Gene Page: GNE

Summary ?
GeneID10020
SymbolGNE
SynonymsDMRV|GLCNE|IBM2|NM|Uae1
Descriptionglucosamine (UDP-N-acetyl)-2-epimerase/N-acetylmannosamine kinase
ReferenceMIM:603824|HGNC:HGNC:23657|Ensembl:ENSG00000159921|HPRD:04825|Vega:OTTHUMG00000019899
Gene typeprotein-coding
Map location9p13.3
Pascal p-value0.012
Sherlock p-value0.382
DEG p-valueDEG:Sanders_2014:DS1_p=-0.143:DS1_beta=0.048700:DS2_p=5.77e-01:DS2_beta=0.028:DS2_FDR=7.80e-01
Fetal beta1.034
DMG1 (# studies)
eGenePutamen basal ganglia

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:GWASdbGenome-wide Association StudiesGWASdb records for schizophrenia
CV:PGCnpGenome-wide Association StudyGWAS
DEG:Sanders_2013MicroarrayWhole-genome gene expression profiles using microarrays on lymphoblastoid cell lines (LCLs) from 413 cases and 446 controls.
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
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,schizophreniasClick to show details

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg21177599936258839GNE6.34E-8-0.0061.57E-5DMG:Jaffe_2016

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs10117275936265159GNEENSG00000159921.105.3515E-60.0411894gtex_brain_putamen_basal
rs7863247936273828GNEENSG00000159921.105.34717E-60.043225gtex_brain_putamen_basal
rs7875447936276857GNEENSG00000159921.105.26712E-60.04196gtex_brain_putamen_basal
rs2182817936280788GNEENSG00000159921.105.16938E-60.04-3735gtex_brain_putamen_basal
rs4879975936286706GNEENSG00000159921.104.99855E-60.04-9653gtex_brain_putamen_basal
rs7045725936293918GNEENSG00000159921.104.19781E-60.04-16865gtex_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
TMEM87A0.740.75
DIS3L0.720.69
TMCO30.720.71
ANUBL10.700.72
RPS6KC10.700.69
GALC0.700.70
ANKIB10.700.73
ZNF6210.690.73
ACSL10.690.76
PIGM0.680.72
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
AF347015.21-0.53-0.53
CXCL14-0.50-0.50
MT-CO2-0.49-0.50
AF347015.31-0.48-0.49
IFI27-0.47-0.46
AF347015.8-0.45-0.46
CLEC2B-0.45-0.44
AP000679.1-0.44-0.47
HIGD1B-0.44-0.44
MT-CYB-0.44-0.44

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG AMINO SUGAR AND NUCLEOTIDE SUGAR METABOLISM 4430All SZGR 2.0 genes in this pathway
DAVICIONI MOLECULAR ARMS VS ERMS UP 332228All SZGR 2.0 genes in this pathway
GARGALOVIC RESPONSE TO OXIDIZED PHOSPHOLIPIDS GREEN UP 2319All SZGR 2.0 genes in this pathway
SENESE HDAC3 TARGETS DN 536332All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA UP 1821933All SZGR 2.0 genes in this pathway
ENK UV RESPONSE KERATINOCYTE DN 485334All SZGR 2.0 genes in this pathway
SCHLOSSER SERUM RESPONSE DN 712443All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 DN 855609All SZGR 2.0 genes in this pathway
UEDA PERIFERAL CLOCK 169111All SZGR 2.0 genes in this pathway
FRASOR RESPONSE TO ESTRADIOL DN 8252All SZGR 2.0 genes in this pathway
GENTILE UV RESPONSE CLUSTER D4 5537All SZGR 2.0 genes in this pathway
LU AGING BRAIN UP 262186All SZGR 2.0 genes in this pathway
GENTILE UV HIGH DOSE DN 312203All SZGR 2.0 genes in this pathway
DAZARD RESPONSE TO UV NHEK DN 318220All SZGR 2.0 genes in this pathway
BAELDE DIABETIC NEPHROPATHY DN 434302All SZGR 2.0 genes in this pathway
DAZARD UV RESPONSE CLUSTER G6 153112All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 6HR UP 953554All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 24HR UP 783442All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 3 720440All SZGR 2.0 genes in this pathway
BONOME OVARIAN CANCER SURVIVAL SUBOPTIMAL DEBULKING 510309All SZGR 2.0 genes in this pathway
QI PLASMACYTOMA DN 10063All SZGR 2.0 genes in this pathway
CROMER TUMORIGENESIS DN 5129All SZGR 2.0 genes in this pathway
SWEET LUNG CANCER KRAS UP 491316All SZGR 2.0 genes in this pathway
CHEN METABOLIC SYNDROM NETWORK 1210725All SZGR 2.0 genes in this pathway
CHIANG LIVER CANCER SUBCLASS PROLIFERATION DN 17997All SZGR 2.0 genes in this pathway
YAGI AML WITH T 8 21 TRANSLOCATION 368247All SZGR 2.0 genes in this pathway
CAIRO HEPATOBLASTOMA DN 267160All SZGR 2.0 genes in this pathway
GABRIELY MIR21 TARGETS 289187All SZGR 2.0 genes in this pathway
GUO TARGETS OF IRS1 AND IRS2 9867All SZGR 2.0 genes in this pathway
ACEVEDO FGFR1 TARGETS IN PROSTATE CANCER MODEL UP 289184All SZGR 2.0 genes in this pathway
LIM MAMMARY LUMINAL PROGENITOR UP 5830All SZGR 2.0 genes in this pathway