Gene Page: SPTLC1

Summary ?
GeneID10558
SymbolSPTLC1
SynonymsHSAN1|HSN1|LBC1|LCB1|SPT1|SPTI
Descriptionserine palmitoyltransferase long chain base subunit 1
ReferenceMIM:605712|HGNC:HGNC:11277|Ensembl:ENSG00000090054|HPRD:05754|Vega:OTTHUMG00000021047
Gene typeprotein-coding
Map location9q22.2
Pascal p-value0.003
Sherlock p-value0.274
Fetal beta-0.83

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:GWAScatGenome-wide Association StudiesThis data set includes 560 SNPs associated with schizophrenia. A total of 486 genes were mapped to these SNPs within 50kb.
CV:GWASdbGenome-wide Association StudiesGWASdb records for schizophrenia
CV:PGCnpGenome-wide Association StudyGWAS

Section I. Genetics and epigenetics annotation


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
PRDM80.940.95
FAM59A0.930.88
AFF30.930.90
RCAN10.920.79
USP6NL0.920.80
SLC35F20.920.80
DAB10.920.87
SOX50.910.87
DAP0.910.65
OSBPL100.910.83
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
SERPINB6-0.60-0.74
AC007405.8-0.55-0.71
HEPN1-0.53-0.70
BDH2-0.53-0.78
HSD17B14-0.53-0.77
HDDC2-0.53-0.53
AP003117.1-0.52-0.57
FAH-0.52-0.71
TNFSF12-0.52-0.46
RAMP1-0.52-0.73

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG SPHINGOLIPID METABOLISM 4026All SZGR 2.0 genes in this pathway
REACTOME SPHINGOLIPID DE NOVO BIOSYNTHESIS 3118All SZGR 2.0 genes in this pathway
REACTOME PHOSPHOLIPID METABOLISM 198112All SZGR 2.0 genes in this pathway
REACTOME SPHINGOLIPID METABOLISM 6940All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF LIPIDS AND LIPOPROTEINS 478302All SZGR 2.0 genes in this pathway
DIAZ CHRONIC MEYLOGENOUS LEUKEMIA UP 1382904All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY SERUM DEPRIVATION UP 552347All SZGR 2.0 genes in this pathway
SEIDEN ONCOGENESIS BY MET 8853All SZGR 2.0 genes in this pathway
LINDGREN BLADDER CANCER WITH LOH IN CHR9Q 11671All SZGR 2.0 genes in this pathway
SCHLOSSER SERUM RESPONSE DN 712443All SZGR 2.0 genes in this pathway
SPIELMAN LYMPHOBLAST EUROPEAN VS ASIAN DN 584395All SZGR 2.0 genes in this pathway
NUYTTEN NIPP1 TARGETS UP 769437All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS UP 1037673All SZGR 2.0 genes in this pathway
RICKMAN TUMOR DIFFERENTIATED WELL VS POORLY DN 382224All SZGR 2.0 genes in this pathway
RICKMAN TUMOR DIFFERENTIATED WELL VS MODERATELY DN 11064All SZGR 2.0 genes in this pathway
SHEN SMARCA2 TARGETS UP 424268All SZGR 2.0 genes in this pathway
THEILGAARD NEUTROPHIL AT SKIN WOUND DN 225163All SZGR 2.0 genes in this pathway
DOUGLAS BMI1 TARGETS UP 566371All SZGR 2.0 genes in this pathway
BONCI TARGETS OF MIR15A AND MIR16 1 9175All SZGR 2.0 genes in this pathway
WEST ADRENOCORTICAL TUMOR UP 294199All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA CHEMOTAXIS DN 457302All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA HAPTOTAXIS DN 668419All SZGR 2.0 genes in this pathway
YAGI AML WITH INV 16 TRANSLOCATION 422277All SZGR 2.0 genes in this pathway
LU EZH2 TARGETS DN 414237All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE VIA TP53 GROUP B 549316All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE LATE 1137655All SZGR 2.0 genes in this pathway
YANG BCL3 TARGETS UP 364236All SZGR 2.0 genes in this pathway