Gene Page:GNE

Summary?
GeneID 10020
Symbol GNE
Synonyms DMRV|GLCNE|IBM2|NM|Uae1
Description glucosamine (UDP-N-acetyl)-2-epimerase/N-acetylmannosamine kinase
Reference MIM:603824|HGNC:HGNC:23657|Ensembl:ENSG00000159921|HPRD:04825|Vega:OTTHUMG00000019899
Gene type protein-coding
Map location 9p13.3
Pascal p-value 0.012
Sherlock p-value 0.382
DEG p-value DEG: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 beta 1.034
DMG 1 (# studies)
eGene Putamen basal ganglia

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:GWASdb Genome-wide Association Studies GWASdb records for schizophrenia
CV:PGCnp Genome-wide Association Study GWAS
DEG:Sanders_2013 Microarray Whole-genome gene expression profiles using microarrays on lymphoblastoid cell lines (LCLs) from 413 cases and 446 controls.
DMG:Jaffe_2016 Genome-wide DNA methylation analysis This dataset includes 2,104 probes/CpGs associated with SZ patients (n=108) compared to 136 controls at Bonferroni-adjusted P < 0.05. 1
PMID:cooccur High-throughput literature-search 系统搜索PubMed基因有限公司-occurring with SCZ keywords. A total of 3027 genes were included.
Literature High-throughput literature-search Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenias Click to show details

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

Probe Chromosome Position Nearest gene P (dis) Beta (dis) FDR (dis) Study
cg21177599 9 36258839 GNE 6.34E-8 -0.006 1.57E-5 DMG:Jaffe_2016

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs10117275 9 36265159 GNE ENSG00000159921.10 5.3515E-6 0.04 11894 gtex_brain_putamen_basal
rs7863247 9 36273828 GNE ENSG00000159921.10 5.34717E-6 0.04 3225 gtex_brain_putamen_basal
rs7875447 9 36276857 GNE ENSG00000159921.10 5.26712E-6 0.04 196 gtex_brain_putamen_basal
rs2182817 9 36280788 GNE ENSG00000159921.10 5.16938E-6 0.04 -3735 gtex_brain_putamen_basal
rs4879975 9 36286706 GNE ENSG00000159921.10 4.99855E-6 0.04 -9653 gtex_brain_putamen_basal
rs7045725 9 36293918 GNE ENSG00000159921.10 4.19781E-6 0.04 -16865 gtex_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
Gene Pearson's Correlation Spearman's Correlation
TMEM87A 0.74 0.75
DIS3L 0.72 0.69
TMCO3 0.72 0.71
ANUBL1 0.70 0.72
RPS6KC1 0.70 0.69
GALC 0.70 0.70
ANKIB1 0.70 0.73
ZNF621 0.69 0.73
ACSL1 0.69 0.76
PIGM 0.68 0.72
Top 10 negatively co-expressed genes
Gene Pearson'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 name Pathway size # SZGR 2.0 genes in pathway Info
KEGG AMINO SUGAR AND NUCLEOTIDE SUGAR METABOLISM 44 30 All SZGR 2.0 genes in this pathway
DAVICIONI MOLECULAR ARMS VS ERMS UP 332 228 All SZGR 2.0 genes in this pathway
GARGALOVIC RESPONSE TO OXIDIZED PHOSPHOLIPIDS GREEN UP 23 19 All SZGR 2.0 genes in this pathway
SENESE HDAC3 TARGETS DN 536 332 All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA UP 1821 933 All SZGR 2.0 genes in this pathway
ENK UV RESPONSE KERATINOCYTE DN 485 334 All SZGR 2.0 genes in this pathway
SCHLOSSER SERUM RESPONSE DN 712 443 All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 DN 855 609 All SZGR 2.0 genes in this pathway
UEDA PERIFERAL CLOCK 169 111 All SZGR 2.0 genes in this pathway
FRASOR RESPONSE TO ESTRADIOL DN 82 52 All SZGR 2.0 genes in this pathway
GENTILE UV RESPONSE CLUSTER D4 55 37 All SZGR 2.0 genes in this pathway
LU AGING BRAIN UP 262 186 All SZGR 2.0 genes in this pathway
GENTILE UV HIGH DOSE DN 312 203 All SZGR 2.0 genes in this pathway
DAZARD RESPONSE TO UV NHEK DN 318 220 All SZGR 2.0 genes in this pathway
BAELDE DIABETIC NEPHROPATHY DN 434 302 All SZGR 2.0 genes in this pathway
DAZARD UV RESPONSE CLUSTER G6 153 112 All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 6HR UP 953 554 All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 24HR UP 783 442 All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 3 720 440 All SZGR 2.0 genes in this pathway
BONOME OVARIAN CANCER SURVIVAL SUBOPTIMAL DEBULKING 510 309 All SZGR 2.0 genes in this pathway
QI PLASMACYTOMA DN 100 63 All SZGR 2.0 genes in this pathway
CROMER TUMORIGENESIS DN 51 29 All SZGR 2.0 genes in this pathway
SWEET LUNG CANCER KRAS UP 491 316 All SZGR 2.0 genes in this pathway
CHEN METABOLIC SYNDROM NETWORK 1210 725 All SZGR 2.0 genes in this pathway
CHIANG LIVER CANCER SUBCLASS PROLIFERATION DN 179 97 All SZGR 2.0 genes in this pathway
YAGI AML WITH T 8 21 TRANSLOCATION 368 247 All SZGR 2.0 genes in this pathway
CAIRO HEPATOBLASTOMA DN 267 160 All SZGR 2.0 genes in this pathway
GABRIELY MIR21 TARGETS 289 187 All SZGR 2.0 genes in this pathway
GUO TARGETS OF IRS1 AND IRS2 98 67 All SZGR 2.0 genes in this pathway
ACEVEDO FGFR1 TARGETS IN PROSTATE CANCER MODEL UP 289 184 All SZGR 2.0 genes in this pathway
LIM MAMMARY LUMINAL PROGENITOR UP 58 30 All SZGR 2.0 genes in this pathway