Gene Page: PDGFA

Summary ?
GeneID5154
SymbolPDGFA
SynonymsPDGF-A|PDGF1
Descriptionplatelet derived growth factor subunit A
ReferenceMIM:173430|HGNC:HGNC:8799|Ensembl:ENSG00000197461|HPRD:01424|Vega:OTTHUMG00000151412
Gene typeprotein-coding
Map location7p22
Sherlock p-value0.054
Fetal beta-1.192
DMG1 (# studies)
eGeneCortex
Myers' cis & trans

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
DMG:Jaffe_2016Genome-wide DNA methylation analysisThis dataset includes 2,104 probes/CpGs associated with SZ patients (n=108) compared to 136 controls at Bonferroni-adjusted P < 0.05. 1
ExpressionMeta-analysis of gene expressionP value: 1.463 

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg224762957559000PDGFA1.83E-9-0.011.57E-6DMG:Jaffe_2016

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs1578978chr8118196802PDGFA51540.02trans

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.

No co-expressed genes in brain regions


Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0005161platelet-derived growth factor receptor bindingIDA2836953 
GO:0005161platelet-derived growth factor receptor bindingIDA2439522 
GO:0005161platelet-derived growth factor receptor bindingIPI2536956 
GO:0008083growth factor activityIEA-
GO:0048407platelet-derived growth factor bindingIPI7073684 
GO:0042803protein homodimerization activityIDA2836953 |3754619 
GO:0043498cell surface bindingIDA291037 |2538439 |2836953 
GO:0046982protein heterodimerization activityIPI7073684 
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0001775cell activationTAS10508235 
GO:0007267cell-cell signalingTAS2842868 
GO:0010544negative regulation of platelet activationIDA2538439 
GO:0010512negative regulation of phosphatidylinositol biosynthetic processIDA2538439 
GO:0008283cell proliferationIEA-
GO:0009790embryonic developmentTAS10508235 
GO:0048008platelet-derived growth factor receptor signaling pathwayIDA2439522 |2536956 |2836953 
GO:0042060wound healingTAS10508235 
GO:0014910regulation of smooth muscle cell migrationIDA9409235 
GO:0050919negative chemotaxisIDA9409235 
GO:0032956regulation of actin cytoskeleton organizationTAS10508235 
GO:0030335positive regulation of cell migrationIDA17470632 
GO:0045740positive regulation of DNA replicationIDA2439522 |2836953 |10806482 
GO:0048146positive regulation of fibroblast proliferationIDA2439522 |10806482 
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0005576extracellular regionEXP287022 
GO:0005576extracellular regionIEA-
GO:0005615extracellular spaceIDA3754619 
GO:0016020membraneIEA-
GO:0009986cell surfaceIDA291037 |2836953 
GO:0031089platelet dense granule lumenEXP287022 

