Gene Page: ABCA4
Summary ?
GeneID | 24 |
Symbol | ABCA4 |
Synonyms | ABC10|ABCR|ARMD2|CORD3|FFM|RMP|RP19|STGD|STGD1 |
Description | ATP binding cassette subfamily A member 4 |
Reference | MIM:601691|HGNC:HGNC:34|Ensembl:ENSG00000198691|HPRD:03408|Vega:OTTHUMG00000010622 |
Gene type | protein-coding |
Map location | 1p22 |
Pascal p-value | 0.507 |
Fetal beta | -0.067 |
DMG | 1 (# studies) |
Gene in Data Sources
Gene set name | Method of gene set | Description | Info |
---|---|---|---|
CV:PGCnp | Genome-wide Association Study | GWAS | |
DMG:Wockner_2014 | Genome-wide DNA methylation analysis | This dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). | 1 |
Section I. Genetics and epigenetics annotation
Differentially methylated gene
Probe | Chromosome | Position | Nearest gene | P (dis) | Beta (dis) | FDR (dis) | Study |
---|---|---|---|---|---|---|---|
cg09234454 | 1 | 94560697 | ABCA4 | 1E-5 | 0.777 | 0.013 | DMG:Wockner_2014 |
Section II. Transcriptome annotation
General gene expression (GTEx)

Gene expression during devlopment (BrainCloud)
Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.
Gene expression of temporal and spatial changes (BrainSpan)
Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.
Top co-expressed genes in brain regions
Top 10 positively co-expressed genes | ||
Gene | Pearson's Correlation | Spearman's Correlation |
NSD1 | 0.94 | 0.95 |
KIF1B | 0.94 | 0.94 |
ZZEF1 | 0.94 | 0.94 |
NR2C2 | 0.94 | 0.94 |
PCNX | 0.94 | 0.95 |
MICAL3 | 0.94 | 0.95 |
CUGBP2 | 0.93 | 0.94 |
BIRC6 | 0.93 | 0.94 |
TANC2 | 0.93 | 0.94 |
KIAA0240 | 0.93 | 0.95 |
Top 10 negatively co-expressed genes | ||
Gene | Pearson's Correlation | Spearman's Correlation |
AF347015.31 | -0.74 | -0.84 |
MT-CO2 | -0.73 | -0.84 |
AF347015.27 | -0.71 | -0.81 |
FXYD1 | -0.71 | -0.80 |
HIGD1B | -0.70 | -0.83 |
AF347015.8 | -0.70 | -0.82 |
AF347015.33 | -0.70 | -0.79 |
AF347015.21 | -0.70 | -0.87 |
MT-CYB | -0.69 | -0.79 |
HSD17B14 | -0.69 | -0.76 |
Section V. Pathway annotation
Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
---|---|---|---|
KEGG ABC TRANSPORTERS | 44 | 29 | All SZGR 2.0 genes in this pathway |
REACTOME ABC FAMILY PROTEINS MEDIATED TRANSPORT | 34 | 21 | All SZGR 2.0 genes in this pathway |
REACTOME TRANSMEMBRANE TRANSPORT OF SMALL MOLECULES | 413 | 270 | All SZGR 2.0 genes in this pathway |
ASTIER INTEGRIN SIGNALING | 59 | 44 | All SZGR 2.0 genes in this pathway |
BROWNE HCMV INFECTION 48HR DN | 504 | 323 | All SZGR 2.0 genes in this pathway |
LEIN CHOROID PLEXUS MARKERS | 103 | 61 | All SZGR 2.0 genes in this pathway |
LABBE TARGETS OF TGFB1 AND WNT3A DN | 108 | 68 | All SZGR 2.0 genes in this pathway |
SHEDDEN LUNG CANCER GOOD SURVIVAL A4 | 196 | 124 | All SZGR 2.0 genes in this pathway |
MIKKELSEN IPS ICP WITH H3K27ME3 | 54 | 32 | All SZGR 2.0 genes in this pathway |
YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 0 | 76 | 54 | All SZGR 2.0 genes in this pathway |
BROWNE HCMV INFECTION 30MIN DN | 150 | 99 | All SZGR 2.0 genes in this pathway |
BROWNE HCMV INFECTION 4HR DN | 254 | 158 | All SZGR 2.0 genes in this pathway |
PEDRIOLI MIR31 TARGETS DN | 418 | 245 | All SZGR 2.0 genes in this pathway |
RAO BOUND BY SALL4 ISOFORM B | 517 | 302 | All SZGR 2.0 genes in this pathway |