Gene Page:GRAMD1B

Summary?
GeneID 57476
Symbol GRAMD1B
Synonyms -
Description GRAM domain containing 1B
Reference HGNC:HGNC:29214|Ensembl:ENSG00000023171|Vega:OTTHUMG00000166004
Gene type protein-coding
Map location 11q24.1
Pascal p-value 0.006
Fetal beta 0.661
DMG 1 (# studies)
Support CompositeSet
Darnell FMRP targets

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:GWAScat Genome-wide Association Studies This data set includes 560 SNPs associated with schizophrenia. A total of 486 genes were mapped to these SNPs within 50kb.
CV:PGC128 Genome-wide Association Study A multi-stage schizophrenia GWAS of up to 36,989 cases and 113,075 controls. Reported by the Schizophrenia Working Group of PGC. 128 independent associations spanning 108 loci
CV:PGCnp Genome-wide Association Study GWAS
DMG:Wockner_2014 Genome-wide DNA methylation analysis This dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). 1

Section I. Genetics and epigenetics annotation

@CV:PGC128

SNP ID Chromosome Position Allele P Function Gene Up/Down Distance
rs77502336 chr11 123394636 CG 2.008E-9 intergenic MIR4493,GRAMD1B dist=142416;dist=1708

@Differentially methylated gene

Probe Chromosome Position Nearest gene P (dis) Beta (dis) FDR (dis) Study
cg10734246 11 123478349 GRAMD1B 1.179E-4 0.491 0.029 DMG:Wockner_2014


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
死神:胎儿(13 - 26 postconception周),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
VASH2 0.96 0.88
FAM117B 0.96 0.89
KDM5B 0.95 0.89
ZKSCAN2 0.95 0.88
PBRM1 0.95 0.89
DCX 0.95 0.92
CEP170 0.94 0.89
PRRC1 0.94 0.87
BRD3 0.94 0.89
MBTD1 0.94 0.87
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
LHPP -0.67 -0.66
C5orf53 -0.67 -0.79
FBXO2 -0.67 -0.71
HLA-F -0.67 -0.82
ALDOC -0.66 -0.76
AIFM3 -0.66 -0.80
PTH1R -0.65 -0.76
TNFSF12 -0.65 -0.72
SLC16A11 -0.65 -0.69
LDHD -0.65 -0.72

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
PEREZ TP53 TARGETS 1174 695 All SZGR 2.0 genes in this pathway
SCHLOSSER SERUM RESPONSE UP 134 93 All SZGR 2.0 genes in this pathway
AMIT EGF RESPONSE 480 HELA 164 118 All SZGR 2.0 genes in this pathway
KAAB HEART ATRIUM VS VENTRICLE DN 261 183 All SZGR 2.0 genes in this pathway
GRADE COLON VS RECTAL CANCER DN 56 36 All SZGR 2.0 genes in this pathway
BOYLAN MULTIPLE MYELOMA C D DN 252 155 All SZGR 2.0 genes in this pathway
VALK AML CLUSTER 15 31 19 All SZGR 2.0 genes in this pathway
MARSON FOXP3 TARGETS DN 54 38 All SZGR 2.0 genes in this pathway
LI INDUCED T TO NATURAL KILLER UP 307 182 All SZGR 2.0 genes in this pathway
JOHNSTONE PARVB TARGETS 2 UP 140 94 All SZGR 2.0 genes in this pathway
FORTSCHEGGER PHF8 TARGETS UP 279 155 All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 1ST EGF PULSE ONLY 1839 928 All SZGR 2.0 genes in this pathway