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG MAPK SIGNALING PATHWAY 267205All SZGR 2.0 genes in this pathway
KEGG CYTOKINE CYTOKINE RECEPTOR INTERACTION 267161All SZGR 2.0 genes in this pathway
KEGG FOCAL ADHESION 201138All SZGR 2.0 genes in this pathway
KEGG GAP JUNCTION 9068All SZGR 2.0 genes in this pathway
KEGG REGULATION OF ACTIN CYTOSKELETON 216144All SZGR 2.0 genes in this pathway
KEGG PATHWAYS IN CANCER 328259All SZGR 2.0 genes in this pathway
KEGG GLIOMA 6556All SZGR 2.0 genes in this pathway
KEGG PROSTATE CANCER 8975All SZGR 2.0 genes in this pathway
KEGG MELANOMA 7157All SZGR 2.0 genes in this pathway
BIOCARTA INFLAM PATHWAY 2924All SZGR 2.0 genes in this pathway
BIOCARTA PPARA PATHWAY 5843All SZGR 2.0 genes in this pathway
BIOCARTA PDGF PATHWAY 3225All SZGR 2.0 genes in this pathway
BIOCARTA EDG1 PATHWAY 2724All SZGR 2.0 genes in this pathway
PID CERAMIDE PATHWAY 4837All SZGR 2.0 genes in this pathway
REACTOME RESPONSE TO ELEVATED PLATELET CYTOSOLIC CA2 8956All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY PDGF 12293All SZGR 2.0 genes in this pathway
REACTOME DOWNSTREAM SIGNAL TRANSDUCTION 9576All SZGR 2.0 genes in this pathway
REACTOME HEMOSTASIS 466331All SZGR 2.0 genes in this pathway
REACTOME PLATELET ACTIVATION SIGNALING AND AGGREGATION 208138All SZGR 2.0 genes in this pathway
LIU SOX4 TARGETS UP 13794All SZGR 2.0 genes in this pathway
LIU TARGETS OF VMYB VS CMYB DN 4330All SZGR 2.0 genes in this pathway
CHARAFE BREAST CANCER LUMINAL VS MESENCHYMAL DN 460312All SZGR 2.0 genes in this pathway
TAKEDA TARGETS OF NUP98 HOXA9 FUSION 6HR DN 4129All SZGR 2.0 genes in this pathway
TONKS TARGETS OF RUNX1 RUNX1T1 FUSION MONOCYTE UP 204140All SZGR 2.0 genes in this pathway
TONKS TARGETS OF RUNX1 RUNX1T1 FUSION ERYTHROCYTE UP 157104All SZGR 2.0 genes in this pathway
KIM WT1 TARGETS UP 214155All SZGR 2.0 genes in this pathway
KOKKINAKIS METHIONINE DEPRIVATION 48HR DN 6439All SZGR 2.0 genes in this pathway
KOKKINAKIS METHIONINE DEPRIVATION 96HR DN 7550All SZGR 2.0 genes in this pathway
CHIARADONNA NEOPLASTIC TRANSFORMATION KRAS CDC25 UP 5839All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN UP 1142669All SZGR 2.0 genes in this pathway
GRAESSMANN RESPONSE TO MC AND DOXORUBICIN UP 612367All SZGR 2.0 genes in this pathway
WANG BARRETTS ESOPHAGUS AND ESOPHAGUS CANCER UP 2612All SZGR 2.0 genes in this pathway
BORLAK LIVER CANCER EGF UP 5741All SZGR 2.0 genes in this pathway
LI WILMS TUMOR VS FETAL KIDNEY 2 DN 5142All SZGR 2.0 genes in this pathway
SHETH LIVER CANCER VS TXNIP LOSS PAM2 153102All SZGR 2.0 genes in this pathway
LIEN BREAST CARCINOMA METAPLASTIC 3525All SZGR 2.0 genes in this pathway
KHETCHOUMIAN TRIM24 TARGETS UP 4738All SZGR 2.0 genes in this pathway
GALIE TUMOR ANGIOGENESIS 87All SZGR 2.0 genes in this pathway
LIAO METASTASIS 539324All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 48HR UP 487286All SZGR 2.0 genes in this pathway
KOYAMA SEMA3B TARGETS UP 292168All SZGR 2.0 genes in this pathway
GOTZMANN EPITHELIAL TO MESENCHYMAL TRANSITION UP 6955All SZGR 2.0 genes in this pathway
HE PTEN TARGETS UP 1615All SZGR 2.0 genes in this pathway
BENPORATH CYCLING GENES 648385All SZGR 2.0 genes in this pathway
STARK PREFRONTAL CORTEX 22Q11 DELETION DN 517309All SZGR 2.0 genes in this pathway
TENEDINI MEGAKARYOCYTE MARKERS 6648All SZGR 2.0 genes in this pathway
RADAEVA RESPONSE TO IFNA1 DN 105All SZGR 2.0 genes in this pathway
GALINDO IMMUNE RESPONSE TO ENTEROTOXIN 8567All SZGR 2.0 genes in this pathway
AFFAR YY1 TARGETS UP 214133All SZGR 2.0 genes in this pathway
NATSUME RESPONSE TO INTERFERON BETA UP 7149All SZGR 2.0 genes in this pathway
JACKSON DNMT1 TARGETS UP 7757All SZGR 2.0 genes in this pathway
