Gene Page:PDGFRA

Summary?
GeneID 5156
Symbol PDGFRA
Synonyms CD140A|GAS9|PDGFR-2|PDGFR2|RHEPDGFRA
Description platelet derived growth factor receptor alpha
Reference MIM:173490|HGNC:HGNC:8803|Ensembl:ENSG00000134853|HPRD:01429|Vega:OTTHUMG00000128699
Gene type protein-coding
Map location 4q12
Pascal p-value 0.007
Sherlock p-value 0.666
Fetal beta -0.927
DMG 1 (# studies)

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:GWASdb Genome-wide Association Studies GWASdb records for schizophrenia
CV:PGCnp Genome-wide Association Study GWAS
CV:PheWAS Phenome-wide association studies (PheWAS) 157 SNPs associated with schizophrenia 1
DMG:Jaffe_2016 Genome-wide DNA methylation analysis This dataset includes 2,104 probes/CpGs associated with SZ patients (n=108) compared to 136 controls at Bonferroni-adjusted P < 0.05. 1

Section I. Genetics and epigenetics annotation

@CV:PheWAS

SNP ID Chromosome Position Allele P Function Gene Up/Down Distance
rs7677751 4 0 null 1.611 PDGFRA null

@Differentially methylated gene

Probe Chromosome Position Nearest gene P (dis) Beta (dis) FDR (dis) Study
cg05340395 4 54930748 PDGFRA 7.5E-11 -0.017 4.34E-7 DMG:Jaffe_2016


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
Gene Pearson's Correlation Spearman's Correlation
KLHDC3 0.87 0.86
SCG5 0.86 0.84
SLC25A4 0.85 0.86
PGK1 0.84 0.85
TMEM111 0.84 0.82
FLOT1 0.84 0.81
ACTR1B 0.83 0.86
TRUB2 0.82 0.77
SH3GLB2 0.82 0.81
FOXRED1 0.82 0.77
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
AF347015.18 -0.52 -0.34
AC010300.1 -0.47 -0.49
NSBP1 -0.44 -0.42
AL139819.3 -0.43 -0.36
AF347015.26 -0.43 -0.25
C10orf108 -0.43 -0.40
AC100783.1 -0.42 -0.35
MT-ATP8 -0.41 -0.22
AF347015.8 -0.40 -0.24
AF347015.21 -0.40 -0.20

Section IV. Protein-protein interaction annotation

Interactors Aliases B Official full name B Experimental Source PubMed ID
CAV1 CAV | MSTP085 | VIP21 caveolin 1, caveolae protein, 22kDa Affinity Capture-Western
Co-fractionation
Reconstituted Complex		 BioGRID 10066366
CAV3 LGMD1C | LQT9 | MGC126100 | MGC126101 | MGC126129 | VIP-21 | VIP21 caveolin 3 Reconstituted Complex BioGRID 10066366
CBL C-CBL | CBL2 | RNF55 Cas-Br-M (murine) ecotropic retroviral transforming sequence Affinity Capture-Western
Reconstituted Complex		 BioGRID 9234717
CRK CRKII v-crk sarcoma virus CT10 oncogene homolog (avian) - HPRD,BioGRID 9546424|10733900
CRKL - v-crk sarcoma virus CT10 oncogene homolog (avian)-like - HPRD,BioGRID 9546424
GRB14 - growth factor receptor-bound protein 14 - HPRD 8647858
GRB2 ASH | EGFRBP-GRB2 | Grb3-3 | MST084 | MSTP084 growth factor receptor-bound protein 2 Affinity Capture-Western BioGRID 8943348
ITGAV CD51 | DKFZp686A08142 | MSK8 | VNRA integrin, alpha V (vitronectin receptor, alpha polypeptide, antigen CD51) - HPRD 11953315
ITGB3 CD61 | GP3A | GPIIIa integrin, beta 3 (platelet glycoprotein IIIa, antigen CD61) Affinity Capture-Western BioGRID 11953315
PDGFA PDGF-A | PDGF1 platelet-derived growth factor alpha polypeptide Reconstituted Complex BioGRID 2544881
PDGFB FLJ12858 | PDGF2 | SIS | SSV | c-sis platelet-derived growth factor beta polypeptide (simian sarcoma viral (v-sis) oncogene homolog) - HPRD,BioGRID 2544881
PDGFC FALLOTEIN | SCDGF platelet derived growth factor C - HPRD 11342471
PDGFC FALLOTEIN | SCDGF platelet derived growth factor C - HPRD,BioGRID 10806482|11297552
PDGFRA CD140A | MGC74795 | PDGFR2 | Rhe-PDGFRA platelet-derived growth factor receptor, alpha polypeptide Affinity Capture-Western
Biochemical Activity
Far Western		 BioGRID 7523122|7535778
|11046132
PDGFRB CD140B | JTK12 | PDGF-R-beta | PDGFR | PDGFR1 platelet-derived growth factor receptor, beta polypeptide Affinity Capture-Western
Reconstituted Complex		 BioGRID 2542288|7523122
PLCG1 PLC-II | PLC1 | PLC148 | PLCgamma1 phospholipase C, gamma 1 - HPRD,BioGRID 7535778
RAPGEF1 C3G | DKFZp781P1719 | GRF2 Rap guanine nucleotide exchange factor (GEF) 1 - HPRD 9546424
SHB RP11-3J10.8 | bA3J10.2 Src homology 2 domain containing adaptor protein B - HPRD 10837138
SLC9A3R1 EBP50 | NHERF | NHERF1 | NPHLOP2 solute carrier family 9 (sodium/hydrogen exchanger), member 3 regulator 1 - HPRD,BioGRID 11046132|11882663
SNX2 MGC5204 | TRG-9 sorting nexin 2 - HPRD,BioGRID 9819414
SNX4 - sorting nexin 4 - HPRD,BioGRID 9819414
SNX6 MGC3157 | MSTP010 | TFAF2 sorting nexin 6 - HPRD,BioGRID 11279102


Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
KEGG MAPK SIGNALING PATHWAY 267 20.5 All SZGR 2.0 genes in this pathway
KEGG CALCIUM SIGNALING PATHWAY 178 134 All SZGR 2.0 genes in this pathway
KEGG CYTOKINE CYTOKINE RECEPTOR INTERACTION 267 161 All SZGR 2.0 genes in this pathway
KEGG ENDOCYTOSIS 183 132 All SZGR 2.0 genes in this pathway
KEGG FOCAL ADHESION 20.1 138 All SZGR 2.0 genes in this pathway
KEGG GAP JUNCTION 90 68 All SZGR 2.0 genes in this pathway
KEGG REGULATION OF ACTIN CYTOSKELETON 216 144 All SZGR 2.0 genes in this pathway
KEGG PATHWAYS IN CANCER 328 259 All SZGR 2.0 genes in this pathway
KEGG GLIOMA 65 56 All SZGR 2.0 genes in this pathway
KEGG PROSTATE CANCER 89 75 All SZGR 2.0 genes in this pathway
KEGG MELANOMA 71 57 All SZGR 2.0 genes in this pathway
BIOCARTA CBL PATHWAY 13 10 All SZGR 2.0 genes in this pathway
BIOCARTA ERK PATHWAY 28 22 All SZGR 2.0 genes in this pathway
BIOCARTA PDGF PATHWAY 32 25 All SZGR 2.0 genes in this pathway
BIOCARTA EDG1 PATHWAY 27 24 All SZGR 2.0 genes in this pathway
BIOCARTA RAC1 PATHWAY 23 16 All SZGR 2.0 genes in this pathway
BIOCARTA CDC42RAC PATHWAY 16 13 All SZGR 2.0 genes in this pathway
PID ATF2 PATHWAY 59 43 All SZGR 2.0 genes in this pathway
PID PDGFRA PATHWAY 22 18 All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY PDGF 122 93 All SZGR 2.0 genes in this pathway
REACTOME DOWNSTREAM SIGNAL TRANSDUCTION 95 76 All SZGR 2.0 genes in this pathway
WEST ADRENOCORTICAL TUMOR MARKERS DN 20. 14 All SZGR 2.0 genes in this pathway
PICCALUGA ANGIOIMMUNOBLASTIC LYMPHOMA UP 20.5 140 All SZGR 2.0 genes in this pathway
SCHUETZ BREAST CANCER DUCTAL INVASIVE UP 351 230 All SZGR 2.0 genes in this pathway
LEE NEURAL CREST STEM CELL UP 146 99 All SZGR 2.0 genes in this pathway
KIM WT1 TARGETS UP 214 155 All SZGR 2.0 genes in this pathway
KIM WT1 TARGETS 12HR UP 162 116 All SZGR 2.0 genes in this pathway
MOROSETTI FACIOSCAPULOHUMERAL MUSCULAR DISTROPHY UP 20. 11 All SZGR 2.0 genes in this pathway
KOKKINAKIS METHIONINE DEPRIVATION 48HR UP 128 95 All SZGR 2.0 genes in this pathway
KOKKINAKIS METHIONINE DEPRIVATION 96HR UP 117 84 All SZGR 2.0 genes in this pathway
CHEBOTAEV GR TARGETS UP 77 62 All SZGR 2.0 genes in this pathway
MARKEY RB1 CHRONIC LOF UP 115 78 All SZGR 2.0 genes in this pathway
CONCANNON APOPTOSIS BY EPOXOMICIN DN 172 112 All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN DN 1781 1082 All SZGR 2.0 genes in this pathway
GRAESSMANN RESPONSE TO MC AND DOXORUBICIN DN 770 415 All SZGR 2.0 genes in this pathway
GAUSSMANN MLL AF4 FUSION TARGETS E UP 97 60 All SZGR 2.0 genes in this pathway
BERENJENO TRANSFORMED BY RHOA FOREVER UP 19 13 All SZGR 2.0 genes in this pathway
BERENJENO TRANSFORMED BY RHOA DN 394 258 All SZGR 2.0 genes in this pathway
JOHANSSON GLIOMAGENESIS BY PDGFB UP 58 44 All SZGR 2.0 genes in this pathway
