Gene Page: ABCA3

Summary ?
GeneID21
SymbolABCA3
SynonymsABC-C|ABC3|EST111653|LBM180|SMDP3
DescriptionATP binding cassette subfamily A member 3
ReferenceMIM:601615|HGNC:HGNC:33|Ensembl:ENSG00000167972|HPRD:03369|Vega:OTTHUMG00000128845
Gene typeprotein-coding
Map location16p13.3
Pascal p-value0.128
Sherlock p-value0.986
Fetal beta-0.789
DMG1 (# studies)
eGeneMyers' cis & trans
SupportCompositeSet
Darnell FMRP targets

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
DMG:Wockner_2014Genome-wide DNA methylation analysisThis 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

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg09632163162339292ABCA32.035E-40.230.035DMG:Wockner_2014

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs16836102chr44716366ABCA3210.08trans

Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

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
GenePearson's Correlation Spearman's Correlation
SLC5A50.920.55
SLC13A40.910.46
KCNJ130.900.29
CLIC60.900.46
F50.900.40
TRPV40.880.41
CP0.880.33
PRLR0.870.20
RBM470.860.38
FOLR10.840.30
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
ZNF32-0.21-0.41
SNHG12-0.20-0.39
RPL31-0.20-0.45
COMMD3-0.20-0.40
TCTEX1D2-0.19-0.37
CYP2R1-0.19-0.34
STRA13-0.19-0.37
RPS21-0.19-0.43
RPP21-0.19-0.33
NDUFAF2-0.19-0.42

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG ABC TRANSPORTERS 4429All SZGR 2.0 genes in this pathway
PID ERA GENOMIC PATHWAY 6537All SZGR 2.0 genes in this pathway
REACTOME ABCA TRANSPORTERS IN LIPID HOMEOSTASIS 1811All SZGR 2.0 genes in this pathway
REACTOME ABC FAMILY PROTEINS MEDIATED TRANSPORT 3421All SZGR 2.0 genes in this pathway
REACTOME TRANSMEMBRANE TRANSPORT OF SMALL MOLECULES 413270All SZGR 2.0 genes in this pathway
BERTUCCI MEDULLARY VS DUCTAL BREAST CANCER UP 206111All SZGR 2.0 genes in this pathway
CHARAFE BREAST CANCER LUMINAL VS BASAL UP 380215All SZGR 2.0 genes in this pathway
SENESE HDAC3 TARGETS UP 501327All SZGR 2.0 genes in this pathway
GRUETZMANN PANCREATIC CANCER DN 203134All SZGR 2.0 genes in this pathway
INGRAM SHH TARGETS UP 12779All SZGR 2.0 genes in this pathway
KANNAN TP53 TARGETS UP 5840All SZGR 2.0 genes in this pathway
AFFAR YY1 TARGETS UP 214133All SZGR 2.0 genes in this pathway
ZHANG RESPONSE TO CANTHARIDIN DN 6946All SZGR 2.0 genes in this pathway
ZHANG GATA6 TARGETS DN 6446All SZGR 2.0 genes in this pathway
DAIRKEE CANCER PRONE RESPONSE BPA E2 11865All SZGR 2.0 genes in this pathway
SMID BREAST CANCER LUMINAL B UP 172109All SZGR 2.0 genes in this pathway
SMID BREAST CANCER BASAL DN 701446All SZGR 2.0 genes in this pathway
RAY TUMORIGENESIS BY ERBB2 CDC25A UP 10457All SZGR 2.0 genes in this pathway
HUANG DASATINIB RESISTANCE DN 6944All SZGR 2.0 genes in this pathway
VANTVEER BREAST CANCER ESR1 UP 16799All SZGR 2.0 genes in this pathway
SHEDDEN LUNG CANCER GOOD SURVIVAL A4 196124All SZGR 2.0 genes in this pathway
ZHANG TLX TARGETS 60HR UP 293203All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA CHEMOTAXIS DN 457302All SZGR 2.0 genes in this pathway
KIM ALL DISORDERS OLIGODENDROCYTE NUMBER CORR UP 756494All SZGR 2.0 genes in this pathway
CHYLA CBFA2T3 TARGETS DN 242146All SZGR 2.0 genes in this pathway
FEVR CTNNB1 TARGETS UP 682433All SZGR 2.0 genes in this pathway
ALFANO MYC TARGETS 239156All SZGR 2.0 genes in this pathway
LIM MAMMARY STEM CELL DN 428246All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 2ND EGF PULSE ONLY 1725838All SZGR 2.0 genes in this pathway