Stages 1 and 2 NG00027
in gene A 8.1e-11 Transethnic LOAD: All Samples NG00056
downstream T 8.2e-11 IGAP (2013): ADGC Subset NG00053
in gene C 8.4e-11 IGAP 2013: Stage 1 NG00036
in gene A 8.8e-11 Transethnic LOAD: All Samples NG00056
downstream A 8.8e-11 IGAP 2013: Stages 1 and 2 NG00036
in gene T 9.5e-11 Transethnic LOAD: All Samples NG00056
downstream T 1.0e-10 Transethnic LOAD: All Samples NG00056
downstream C 1.0e-10 IGAP (2013): ADGC Subset NG00053
downstream T 1.1e-10 ADGC 2011: Stages 1 and 2 NG00027
downstream A 1.1e-10 IGAP (2013): ADGC Subset NG00053
downstream A 1.1e-10 AD Age of Onset Survival (IGAP) NG00058
downstream A 1.1e-10 ADGC 2011: Stages 1 and 2 NG00027
in gene A 1.1e-10 Transethnic LOAD: All Samples NG00056
downstream T 1.2e-10 ADGC 2011: Stages 1 and 2 NG00027
downstream A 1.3e-10 ADGC 2011: Stages 1 and 2 NG00027
downstream A 1.3e-10 IGAP (2013): ADGC Subset NG00053
in gene T 1.4e-10 Transethnic LOAD: All Samples NG00056
downstream A 1.4e-10 AD Age of Onset Survival (IGAP) NG00058
in gene A 1.5e-10 Transethnic LOAD: All Samples NG00056
downstream A 1.5e-10 Transethnic LOAD: All Samples NG00056
downstream T 1.5e-10 IGAP (2013): ADGC Subset NG00053
in gene A 1.6e-10 Transethnic LOAD: All Samples NG00056
downstream T 1.7e-10 AD Age of Onset Survival (IGAP) NG00058
in gene A 2.1e-10 Transethnic LOAD: All Samples NG00056
in gene T 2.2e-10 IGAP (2013): ADGC Subset NG00053
in gene A 2.3e-10 Transethnic LOAD: All Samples NG00056
downstream T 2.3e-10 ADGC 2011: Stages 1 and 2 NG00027
downstream T 2.4e-10 IGAP (2013): ADGC Subset NG00053
downstream T 2.4e-10 ADGC 2011: Stages 1 and 2 NG00027
in gene A 2.4e-10 Transethnic LOAD: All Samples NG00056
in gene A 2.5e-10 Transethnic LOAD: All Samples NG00056
in gene A 2.5e-10 IGAP 2013: Stages 1 and 2 NG00036
in gene T 2.6e-10 IGAP 2013: Stages 1 and 2 NG00036
downstream A 2.8e-10 ADGC 2011: Stages 1 and 2 NG00027
in gene T 2.8e-10 IGAP 2013: Stages 1 and 2 NG00036
downstream A 2.9e-10 AD Age of Onset Survival (IGAP) NG00058
downstream A 3.3e-10 ADGC 2011: Stages 1 and 2 NG00027
in gene T 3.4e-10 Transethnic LOAD: All Samples NG00056
downstream C 3.5e-10 ADGC 2011: Stages 1 and 2 NG00027
in gene T 3.8e-10 IGAP 2013: Stages 1 and 2 NG00036
downstream A 3.9e-10 AD Age of Onset Survival (IGAP) NG00058
in gene C 4.0e-10 IGAP 2013: Stages 1 and 2 NG00036
in gene G 4.0e-10 IGAP 2013: Stages 1 and 2 NG00036
in gene G 4.4e-10 IGAP 2013: Stages 1 and 2 NG00036
downstream T 4.4e-10 AD Age of Onset Survival (IGAP) NG00058
in gene T 4.5e-10 Transethnic LOAD: All Samples NG00056
downstream A 4.5e-10 IGAP (2013): ADGC Subset NG00053
downstream T 4.6e-10 IGAP (2013): ADGC Subset NG00053
downstream A 4.9e-10 IGAP (2013): ADGC Subset NG00053
