chr2:127805603-127864931

59328 bp

More information

1 gene is contained within or overlaps this genomic region:

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.

To add tracks, use the provided link to switch to the full genome browser view.

Genetic Variation and Variant-based Trait Associations (GWAS)

Variants contained within the region chr2:127805603-127864931.

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4,152 variant records to (corresponding to 3,980 unique genomic positions) are contained within the region chr2:127805603-127864931.

Of these, the following were found to have genome-wide significance in a NIAGADS dataset or the NHGRI GWAS Catalog:

NIAGADS: Alzheimer's Disease

NIAGADS AD GWAS summary statistics datasets in which colocated variants have a genome-wide significance 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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Variant Allele p-Value Track Accession
A 1.1e-25 IGAP 2013: Stages 1 and 2 NG00036
T 6.1e-18 IGAP 2013: Stages 1 and 2 NG00036
A 3.7e-16 IGAP 2013: Stage 1 NG00036
A 2.5e-13 IGAP 2013: Stages 1 and 2 NG00036
A 2.8e-13 IGAP 2013: Stages 1 and 2 NG00036
A 5.4e-13 IGAP 2013: Stages 1 and 2 NG00036
A 5.4e-13 Transethnic LOAD: All Samples NG00056
T 7.6e-13 IGAP 2013: Stage 1 NG00036
A 8.1e-13 IGAP 2013: Stages 1 and 2 NG00036
A 1.2e-12 Transethnic LOAD: All Samples NG00056
G 1.7e-12 IGAP 2013: Stages 1 and 2 NG00036
A 2.6e-12 IGAP 2013: Stage 1 NG00036
A 7.4e-12 IGAP (2013): ADGC Subset NG00053
A 2.5e-11 IGAP 2013: Stages 1 and 2 NG00036
T 3.2e-11 IGAP 2013: Stages 1 and 2 NG00036
C 5.4e-11 IGAP 2013: Stages 1 and 2 NG00036
T 7.4e-11 Transethnic LOAD: All Samples NG00056
T 3.9e-10 AD Age of Onset Survival (IGAP) NG00058
A 5.2e-10 IGAP 2013: Stages 1 and 2 NG00036
A 6.8e-10 IGAP 2013: Stages 1 and 2 NG00036
T 8.5e-10 IGAP (2013): ADGC Subset NG00053
C 8.9e-10 IGAP 2013: Stages 1 and 2 NG00036
C 1.2e-9 IGAP 2013: Stages 1 and 2 NG00036
A 2.2e-9 IGAP (2013): ADGC Subset NG00053
C 3.0e-9 IGAP 2013: Stages 1 and 2 NG00036
C 3.6e-9 IGAP 2013: Stages 1 and 2 NG00036
T 3.7e-9 IGAP 2013: Stages 1 and 2 NG00036
A 4.2e-9 IGAP 2013: Stages 1 and 2 NG00036
T 5.4e-9 IGAP 2013: Stages 1 and 2 NG00036
C 6.2e-9 IGAP 2013: Stages 1 and 2 NG00036
T 6.6e-9 IGAP 2013: Stages 1 and 2 NG00036
T 7.2e-9 AD Age of Onset Survival (IGAP) NG00058
A 8.0e-9 AD Age of Onset Survival (IGAP) NG00058
A 8.1e-9 IGAP 2013: Stages 1 and 2 NG00036
T 9.1e-9 IGAP 2013: Stage 1 NG00036
A 1.1e-8 Transethnic LOAD: APOE e4 Non-Carriers NG00056
T 1.3e-8 AD Age of Onset Survival (IGAP) NG00058
T 1.3e-8 AD Age of Onset Survival (IGAP) NG00058
T 1.8e-8 Transethnic LOAD: All Samples NG00056
C 2.6e-8 IGAP 2013: Stages 1 and 2 NG00036
A 3.0e-8 Transethnic LOAD: APOE e4 Non-Carriers NG00056
T 4.3e-8 IGAP 2013: Stages 1 and 2 NG00036

NHGRI: Alzheimer's Disease

Alzheimer's Disease-related annotations for the dbSNP refSNPs contained within this region in the NHGRI GWAS Catalog.

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Variant Allele Frequency p-Value Odds Ratio/Beta Trait EFO Study Design Study
? 0.810 1.0e-6 1.4084507 Alzheimers disease EFO_0000249 N/A Genome-wide association study of Alzheimer's disease with psychotic symptoms. PMID: 22005930
? 0.810 1.0e-6 1.4084507 Alzheimers disease EFO_0000249 N/A Genome-wide association study of Alzheimer's disease with psychotic symptoms. PMID: 22005930

NIAGADS: Related neuropathologies and AD biomarkers

NIAGADS AD GWAS summary statistics datasets in which colocated variants have a genome-wide significance 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: Other Traits (incl. related neuropathologies and AD biomarkers)

Trait associations for the dbSNP refSNP contained with this region in the NHGRI GWAS Catalog.

