Gene Page: FTCD

Summary ?
GeneID10841
SymbolFTCD
SynonymsLCHC1
Descriptionformimidoyltransferase cyclodeaminase
ReferenceMIM:606806|HGNC:HGNC:3974|Ensembl:ENSG00000160282|HPRD:08430|Vega:OTTHUMG00000090488
Gene typeprotein-coding
Map location21q22.3
Pascal p-value0.028
Sherlock p-value0.198
Fetal beta-0.403
eGeneCaudate basal ganglia
Cerebellar Hemisphere
Cerebellum
Cortex
Frontal Cortex BA9
Hippocampus
Nucleus accumbens basal ganglia
Putamen basal ganglia
Meta

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
PMID:cooccurHigh-throughput literature-searchSystematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
LiteratureHigh-throughput literature-searchCo-occurance with Schizophrenia keywords: schizophrenia,schizophrenic,schizophrenics,schizophreniasClick to show details
GO_AnnotationMapping neuro-related keywords to Gene Ontology annotationsHits with neuro-related keywords: 1 

Section I. Genetics and epigenetics annotation

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs72818162147578569FTCDENSG00000160282.99.694E-70.01-3088gtex_brain_putamen_basal
rs731447112147579051FTCDENSG00000160282.93.674E-70.01-3570gtex_brain_putamen_basal
rs561630442147579752FTCDENSG00000160282.93.43E-70.01-4271gtex_brain_putamen_basal
rs557205152147579901FTCDENSG00000160282.93.459E-70.01-4420gtex_brain_putamen_basal
rs72826972147580415FTCDENSG00000160282.93.454E-70.01-4934gtex_brain_putamen_basal
rs556440412147580532FTCDENSG00000160282.97.075E-70.01-5051gtex_brain_putamen_basal
rs562831082147580575FTCDENSG00000160282.93.962E-70.01-5094gtex_brain_putamen_basal
rs563102972147580600FTCDENSG00000160282.95.268E-70.01-5119gtex_brain_putamen_basal
rs756608022147581074FTCDENSG00000160282.92.494E-70.01-5593gtex_brain_putamen_basal
rs1138354212147581693FTCDENSG00000160282.94.155E-70.01-6212gtex_brain_putamen_basal
rs588611272147588735FTCDENSG00000160282.91.487E-70.01-13254gtex_brain_putamen_basal
rs81344292147600157FTCDENSG00000160282.91.603E-70.01-24676gtex_brain_putamen_basal
rs790440442147603849FTCDENSG00000160282.91.906E-60.01-28368gtex_brain_putamen_basal
rs731447442147611285FTCDENSG00000160282.92.696E-70.01-35804gtex_brain_putamen_basal
rs96472432147740415FTCDENSG00000160282.93.447E-70.01-164934gtex_brain_putamen_basal

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
PRKACA0.910.90
ENO20.910.92
CLSTN30.910.92
ABCG40.900.88
ATP6AP10.900.93
SV2A0.890.90
AP2A10.890.90
DCTN10.890.90
PLBD20.880.87
ATP1A30.880.88
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
AF347015.21-0.54-0.48
GNG11-0.50-0.51
AP002478.3-0.49-0.50
AF347015.31-0.48-0.43
AF347015.2-0.48-0.37
AF347015.8-0.47-0.42
AF347015.18-0.47-0.42
MT-CO2-0.47-0.43
C1orf54-0.46-0.48
NOSTRIN-0.46-0.42

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0030409glutamate formimidoyltransferase activityIEAglutamate (GO term level: 9)-
GO:0005542folic acid bindingIEA-
GO:0016829lyase activityIEA-
GO:0016740transferase activityIEA-
GO:0030412formimidoyltetrahydrofolate cyclodeaminase activityIEA-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0006760folic acid and derivative metabolic processTAS10029623 
GO:0006547histidine metabolic processIEA-
GO:0044237cellular metabolic processIEA-
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0005794Golgi apparatusIEA-
GO:0005737cytoplasmTAS10029623 

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG HISTIDINE METABOLISM 2919All SZGR 2.0 genes in this pathway
KEGG ONE CARBON POOL BY FOLATE 1712All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF AMINO ACIDS AND DERIVATIVES 200136All SZGR 2.0 genes in this pathway
KOYAMA SEMA3B TARGETS UP 292168All SZGR 2.0 genes in this pathway
NIKOLSKY BREAST CANCER 21Q22 AMPLICON 1611All SZGR 2.0 genes in this pathway
CERVERA SDHB TARGETS 1 DN 3822All SZGR 2.0 genes in this pathway
HEDENFALK BREAST CANCER BRACX DN 2014All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS UP 317208All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS SILENCED BY METHYLATION UP 461298All SZGR 2.0 genes in this pathway
ACEVEDO LIVER CANCER DN 540340All SZGR 2.0 genes in this pathway
ACEVEDO LIVER TUMOR VS NORMAL ADJACENT TISSUE DN 274165All SZGR 2.0 genes in this pathway
GRADE METASTASIS DN 4531All SZGR 2.0 genes in this pathway
CHIANG LIVER CANCER SUBCLASS UNANNOTATED UP 8550All SZGR 2.0 genes in this pathway
CERIBELLI PROMOTERS INACTIVE AND BOUND BY NFY 4420All SZGR 2.0 genes in this pathway
SERVITJA LIVER HNF1A TARGETS DN 157105All SZGR 2.0 genes in this pathway