ZIRN TRETINOIN RESPONSE WT1 UP 23 14 All SZGR 2.0 genes in this pathway
KAN RESPONSE TO ARSENIC TRIOXIDE 123 80 All SZGR 2.0 genes in this pathway
WONG ENDMETRIUM CANCER DN 82 53 All SZGR 2.0 genes in this pathway
HUMMERICH SKIN CANCER PROGRESSION DN 100 64 All SZGR 2.0 genes in this pathway
LINDGREN BLADDER CANCER CLUSTER 2B 392 251 All SZGR 2.0 genes in this pathway
HERNANDEZ MITOTIC ARREST BY DOCETAXEL 1 DN 38 23 All SZGR 2.0 genes in this pathway
HERNANDEZ ABERRANT MITOSIS BY DOCETACEL 2NM DN 25 18 All SZGR 2.0 genes in this pathway
KANG GIST WITH PDGFRA UP 50 27 All SZGR 2.0 genes in this pathway
MARTORIATI MDM4 TARGETS NEUROEPITHELIUM DN 164 111 All SZGR 2.0 genes in this pathway
MARTORIATI MDM4 TARGETS FETAL LIVER DN 514 319 All SZGR 2.0 genes in this pathway
HOWLIN PUBERTAL MAMMARY GLAND 69 40 All SZGR 2.0 genes in this pathway
LIEN BREAST CARCINOMA METAPLASTIC 35 25 All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS DN 1024 594 All SZGR 2.0 genes in this pathway
WEI MIR34A TARGETS 148 97 All SZGR 2.0 genes in this pathway
BENPORATH SUZ12 TARGETS 1038 678 All SZGR 2.0 genes in this pathway
BENPORATH EED TARGETS 1062 725 All SZGR 2.0 genes in this pathway
BENPORATH ES WITH H3K27ME3 1118 744 All SZGR 2.0 genes in this pathway
BENPORATH PRC2 TARGETS 652 441 All SZGR 2.0 genes in this pathway
TCGA GLIOBLASTOMA COPY NUMBER UP 75 36 All SZGR 2.0 genes in this pathway
DING LUNG CANCER MUTATED SIGNIFICANTLY 26 22 All SZGR 2.0 genes in this pathway
JECHLINGER EPITHELIAL TO MESENCHYMAL TRANSITION UP 71 51 All SZGR 2.0 genes in this pathway
NING CHRONIC OBSTRUCTIVE PULMONARY DISEASE DN 121 79 All SZGR 2.0 genes in this pathway
BROCKE APOPTOSIS REVERSED BY IL6 144 98 All SZGR 2.0 genes in this pathway
IIZUKA LIVER CANCER EARLY RECURRENCE 11 10 All SZGR 2.0 genes in this pathway
COLLER MYC TARGETS DN 9 5 All SZGR 2.0 genes in this pathway
AFFAR YY1 TARGETS DN 234 137 All SZGR 2.0 genes in this pathway
REN ALVEOLAR RHABDOMYOSARCOMA DN 408 274 All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 14HR DN 298 20.0 All SZGR 2.0 genes in this pathway
JIANG VHL TARGETS 138 91 All SZGR 2.0 genes in this pathway
WANG CISPLATIN RESPONSE AND XPC DN 228 146 All SZGR 2.0 genes in this pathway
ZHU CMV 24 HR DN 91 64 All SZGR 2.0 genes in this pathway
GENTILE UV RESPONSE CLUSTER D6 37 25 All SZGR 2.0 genes in this pathway
GENTILE UV HIGH DOSE DN 312 20.3 All SZGR 2.0 genes in this pathway
ZHU CMV ALL DN 128 93 All SZGR 2.0 genes in this pathway
HEDENFALK BREAST CANCER BRCA1 VS BRCA2 163 113 All SZGR 2.0 genes in this pathway
BURTON ADIPOGENESIS PEAK AT 0HR 63 48 All SZGR 2.0 genes in this pathway
DASU IL6 SIGNALING SCAR DN 16 8 All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 12HR DN 101 64 All SZGR 2.0 genes in this pathway
MAHAJAN RESPONSE TO IL1A UP 81 52 All SZGR 2.0 genes in this pathway
MASSARWEH TAMOXIFEN RESISTANCE UP 578 341 All SZGR 2.0 genes in this pathway
