Gene Page: GRAMD1B

Summary ?
GeneID57476
SymbolGRAMD1B
Synonyms-
DescriptionGRAM domain containing 1B
ReferenceHGNC:HGNC:29214|Ensembl:ENSG00000023171|Vega:OTTHUMG00000166004
Gene typeprotein-coding
Map location11q24.1
Pascal p-value0.006
Fetal beta0.661
DMG1 (# studies)
SupportCompositeSet
Darnell FMRP targets

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:GWAScatGenome-wide Association StudiesThis data set includes 560 SNPs associated with schizophrenia. A total of 486 genes were mapped to these SNPs within 50kb.
CV:PGC128Genome-wide Association StudyA 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:PGCnpGenome-wide Association StudyGWAS
DMG:Wockner_2014Genome-wide DNA methylation analysisThis 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 IDChromosomePositionAllelePFunctionGeneUp/Down Distance
rs77502336chr11123394636CG2.008E-9intergenicMIR4493,GRAMD1Bdist=142416;dist=1708

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg1073424611123478349GRAMD1B1.179E-40.4910.029DMG: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
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
VASH20.960.88
FAM117B0.960.89
KDM5B0.950.89
ZKSCAN20.950.88
PBRM10.950.89
DCX0.950.92
CEP1700.940.89
PRRC10.940.87
BRD30.940.89
MBTD10.940.87
Top 10 negatively co-expressed genes
GenePearson'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 namePathway size# SZGR 2.0 genes in pathwayInfo
PEREZ TP53 TARGETS 1174695All SZGR 2.0 genes in this pathway
SCHLOSSER SERUM RESPONSE UP 13493All SZGR 2.0 genes in this pathway
AMIT EGF RESPONSE 480 HELA 164118All SZGR 2.0 genes in this pathway
KAAB HEART ATRIUM VS VENTRICLE DN 261183All SZGR 2.0 genes in this pathway
GRADE COLON VS RECTAL CANCER DN 5636All SZGR 2.0 genes in this pathway
BOYLAN MULTIPLE MYELOMA C D DN 252155All SZGR 2.0 genes in this pathway
VALK AML CLUSTER 15 3119All SZGR 2.0 genes in this pathway
MARSON FOXP3 TARGETS DN 5438All SZGR 2.0 genes in this pathway
LI INDUCED T TO NATURAL KILLER UP 307182All SZGR 2.0 genes in this pathway
JOHNSTONE PARVB TARGETS 2 UP 14094All SZGR 2.0 genes in this pathway
FORTSCHEGGER PHF8 TARGETS UP 279155All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 1ST EGF PULSE ONLY 1839928All SZGR 2.0 genes in this pathway