Gene Page: LCAT

Summary ?
GeneID3931
SymbolLCAT
Synonyms-
Descriptionlecithin-cholesterol acyltransferase
ReferenceMIM:606967|HGNC:HGNC:6522|Ensembl:ENSG00000213398|HPRD:06098|Vega:OTTHUMG00000137551
Gene typeprotein-coding
Map location16q22.1
Pascal p-value1.199E-4
eGeneMyers' cis & trans

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS

Section I. Genetics and epigenetics annotation

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
snp_a-19197940LCAT39310.08trans
rs6546475chr269275427LCAT39310.1trans
rs12104712chr282644947LCAT39311.684E-4trans
rs7584986chr2184111432LCAT39310.01trans
rs1285074chr3172096819LCAT39310.07trans
rs1523326chr3172106276LCAT39310.07trans
snp_a-19762280LCAT39310.08trans
rs10491487chr580323367LCAT39319.258E-4trans
rs1368303chr5147672388LCAT39317.74E-6trans
rs4897051chr6149118925LCAT39310.13trans
rs9364293chr6169199078LCAT39310.02trans
rs9654996chr730271955LCAT39310.07trans
rs4872540chr822598980LCAT39310.02trans
rs6989594chr8126303866LCAT39310.02trans
rs13293929chr9107247254LCAT39310.16trans
rs10985440chr9124664643LCAT39310.18trans
rs12359579chr1087511020LCAT39310.13trans
rs17104720chr1477127308LCAT39310.02trans
rs16955618chr1529937543LCAT39310trans
snp_a-18308940LCAT39315.709E-6trans
rs3786474chr1855135672LCAT39310.13trans
rs3786464chr1855138931LCAT39310.03trans
rs17070739chr1860819382LCAT39310.02trans
rs17085767chr1869839397LCAT39312.706E-6trans
rs16966891chr1932809523LCAT39310.18trans

Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

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
RILP0.790.84
HSPB20.780.83
ACOT130.760.80
GCAT0.750.79
DCXR0.750.78
BLVRB0.730.77
ABHD110.730.65
ANKRD90.730.76
TMEM1410.720.84
C19orf460.720.61
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
MLL5-0.59-0.69
SUV420H1-0.59-0.72
ZNF711-0.59-0.69
SETD2-0.58-0.71
GRIP1-0.58-0.69
NOL4-0.58-0.67
THOC2-0.58-0.73
PHF3-0.58-0.71
ZBTB8A-0.58-0.67
VAV2-0.58-0.70

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG GLYCEROPHOSPHOLIPID METABOLISM 7735All SZGR 2.0 genes in this pathway
REACTOME HDL MEDIATED LIPID TRANSPORT 1512All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF LIPIDS AND LIPOPROTEINS 478302All SZGR 2.0 genes in this pathway
REACTOME LIPID DIGESTION MOBILIZATION AND TRANSPORT 4637All SZGR 2.0 genes in this pathway
REACTOME LIPOPROTEIN METABOLISM 2824All SZGR 2.0 genes in this pathway
LIU PROSTATE CANCER DN 481290All SZGR 2.0 genes in this pathway
BORCZUK MALIGNANT MESOTHELIOMA DN 10459All SZGR 2.0 genes in this pathway
LINDGREN BLADDER CANCER CLUSTER 3 DN 229142All SZGR 2.0 genes in this pathway
TANG SENESCENCE TP53 TARGETS UP 3320All SZGR 2.0 genes in this pathway
HU ANGIOGENESIS UP 2116All SZGR 2.0 genes in this pathway
SHIPP DLBCL CURED VS FATAL DN 4530All SZGR 2.0 genes in this pathway
KANNAN TP53 TARGETS UP 5840All SZGR 2.0 genes in this pathway
HSIAO LIVER SPECIFIC GENES 244154All SZGR 2.0 genes in this pathway
WEIGEL OXIDATIVE STRESS RESPONSE 3528All SZGR 2.0 genes in this pathway
WANG CISPLATIN RESPONSE AND XPC DN 228146All SZGR 2.0 genes in this pathway
LEE AGING NEOCORTEX UP 8959All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS STEM CELL AND PROGENITOR 681420All SZGR 2.0 genes in this pathway
LEE LIVER CANCER 4929All 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
MOOTHA MITOCHONDRIA 447277All SZGR 2.0 genes in this pathway
HOSHIDA LIVER CANCER LATE RECURRENCE DN 6948All SZGR 2.0 genes in this pathway
HOSHIDA LIVER CANCER SUBCLASS S3 266180All SZGR 2.0 genes in this pathway
CAIRO HEPATOBLASTOMA DN 267160All SZGR 2.0 genes in this pathway
CAIRO LIVER DEVELOPMENT DN 222141All SZGR 2.0 genes in this pathway
CHYLA CBFA2T3 TARGETS DN 242146All SZGR 2.0 genes in this pathway
LIM MAMMARY STEM CELL UP 489314All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 1ST EGF PULSE ONLY 1839928All SZGR 2.0 genes in this pathway