Functional Genomics

Genomic regions associated with significant scores or peaks in a functional genomics anlaysis that are located within this span.

See the documentation documentation for more information on the functional genomics tracks.

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To view functional genomics annotations on the genome browser, first select tracks in the table below and then use the provided button to load the tracks on the browser.

Track #Hits Characteristics Track Type Platform
H3K4me3 HM ChIP-seq on human NH-A
8 histone peak ChIP-seq
H3K4me1 HM ChIP-seq on human NH-A
7 histone peak ChIP-seq
H3K9ac HM ChIP-seq on human NH-A
6 histone peak ChIP-seq
H3K4me2 HM ChIP-seq on human NH-A
6 histone peak ChIP-seq
H3K27ac HM ChIP-seq on human NH-A
4 histone peak ChIP-seq
H3K79me2 HM ChIP-seq on human NH-A
1 histone peak ChIP-seq
H3K36me3 HM ChIP-seq on human NH-A
1 histone peak ChIP-seq
H4K20me1 HM ChIP-seq on human NH-A
1 histone peak ChIP-seq
CTCF TFBS ChIP-seq on human HBMEC
7 transcription factor binding site ChIP-seq
RAD21 TFBS ChIP-seq on human SK-N-SH_RA
6 transcription factor binding site ChIP-seq
CTCF TFBS ChIP-seq on human HA-sp
5 transcription factor binding site ChIP-seq
USF1 TFBS ChIP-seq on human SK-N-SH_RA
5 transcription factor binding site ChIP-seq
CTCF TFBS ChIP-seq on human Gliobla
5 transcription factor binding site ChIP-seq
REST TFBS ChIP-seq on human U87
4 transcription factor binding site ChIP-seq
FOXP2 TFBS ChIP-seq on human PFSK-1
4 transcription factor binding site ChIP-seq
CTCF TFBS ChIP-seq on human SK-N-SH_RA
3 transcription factor binding site ChIP-seq
CTCF TFBS ChIP-seq on human SK-N-SH_RA
3 transcription factor binding site ChIP-seq
CTCF TFBS ChIP-seq on human NH-A
3 transcription factor binding site ChIP-seq
POLR2A TFBS ChIP-seq on human U87
2 transcription factor binding site ChIP-seq
CTCF TFBS ChIP-seq on human BE2-C
2 transcription factor binding site ChIP-seq
EP300 TFBS ChIP-seq on human SK-N-SH_RA
2 transcription factor binding site ChIP-seq
FOXP2 TFBS ChIP-seq on human SK-N-MC
1 transcription factor binding site ChIP-seq
POLR2A TFBS ChIP-seq on human SK-N-SH
1 transcription factor binding site ChIP-seq
REST TFBS ChIP-seq on human SK-N-SH
1 transcription factor binding site ChIP-seq
SIN3A TFBS ChIP-seq on human SK-N-SH
1 transcription factor binding site ChIP-seq
REST TFBS ChIP-seq on human SK-N-SH
1 transcription factor binding site ChIP-seq
TAF1 TFBS ChIP-seq on human SK-N-SH
1 transcription factor binding site ChIP-seq
GATA2 TFBS ChIP-seq on human SH-SY5Y
1 transcription factor binding site ChIP-seq
POLR2A TFBS ChIP-seq on human Gliobla
1 transcription factor binding site ChIP-seq
DNase-seq on human Medullo
21 DNAse hypersensitive region DNase-Hypersensitivity seq
DNase-seq on human Gliobla
19 DNAse hypersensitive region DNase-Hypersensitivity seq
DNase-seq on human HBMEC
16 DNAse hypersensitive region DNase-Hypersensitivity seq
DNase-seq on human SK-N-SH_RA
13 DNAse hypersensitive region DNase-Hypersensitivity seq
DNase-seq on human HA-h
13 DNAse hypersensitive region DNase-Hypersensitivity seq
DNase-seq on human NH-A
12 DNAse hypersensitive region DNase-Hypersensitivity seq
DNase-seq on human BE2-C
12 DNAse hypersensitive region DNase-Hypersensitivity seq
DNase-seq on human HA-sp
6 DNAse hypersensitive region DNase-Hypersensitivity seq
DNase-seq on human SK-N-MC
4 DNAse hypersensitive region DNase-Hypersensitivity seq
Expressed enhancers in brain tissue
2 expressed enhancer RNA-seq/CAGE