downstream A 4.9e-10 IGAP (2013): ADGC Subset NG00053
downstream C 5.1e-10 IGAP 2013: Stage 1 NG00036
downstream A 5.2e-10 AD Age of Onset Survival (IGAP) NG00058
upstream C 5.5e-10 IGAP 2013: Stages 1 and 2 NG00036
in gene C 5.5e-10 IGAP 2013: Stages 1 and 2 NG00036
downstream A 5.6e-10 ADGC 2011: Stages 1 and 2 NG00027
in gene C 5.8e-10 IGAP 2013: Stages 1 and 2 NG00036
downstream A 6.0e-10 IGAP (2013): ADGC Subset NG00053
in gene C 6.2e-10 Transethnic LOAD: All Samples NG00056
downstream A 6.3e-10 ADGC 2011: Stages 1 and 2 NG00027
in gene T 6.4e-10 IGAP 2013: Stages 1 and 2 NG00036
upstream A 6.7e-10 IGAP 2013: Stages 1 and 2 NG00036
downstream A 7.2e-10 Transethnic LOAD: All Samples NG00056
downstream T 7.3e-10 IGAP 2013: Stage 1 NG00036
in gene C 7.3e-10 IGAP 2013: Stages 1 and 2 NG00036
in gene T 7.5e-10 Transethnic LOAD: All Samples NG00056
downstream T 7.6e-10 Transethnic LOAD: All Samples NG00056
in gene T 7.7e-10 Transethnic LOAD: All Samples NG00056
in gene A 7.8e-10 IGAP 2013: Stages 1 and 2 NG00036
downstream T 8.0e-10 Transethnic LOAD: All Samples NG00056
in gene T 8.2e-10 IGAP 2013: Stages 1 and 2 NG00036
in gene A 8.4e-10 IGAP 2013: Stages 1 and 2 NG00036
in gene T 8.4e-10 IGAP 2013: Stages 1 and 2 NG00036
in gene G 8.7e-10 IGAP 2013: Stages 1 and 2 NG00036
in gene A 8.8e-10 IGAP 2013: Stages 1 and 2 NG00036
in gene A 8.9e-10 IGAP 2013: Stages 1 and 2 NG00036
downstream A 9.7e-10 Transethnic LOAD: All Samples NG00056
downstream T 9.8e-10 AD Age of Onset Survival (IGAP) NG00058
downstream A 1.1e-9 IGAP (2013): ADGC Subset NG00053
downstream A 1.1e-9 Transethnic LOAD: All Samples NG00056
downstream T 1.1e-9 Transethnic LOAD: All Samples NG00056
in gene A 1.1e-9 IGAP 2013: Stages 1 and 2 NG00036
downstream T 1.2e-9 Transethnic LOAD: All Samples NG00056
downstream C 1.2e-9 IGAP 2013: Stage 1 NG00036
downstream T 1.2e-9 ADGC 2011: Stages 1 and 2 NG00027
downstream A 1.3e-9 IGAP 2013: Stage 1 NG00036
in gene T 1.3e-9 IGAP 2013: Stages 1 and 2 NG00036
downstream T 1.3e-9 IGAP (2013): ADGC Subset NG00053
in gene C 1.4e-9 IGAP 2013: Stages 1 and 2 NG00036
in gene T 1.4e-9 ADGC 2011: Stages 1 and 2 NG00027
downstream A 1.4e-9 AD Age of Onset Survival (IGAP) NG00058
in gene C 1.4e-9 IGAP 2013: Stages 1 and 2 NG00036
in gene T 1.4e-9 Transethnic LOAD: All Samples NG00056
downstream T 1.4e-9 ADGC 2011: Stages 1 and 2 NG00027
in gene T 1.5e-9 IGAP 2013: Stages 1 and 2 NG00036
downstream T 1.5e-9 IGAP (2013): ADGC Subset NG00053
in gene G 1.6e-9 IGAP 2013: Stages 1 and 2 NG00036
downstream G 1.7e-9 IGAP 2013: Stage 1 NG00036
in gene A 1.7e-9 IGAP (2013): ADGC Subset NG00053
downstream A 1.9e-9 Transethnic LOAD: All Samples NG00056
downstream T 1.9e-9 IGAP 2013: Stage 1 NG00036
downstream G 1.9e-9 IGAP 2013: Stage 1 NG00036
