Gene Page: FDPS

Summary ?
GeneID2224
SymbolFDPS
SynonymsFPPS|FPS|POROK9
Descriptionfarnesyl diphosphate synthase
ReferenceMIM:134629|HGNC:HGNC:3631|Ensembl:ENSG00000160752|HPRD:00606|Vega:OTTHUMG00000013909
Gene typeprotein-coding
Map location1q22
Sherlock p-value0.154
DEG p-valueDEG:Zhao_2015:p=5.79e-04:q=0.0926
Fetal beta0.639
DMG1 (# studies)
eGeneMyers' cis & trans

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
DEG:Zhao_2015RNA Sequencing analysisTranscriptome sequencing and genome-wide association analyses reveal lysosomal function and actin cytoskeleton remodeling in schizophrenia and bipolar disorder.
DMG:Nishioka_2013Genome-wide DNA methylation analysisThe authors investigated the methylation profiles of DNA in peripheral blood cells from 18 patients with first-episode schizophrenia (FESZ) and from 15 normal controls. 1
PMID:cooccurHigh-throughput literature-searchSystematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
GSMA_IGenome scan meta-analysisPsr: 0.0235 
GSMA_IIAGenome scan meta-analysis (All samples)Psr: 0.00814 
LiteratureHigh-throughput literature-searchCo-occurance with Schizophrenia keywords: schizophrenia,schizophreniasClick to show details

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg154707501155278344FDPS-0.020.55DMG:Nishioka_2013

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs2809658chr143050395FDPS22240.11trans

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
TFAP2C0.930.60
LRIG30.890.54
JUB0.870.58
TNFRSF190.870.65
LTBP10.860.71
COL4A60.860.63
SOX30.850.50
VIM0.850.72
DMRTA20.850.58
ITGA20.850.55
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
C5orf53-0.33-0.43
RAMP3-0.32-0.29
AF347015.27-0.32-0.51
MT-CO2-0.31-0.52
AF347015.31-0.31-0.49
AF347015.33-0.31-0.49
IFI27-0.31-0.49
SLC9A3R2-0.30-0.21
MT-CYB-0.30-0.46
HLA-F-0.30-0.35

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0004161dimethylallyltranstransferase activityIEA-
GO:0004337geranyltranstransferase activityIEA-
GO:0016740transferase activityIEA-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0006695cholesterol biosynthetic processTAS2690933 
GO:0008299isoprenoid biosynthetic processIEA-
GO:0044419interspecies interaction between organismsIEA-
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0005737cytoplasmIEA-

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG TERPENOID BACKBONE BIOSYNTHESIS 1510All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF LIPIDS AND LIPOPROTEINS 478302All SZGR 2.0 genes in this pathway
REACTOME CHOLESTEROL BIOSYNTHESIS 2416All SZGR 2.0 genes in this pathway
PARENT MTOR SIGNALING UP 567375All SZGR 2.0 genes in this pathway
WILCOX RESPONSE TO PROGESTERONE UP 15290All SZGR 2.0 genes in this pathway
CASORELLI ACUTE PROMYELOCYTIC LEUKEMIA DN 663425All SZGR 2.0 genes in this pathway
DIAZ CHRONIC MEYLOGENOUS LEUKEMIA UP 1382904All SZGR 2.0 genes in this pathway
HORIUCHI WTAP TARGETS DN 310188All SZGR 2.0 genes in this pathway
TIEN INTESTINE PROBIOTICS 24HR UP 557331All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN DN 17811082All SZGR 2.0 genes in this pathway
PATIL LIVER CANCER 747453All SZGR 2.0 genes in this pathway
SPIELMAN LYMPHOBLAST EUROPEAN VS ASIAN UP 479299All SZGR 2.0 genes in this pathway
PUJANA BRCA1 PCC NETWORK 16521023All SZGR 2.0 genes in this pathway
PUJANA CHEK2 PCC NETWORK 779480All SZGR 2.0 genes in this pathway
BENPORATH NANOG TARGETS 988594All SZGR 2.0 genes in this pathway
STARK PREFRONTAL CORTEX 22Q11 DELETION DN 517309All SZGR 2.0 genes in this pathway
NIKOLSKY BREAST CANCER 1Q21 AMPLICON 3818All SZGR 2.0 genes in this pathway
LE EGR2 TARGETS DN 10884All SZGR 2.0 genes in this pathway
IIZUKA LIVER CANCER PROGRESSION G1 G2 DN 2518All SZGR 2.0 genes in this pathway
PENG LEUCINE DEPRIVATION DN 187122All SZGR 2.0 genes in this pathway
UEDA PERIFERAL CLOCK 169111All SZGR 2.0 genes in this pathway
TARTE PLASMA CELL VS PLASMABLAST DN 309206All SZGR 2.0 genes in this pathway
SMITH LIVER CANCER 4527All SZGR 2.0 genes in this pathway
YU MYC TARGETS UP 4226All SZGR 2.0 genes in this pathway
AFFAR YY1 TARGETS DN 234137All SZGR 2.0 genes in this pathway
BURTON ADIPOGENESIS 10 3017All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS LATE PROGENITOR 544307All SZGR 2.0 genes in this pathway
SESTO RESPONSE TO UV C6 3927All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 24HR DN 148102All SZGR 2.0 genes in this pathway
MODY HIPPOCAMPUS NEONATAL 3525All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP 16911088All SZGR 2.0 genes in this pathway
WENG POR TARGETS GLOBAL UP 2014All SZGR 2.0 genes in this pathway
WANG CISPLATIN RESPONSE AND XPC UP 202115All SZGR 2.0 genes in this pathway
WENG POR TARGETS LIVER UP 4129All SZGR 2.0 genes in this pathway
JI RESPONSE TO FSH UP 7456All SZGR 2.0 genes in this pathway
ZHONG SECRETOME OF LUNG CANCER AND MACROPHAGE 7750All SZGR 2.0 genes in this pathway
ZHANG GATA6 TARGETS DN 6446All SZGR 2.0 genes in this pathway
WEST ADRENOCORTICAL TUMOR UP 294199All SZGR 2.0 genes in this pathway
YAUCH HEDGEHOG SIGNALING PARACRINE DN 264159All SZGR 2.0 genes in this pathway
CHAUHAN RESPONSE TO METHOXYESTRADIOL DN 10265All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS DN 366257All SZGR 2.0 genes in this pathway
CHANG CORE SERUM RESPONSE DN 209137All SZGR 2.0 genes in this pathway
COULOUARN TEMPORAL TGFB1 SIGNATURE DN 13899All SZGR 2.0 genes in this pathway
CAIRO HEPATOBLASTOMA UP 207143All SZGR 2.0 genes in this pathway
WONG EMBRYONIC STEM CELL CORE 335193All SZGR 2.0 genes in this pathway
YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 4 1511All SZGR 2.0 genes in this pathway
KIM ALL DISORDERS OLIGODENDROCYTE NUMBER CORR UP 756494All SZGR 2.0 genes in this pathway
KIM BIPOLAR DISORDER OLIGODENDROCYTE DENSITY CORR UP 682440All SZGR 2.0 genes in this pathway
SCHMIDT POR TARGETS IN LIMB BUD UP 2621All SZGR 2.0 genes in this pathway
GUO TARGETS OF IRS1 AND IRS2 9867All SZGR 2.0 genes in this pathway
HUANG GATA2 TARGETS DN 7252All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 1ST EGF PULSE ONLY 1839928All SZGR 2.0 genes in this pathway
HORTON SREBF TARGETS 2520All SZGR 2.0 genes in this pathway