MCCABE BOUND BY HOXC6 469 239 All SZGR 2.0 genes in this pathway
RIGGI EWING SARCOMA PROGENITOR DN 191 123 All SZGR 2.0 genes in this pathway
MCCABE HOXC6 TARGETS DN 21 15 All SZGR 2.0 genes in this pathway
MCCABE HOXC6 TARGETS CANCER UP 31 23 All SZGR 2.0 genes in this pathway
乳腺癌萧述三腔的DN 564 326 All SZGR 2.0 genes in this pathway
SMID BREAST CANCER NORMAL LIKE UP 476 285 All SZGR 2.0 genes in this pathway
SMID BREAST CANCER BASAL UP 648 398 All SZGR 2.0 genes in this pathway
BONOME OVARIAN CANCER SURVIVAL SUBOPTIMAL DEBULKING 510 309 All SZGR 2.0 genes in this pathway
ZHENG GLIOBLASTOMA PLASTICITY UP 250 168 All SZGR 2.0 genes in this pathway
BOQUEST STEM CELL UP 260 174 All SZGR 2.0 genes in this pathway
LABBE TGFB1 TARGETS UP 102 64 All SZGR 2.0 genes in this pathway
WEST ADRENOCORTICAL TUMOR DN 546 362 All SZGR 2.0 genes in this pathway
QI PLASMACYTOMA DN 100 63 All SZGR 2.0 genes in this pathway
ALONSO METASTASIS NEURAL UP 18 13 All SZGR 2.0 genes in this pathway
WANG TUMOR INVASIVENESS DN 210 128 All SZGR 2.0 genes in this pathway
GRESHOCK CANCER COPY NUMBER UP 323 240 All SZGR 2.0 genes in this pathway
VART KSHV感染血管生成标记 165 118 All SZGR 2.0 genes in this pathway
VART KSHV INFECTION ANGIOGENIC MARKERS DN 138 92 All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS UP 1305 895 All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS DN 366 257 All SZGR 2.0 genes in this pathway
RUIZ TNC TARGETS UP 153 107 All SZGR 2.0 genes in this pathway
SWEET LUNG CANCER KRAS DN 435 289 All SZGR 2.0 genes in this pathway
MEISSNER BRAIN HCP WITH H3K4ME3 AND H3K27ME3 1069 729 All SZGR 2.0 genes in this pathway
TAVAZOIE METASTASIS 108 68 All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA CHEMOTAXIS DN 457 302 All SZGR 2.0 genes in this pathway
DING LUNG CANCER BY MUTATION RATE 20. 18 All SZGR 2.0 genes in this pathway
CAIRO LIVER DEVELOPMENT UP 166 105 All SZGR 2.0 genes in this pathway
DANG REGULATED BY MYC DN 253 192 All SZGR 2.0 genes in this pathway
KARLSSON TGFB1 TARGETS DN 20.7 139 All SZGR 2.0 genes in this pathway
HOELZEL NF1 TARGETS DN 115 73 All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE VIA TP53 GROUP B 549 316 All SZGR 2.0 genes in this pathway
KIM GLIS2 TARGETS UP 84 61 All SZGR 2.0 genes in this pathway
KATSANOU ELAVL1 TARGETS DN 148 88 All SZGR 2.0 genes in this pathway
WAKABAYASHI ADIPOGENESIS PPARG RXRA BOUND 8D 882 506 All SZGR 2.0 genes in this pathway
PLASARI TGFB1 TARGETS 10HR DN 244 157 All SZGR 2.0 genes in this pathway
PLASARI NFIC TARGETS BASAL DN 18 13 All SZGR 2.0 genes in this pathway
PLASARI TGFB1 SIGNALING VIA NFIC 1HR UP 33 25 All SZGR 2.0 genes in this pathway
PLASARI TGFB1 SIGNALING VIA NFIC 10HR DN 30 25 All SZGR 2.0 genes in this pathway
YU BAP1 TARGETS 29 21 All SZGR 2.0 genes in this pathway
DURAND STROMA S UP 297 194 All SZGR 2.0 genes in this pathway