in gene A 2.0e-9 IGAP 2013: Stages 1 and 2 NG00036
upstream G 2.1e-9 IGAP 2013: Stages 1 and 2 NG00036
downstream T 2.1e-9 Transethnic LOAD: All Samples NG00056
in gene T 2.1e-9 IGAP 2013: Stages 1 and 2 NG00036
in gene A 2.2e-9 IGAP (2013): ADGC Subset NG00053
downstream T 2.2e-9 IGAP 2013: Stage 1 NG00036
downstream G 2.2e-9 IGAP 2013: Stage 1 NG00036
in gene A 2.2e-9 ADGC 2011: Stages 1 and 2 NG00027
downstream T 2.3e-9 IGAP 2013: Stages 1 and 2 NG00036
in gene A 2.5e-9 IGAP 2013: Stages 1 and 2 NG00036
downstream T 2.5e-9 IGAP (2013): ADGC Subset NG00053
in gene T 2.7e-9 Transethnic LOAD: All Samples NG00056
in gene A 2.7e-9 IGAP 2013: Stages 1 and 2 NG00036
in gene A 2.7e-9 ADGC 2011: Stages 1 and 2 NG00027
in gene G 2.8e-9 IGAP 2013: Stages 1 and 2 NG00036
in gene A 2.8e-9 IGAP (2013): ADGC Subset NG00053
in gene T 2.8e-9 ADGC 2011: Stages 1 and 2 NG00027
in gene T 2.8e-9 ADGC 2011: Stages 1 and 2 NG00027
in gene T 2.8e-9 ADGC 2011: Stages 1 and 2 NG00027
downstream T 2.9e-9 AD Age of Onset Survival (IGAP) NG00058
downstream T 3.0e-9 AD Age of Onset Survival (IGAP) NG00058
downstream G 3.0e-9 IGAP 2013: Stage 1 NG00036
in gene A 3.0e-9 ADGC 2011: Stages 1 and 2 NG00027
in gene T 3.1e-9 ADGC 2011: Stages 1 and 2 NG00027
in gene A 3.1e-9 ADGC 2011: Stages 1 and 2 NG00027
in gene T 3.3e-9 IGAP 2013: Stages 1 and 2 NG00036
in gene A 3.3e-9 ADGC 2011: Stages 1 and 2 NG00027
in gene T 3.4e-9 ADGC 2011: Stages 1 and 2 NG00027
in gene T 3.4e-9 ADGC 2011: Stages 1 and 2 NG00027
downstream A 3.4e-9 IGAP (2013): ADGC Subset NG00053
in gene A 3.4e-9 AD Age of Onset Survival (IGAP) NG00058
in gene T 3.7e-9 IGAP (2013): ADGC Subset NG00053
in gene T 3.7e-9 IGAP (2013): ADGC Subset NG00053
in gene C 3.8e-9 IGAP 2013: Stages 1 and 2 NG00036
in gene A 3.9e-9 ADGC 2011: Stages 1 and 2 NG00027
in gene T 4.2e-9 AD Age of Onset Survival (IGAP) NG00058
downstream T 4.3e-9 AD Age of Onset Survival (IGAP) NG00058
downstream A 4.3e-9 IGAP 2013: Stages 1 and 2 NG00036
in gene A 4.4e-9 IGAP 2013: Stages 1 and 2 NG00036
downstream T 4.6e-9 IGAP (2013): ADGC Subset NG00053
in gene T 4.6e-9 IGAP (2013): ADGC Subset NG00053
in gene T 4.6e-9 IGAP (2013): ADGC Subset NG00053
in gene A 4.6e-9 IGAP (2013): ADGC Subset NG00053
downstream G 4.8e-9 IGAP 2013: Stages 1 and 2 NG00036
in gene A 4.8e-9 IGAP (2013): ADGC Subset NG00053
downstream A 5.0e-9 ADGC 2011: Stages 1 and 2 NG00027
downstream G 5.2e-9 IGAP 2013: Stage 1 NG00036
downstream A 5.3e-9 IGAP 2013: Stage 1 NG00036
in gene A 5.3e-9 IGAP (2013): ADGC Subset NG00053
in gene T 5.4e-9 IGAP (2013): ADGC Subset NG00053
in gene T 5.4e-9 IGAP 2013: Stages 1 and 2 NG00036
in gene A 5.5e-9 IGAP (2013): ADGC Subset NG00053
in gene A 5.6e-9 IGAP (2013): ADGC Subset NG00053
in gene T 5.7e-9 IGAP (2013): ADGC Subset NG00053