CUI TCF21 TARGETS 2 UP 428266All SZGR 2.0 genes in this pathway
TSENG IRS1 TARGETS UP 11371All SZGR 2.0 genes in this pathway
BAELDE DIABETIC NEPHROPATHY DN 434302All SZGR 2.0 genes in this pathway
BILD HRAS ONCOGENIC SIGNATURE 261166All SZGR 2.0 genes in this pathway
DOUGLAS BMI1 TARGETS UP 566371All SZGR 2.0 genes in this pathway
MONNIER POSTRADIATION TUMOR ESCAPE DN 373196All SZGR 2.0 genes in this pathway
HILLION HMGA1B TARGETS 9268All SZGR 2.0 genes in this pathway
WANG LSD1 TARGETS UP 2414All SZGR 2.0 genes in this pathway
JEPSEN SMRT TARGETS 3323All SZGR 2.0 genes in this pathway
STEARMAN LUNG CANCER EARLY VS LATE UP 12589All SZGR 2.0 genes in this pathway
MARTINEZ RB1 TARGETS DN 543317All SZGR 2.0 genes in this pathway
MARTINEZ TP53 TARGETS UP 602364All SZGR 2.0 genes in this pathway
MARTINEZ RB1 AND TP53 TARGETS UP 601369All SZGR 2.0 genes in this pathway
RIGGI EWING SARCOMA PROGENITOR UP 430288All SZGR 2.0 genes in this pathway
MISHRA CARCINOMA ASSOCIATED FIBROBLAST UP 2414All SZGR 2.0 genes in this pathway
IZADPANAH STEM CELL ADIPOSE VS BONE UP 12692All SZGR 2.0 genes in this pathway
LABBE TGFB1 TARGETS UP 10264All SZGR 2.0 genes in this pathway
LU TUMOR ANGIOGENESIS UP 2522All SZGR 2.0 genes in this pathway
VART KSHV INFECTION ANGIOGENIC MARKERS UP 165118All SZGR 2.0 genes in this pathway
PIONTEK PKD1 TARGETS DN 1812All SZGR 2.0 genes in this pathway
LINDSTEDT DENDRITIC CELL MATURATION B 5336All SZGR 2.0 genes in this pathway
MIZUKAMI HYPOXIA UP 1212All SZGR 2.0 genes in this pathway
ZHANG TLX TARGETS 36HR UP 221150All SZGR 2.0 genes in this pathway
ZHANG TLX TARGETS 60HR UP 293203All SZGR 2.0 genes in this pathway
ZHANG TLX TARGETS UP 10878All SZGR 2.0 genes in this pathway
POOLA INVASIVE BREAST CANCER DN 13483All SZGR 2.0 genes in this pathway
BOYAULT LIVER CANCER SUBCLASS G1 UP 11370All SZGR 2.0 genes in this pathway
COULOUARN TEMPORAL TGFB1 SIGNATURE UP 10968All SZGR 2.0 genes in this pathway
WOO LIVER CANCER RECURRENCE UP 10575All SZGR 2.0 genes in this pathway
CAIRO HEPATOBLASTOMA UP 207143All SZGR 2.0 genes in this pathway
WONG ADULT TISSUE STEM MODULE 721492All SZGR 2.0 genes in this pathway
WHITFIELD CELL CYCLE M G1 14895All SZGR 2.0 genes in this pathway
LI INDUCED T TO NATURAL KILLER UP 307182All SZGR 2.0 genes in this pathway
VERHAAK GLIOBLASTOMA CLASSICAL 162122All SZGR 2.0 genes in this pathway
WANG RESPONSE TO GSK3 INHIBITOR SB216763 DN 374217All SZGR 2.0 genes in this pathway
HOELZEL NF1 TARGETS UP 13993All SZGR 2.0 genes in this pathway
KANG AR TARGETS UP 1710All SZGR 2.0 genes in this pathway
JOHNSTONE PARVB TARGETS 1 DN 6339All SZGR 2.0 genes in this pathway
JOHNSTONE PARVB TARGETS 2 DN 336211All SZGR 2.0 genes in this pathway
LEE BMP2 TARGETS UP 745475All SZGR 2.0 genes in this pathway
WINZEN DEGRADED VIA KHSRP 10070All SZGR 2.0 genes in this pathway
GOBERT OLIGODENDROCYTE DIFFERENTIATION DN 1080713All SZGR 2.0 genes in this pathway
PLASARI TGFB1 TARGETS 10HR UP 199143All SZGR 2.0 genes in this pathway
LIM MAMMARY STEM CELL UP 489314All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 2ND EGF PULSE ONLY 1725838All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 1ST EGF PULSE ONLY 1839928All SZGR 2.0 genes in this pathway
NABA SECRETED FACTORS 344197All SZGR 2.0 genes in this pathway
NABA MATRISOME ASSOCIATED 753411All SZGR 2.0 genes in this pathway
NABA MATRISOME 1028559All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA familyTarget positionmiRNA IDmiRNA seq
UTR startUTR endMatch method
miR-1/2064854m8hsa-miR-1UGGAAUGUAAAGAAGUAUGUA
hsa-miR-206SZUGGAAUGUAAGGAAGUGUGUGG
hsa-miR-613AGGAAUGUUCCUUCUUUGCC
miR-221/2221881941Ahsa-miR-221brainAGCUACAUUGUCUGCUGGGUUUC
hsa-miR-222brainAGCUACAUCUGGCUACUGGGUCUC