Gene Page: LEFTY1

Summary ?
GeneID10637
SymbolLEFTY1
SynonymsLEFTB|LEFTYB
Descriptionleft-right determination factor 1
ReferenceMIM:603037|HGNC:HGNC:6552|Ensembl:ENSG00000243709|HPRD:09116|Vega:OTTHUMG00000037443
Gene typeprotein-coding
Map location1q42.1
Sherlock p-value0.826
Fetal beta-0.316
DMG1 (# studies)
eGeneMyers' cis & trans
Meta

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
DMG:Jaffe_2016Genome-wide DNA methylation analysisThis 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

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg024774581226112258LEFTY18.32E-90.0063.93E-6DMG:Jaffe_2016

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs360063chr1226036308LEFTY1106370.03cis
rs10158985chr1226050608LEFTY1106370.16cis
rs2493163chr1226131690LEFTY1106370.02cis
rs11583675chr181400829LEFTY1106370.14trans

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
ZNF518B0.960.96
ZNF6440.960.97
ZNF6060.960.96
ZNF5640.960.95
ZNF840.960.97
OXSR10.960.95
AP001011.30.960.96
ZNF7760.950.95
ZNF6140.950.94
ZNF354C0.950.96
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
FXYD1-0.74-0.89
HLA-F-0.73-0.79
MT-CO2-0.73-0.88
AF347015.31-0.72-0.87
AF347015.27-0.72-0.85
IFI27-0.72-0.87
AIFM3-0.72-0.78
AF347015.33-0.71-0.85
TSC22D4-0.71-0.80
S100B-0.71-0.82

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG TGF BETA SIGNALING PATHWAY 8664All SZGR 2.0 genes in this pathway
REACTOME DEVELOPMENTAL BIOLOGY 396292All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY NODAL 1811All SZGR 2.0 genes in this pathway
BENPORATH ES 1 379235All SZGR 2.0 genes in this pathway
BENPORATH NANOG TARGETS 988594All SZGR 2.0 genes in this pathway
BENPORATH SOX2 TARGETS 734436All SZGR 2.0 genes in this pathway
TESAR ALK TARGETS HUMAN ES 5D DN 75All SZGR 2.0 genes in this pathway
BYSTRYKH HEMATOPOIESIS STEM CELL QTL TRANS 882572All SZGR 2.0 genes in this pathway
BHATTACHARYA EMBRYONIC STEM CELL 8960All SZGR 2.0 genes in this pathway
SU PANCREAS 5430All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS LATE PROGENITOR 544307All SZGR 2.0 genes in this pathway
STEIN ESRRA TARGETS UP 388234All SZGR 2.0 genes in this pathway
HOFFMANN SMALL PRE BII TO IMMATURE B LYMPHOCYTE UP 7049All SZGR 2.0 genes in this pathway
HOFMANN MYELODYSPLASTIC SYNDROM LOW RISK UP 2215All SZGR 2.0 genes in this pathway
MIKKELSEN MCV6 ICP WITH H3K27ME3 7446All SZGR 2.0 genes in this pathway
MIKKELSEN MEF ICP WITH H3K27ME3 206108All SZGR 2.0 genes in this pathway
STEIN ESRRA TARGETS 535325All SZGR 2.0 genes in this pathway
MIKKELSEN ES ICP WITH H3K4ME3 AND H3K27ME3 13785All SZGR 2.0 genes in this pathway
VANLOO SP3 TARGETS DN 8947All SZGR 2.0 genes in this pathway
KOHOUTEK CCNT2 TARGETS 5835All SZGR 2.0 genes in this pathway
DELACROIX RAR BOUND ES 462273All SZGR 2.0 genes in this pathway
RAO BOUND BY SALL4 ISOFORM B 517302All SZGR 2.0 genes in this pathway
NABA SECRETED FACTORS 344197All SZGR 2.0 genes in this pathway
NABA MATRISOME ASSOCIATED 753411All SZGR 2.0 genes in this pathway
NABA MATRISOME 1028559All SZGR 2.0 genes in this pathway