in gene A 5.7e-9 AD Age of Onset Survival (IGAP) NG00058
downstream T 6.2e-9 Transethnic LOAD: All Samples NG00056
in gene A 7.2e-9 IGAP (2013): ADGC Subset NG00053
downstream C 7.5e-9 IGAP 2013: Stage 1 NG00036
downstream G 7.8e-9 IGAP 2013: Stages 1 and 2 NG00036
downstream T 9.8e-9 ADGC 2011: Stages 1 and 2 NG00027
downstream G 1.1e-8 IGAP 2013: Stages 1 and 2 NG00036
in gene A 1.2e-8 IGAP (2013): ADGC Subset NG00053
in gene A 1.3e-8 AD Age of Onset Survival (IGAP) NG00058
downstream C 1.3e-8 IGAP 2013: Stage 1 NG00036
downstream T 1.4e-8 IGAP (2013): ADGC Subset NG00053
in gene T 1.5e-8 AD Age of Onset Survival (IGAP) NG00058
downstream A 1.5e-8 IGAP 2013: Stages 1 and 2 NG00036
downstream T 1.5e-8 ADGC 2011: Adjusted Stages 1 and 2 NG00027
in gene T 1.6e-8 IGAP (2013): ADGC Subset NG00053
in gene C 1.6e-8 IGAP (2013): ADGC Subset NG00053
downstream A 1.6e-8 Transethnic LOAD: All Samples NG00056
in gene T 1.7e-8 AD Age of Onset Survival (IGAP) NG00058
in gene T 1.7e-8 IGAP (2013): ADGC Subset NG00053
in gene T 1.8e-8 AD Age of Onset Survival (IGAP) NG00058
in gene A 2.0e-8 AD Age of Onset Survival (IGAP) NG00058
downstream A 2.1e-8 IGAP (2013): ADGC Subset NG00053
downstream A 2.2e-8 IGAP (2013): ADGC Subset NG00053
downstream T 2.2e-8 IGAP 2013: Stages 1 and 2 NG00036
in gene T 2.2e-8 AD Age of Onset Survival (IGAP) NG00058
downstream T 2.3e-8 ADGC 2011: Adjusted Stages 1 and 2 NG00027
downstream A 2.3e-8 ADGC 2011: Adjusted Stages 1 and 2 NG00027
downstream A 2.3e-8 Transethnic LOAD: All Samples NG00056
downstream T 2.4e-8 IGAP (2013): ADGC Subset NG00053
in gene T 2.5e-8 AD Age of Onset Survival (IGAP) NG00058
downstream A 2.7e-8 Transethnic LOAD: All Samples NG00056
downstream T 2.7e-8 ADGC 2011: Adjusted Stages 1 and 2 NG00027
downstream A 2.8e-8 ADGC 2011: Adjusted Stages 1 and 2 NG00027
downstream A 2.9e-8 IGAP 2013: Stages 1 and 2 NG00036
downstream T 3.0e-8 ADGC 2011: Adjusted Stages 1 and 2 NG00027
downstream A 3.0e-8 ADGC 2011: Adjusted Stages 1 and 2 NG00027
downstream C 3.0e-8 IGAP 2013: Stages 1 and 2 NG00036
in gene A 3.2e-8 AD Age of Onset Survival (IGAP) NG00058
in gene A 3.3e-8 AD Age of Onset Survival (IGAP) NG00058
in gene A 3.4e-8 AD Age of Onset Survival (IGAP) NG00058
in gene T 3.5e-8 AD Age of Onset Survival (IGAP) NG00058
in gene T 3.6e-8 IGAP (2013): ADGC Subset NG00053
downstream A 4.1e-8 IGAP (2013): ADGC Subset NG00053
in gene A 4.2e-8 AD Age of Onset Survival (IGAP) NG00058
downstream A 4.2e-8 ADGC 2011: Adjusted Stages 1 and 2 NG00027
in gene T 4.3e-8 AD Age of Onset Survival (IGAP) NG00058
downstream T 4.5e-8 IGAP (2013): ADGC Subset NG00053
in gene T 4.6e-8 AD Age of Onset Survival (IGAP) NG00058
downstream T 4.8e-8 IGAP 2013: Stages 1 and 2 NG00036

NHGRI GWAS: Alzheimer's Disease

Variants contained within ±100kb of PICALM that are associated with Alzheimer's disease in the NHGRI GWAS Catalog.

The following variants, contained within ±100kb of PICALM, have been associated with AD-relevant neuropathologies in a GWAS study:

NIAGADS GWAS: AD biomarkers and related neuropathologies

Variants contained within ±100kb of PICALM that have genome-wide significance in a NIAGADS GWAS summary statistics dataset; supported by a p-value < 5 x 10-8. For exome array studies, a cutoff of p-value < 1 x 10-3 was used.

Click on accession numbers to view a detailed report about the dataset or to request access to the data.

NHGRI GWAS: Other Traits (incl. related neuropathologies and AD biomarkers)

Variants contained within ±100kb of PICALM that are associated with a trait in the NHGRI GWAS Catalog.

Functional Genomics

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Explore all functional genomics annotations within the region of the PICALM gene (chr11:85668727-85780924)

Transcription Factor Binding Site Overlap in Gene Promoter Region (ENCODE ChIP-SEQ)

ChIP-Seq sites for transcription factor binding (from selected brain-relevant ENCODE tracks) within the promoter region of this gene. See methods for more information.

Functional Annotation

Gene Ontology

Functional annotations were obtained from UniProt-GOA gene association files.

Click on a term accession number to view term details at the Gene Ontology Consortium.

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Ontology GO Accession Term Evidence Code
BP GO:0007409 axonogenesis IEA
BP GO:0035459 cargo loading into vesicle IMP,IEA
BP GO:0098609 cell-cell adhesion IEA
BP GO:0008283 cell proliferation IMP
BP GO:0048268 clathrin coat assembly IMP,IEA
BP GO:0072583 clathrin-dependent endocytosis IMP,IEA
BP GO:0048813 dendrite morphogenesis IEA
BP GO:0006897 endocytosis IEA
BP GO:0016197 endosomal transport IMP
BP GO:0030097 hemopoiesis IEA
BP GO:0055072 iron ion homeostasis IMP
BP GO:0097459 iron ion import into cell IMP
BP GO:0061024 membrane organization TAS
BP GO:0010629 negative regulation of gene expression IMP
BP GO:1902963 negative regulation of metalloendopeptidase activity involved in amyloid precursor protein catabolic process ISS,IEA
BP GO:0048261 negative regulation of receptor-mediated endocytosis IDA
BP GO:1902961 positive regulation of aspartic-type endopeptidase activity involved in amyloid precursor protein catabolic process ISS,IEA
BP GO:1902004 positive regulation of beta-amyloid formation IMP,IEA
BP GO:1901216 positive regulation of neuron death IMP
BP GO:0045893 positive regulation of transcription, DNA-templated IDA
BP GO:0006461 protein complex assembly TAS
BP GO:0031623 receptor internalization IMP
BP GO:0006898 receptor-mediated endocytosis ISS,IDA,IEA
BP GO:1902959 regulation of aspartic-type endopeptidase activity involved in amyloid precursor protein catabolic process IMP
BP GO:0030100 regulation of endocytosis IMP
BP GO:0032880 regulation of protein localization IDA
BP GO:0016188 synaptic vesicle maturation IEA,ISS
BP GO:0016192 vesicle-mediated transport TAS
CC GO:0030122 AP-2 adaptor complex IDA
CC GO:0005913 cell-cell adherens junction IDA
CC GO:0005905 clathrin-coated pit IDA,IEA,ISS
CC GO:0030136 clathrin-coated vesicle IEA
CC GO:0030132 clathrin coat of coated pit IDA
CC GO:0031410 cytoplasmic vesicle IEA
CC GO:0005829 cytosol TAS
CC GO:0005794 Golgi apparatus IEA
CC GO:0005622 intracellular IEA
CC GO:0043231 intracellular membrane-bounded organelle IDA
CC GO:0016020 membrane IEA,IDA
CC GO:0097418 neurofibrillary tangle IMP
CC GO:0043025 neuronal cell body IDA
CC GO:0005634 nucleus IEA,IDA
CC GO:0048471 perinuclear region of cytoplasm IEA,ISS
CC GO:0045211 postsynaptic membrane ISS
CC GO:0042734 presynaptic membrane ISS
CC GO:0031982 vesicle IEA,ISS
MF GO:0005545 1-phosphatidylinositol binding IEA,ISS
MF GO:0098641 cadherin binding involved in cell-cell adhesion IDA
MF GO:0035615 clathrin adaptor activity IMP
MF GO:0030276 clathrin binding IEA,ISS,IPI,IDA
MF GO:0032050 clathrin heavy chain binding IDA
MF GO:0005543 phospholipid binding IEA
MF GO:0005515 protein binding IPI

KEGG Pathways

Click on a pathway accession number to view term details at KEGG.

Click on the number in the Find Similar column to get a list of genes annotated by the associated pathway.