Gene Page: CHGB
Summary ?
GeneID | 1114 |
Symbol | CHGB |
Synonyms | SCG1 |
Description | chromogranin B |
Reference | MIM:118920|HGNC:HGNC:1930|Ensembl:ENSG00000089199|HPRD:07512|Vega:OTTHUMG00000031821 |
Gene type | protein-coding |
Map location | 20p12.3 |
Pascal p-value | 0.558 |
Sherlock p-value | 0.47 |
Fetal beta | -1.661 |
eGene | Myers' cis & trans |
Gene in Data Sources
Gene set name | Method of gene set | Description | Info |
---|---|---|---|
CV:PGCnp | Genome-wide Association Study | GWAS | |
PMID:cooccur | High-throughput literature-search | Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included. | |
Association | A combined odds ratio method (Sun et al. 2008), association studies | 3 | Link to SZGene |
Literature | High-throughput literature-search | Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenic,schizophrenias | Click to show details |
Section I. Genetics and epigenetics annotation
eQTL annotation
SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
---|---|---|---|---|---|---|---|---|
rs3747518 | chr2 | 163128724 | CHGB | 1114 | 0.17 | trans |
Section II. Transcriptome annotation
General gene expression (GTEx)

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 |
TRIM33 | 0.94 | 0.93 |
IREB2 | 0.94 | 0.96 |
RSBN1 | 0.93 | 0.95 |
MED13 | 0.93 | 0.95 |
ZNF148 | 0.93 | 0.96 |
KIAA2022 | 0.93 | 0.96 |
AFF4 | 0.93 | 0.95 |
SLC38A1 | 0.93 | 0.96 |
EPM2AIP1 | 0.93 | 0.96 |
ZNF281 | 0.92 | 0.94 |
Top 10 negatively co-expressed genes | ||
Gene | Pearson's Correlation | Spearman's Correlation |
FXYD1 | -0.66 | -0.85 |
TSC22D4 | -0.65 | -0.77 |
AF347015.31 | -0.65 | -0.84 |
HSD17B14 | -0.65 | -0.77 |
HEPN1 | -0.65 | -0.73 |
AIFM3 | -0.64 | -0.72 |
MT-CO2 | -0.64 | -0.85 |
ROM1 | -0.64 | -0.77 |
S100B | -0.63 | -0.78 |
SERPINB6 | -0.63 | -0.71 |
Section III. Gene Ontology annotation
Molecular function | GO term | Evidence | Neuro keywords | PubMed ID |
---|---|---|---|---|
GO:0005179 | hormone activity | TAS | 3608978 | |
GO:0005515 | protein binding | IEA | - | |
Cellular component | GO term | Evidence | Neuro keywords | PubMed ID |
GO:0005576 | extracellular region | IEA | - |
Section IV. Protein-protein interaction annotation
Interactors | Aliases B | Official full name B | Experimental | Source | PubMed ID |
---|---|---|---|---|---|
ACACA | ACAC | ACC | ACC1 | ACCA | acetyl-Coenzyme A carboxylase alpha | Two-hybrid | BioGRID | 16169070 |
ATXN2 | ATX2 | FLJ46772 | SCA2 | TNRC13 | ataxin 2 | Two-hybrid | BioGRID | 16169070 |
CBFB | PEBP2B | core-binding factor, beta subunit | Two-hybrid | BioGRID | 16169070 |
CCDC92 | FLJ22471 | coiled-coil domain containing 92 | Two-hybrid | BioGRID | 16169070 |
FGFR3 | ACH | CD333 | CEK2 | HSFGFR3EX | JTK4 | fibroblast growth factor receptor 3 | Two-hybrid | BioGRID | 16169070 |
GCS1 | - | glucosidase I | Two-hybrid | BioGRID | 16169070 |
MARK3 | CTAK1 | KP78 | PAR1A | MAP/microtubule affinity-regulating kinase 3 | Two-hybrid | BioGRID | 16169070 |
MGLL | HU-K5 | MGL | monoglyceride lipase | Two-hybrid | BioGRID | 16169070 |
OGG1 | HMMH | HOGG1 | MUTM | OGH1 | 8-oxoguanine DNA glycosylase | Two-hybrid | BioGRID | 16169070 |
POLD1 | CDC2 | POLD | polymerase (DNA directed), delta 1, catalytic subunit 125kDa | Two-hybrid | BioGRID | 16169070 |
PRAGMIN | DKFZp761P0423 | homolog of rat pragma of Rnd2 | Two-hybrid | BioGRID | 16169070 |
PTEN | 10q23del | BZS | MGC11227 | MHAM | MMAC1 | PTEN1 | TEP1 | phosphatase and tensin homolog | Two-hybrid | BioGRID | 16169070 |
S100A8 | 60B8AG | CAGA | CFAG | CGLA | CP-10 | L1Ag | MA387 | MIF | MRP8 | NIF | P8 | S100 calcium binding protein A8 | Two-hybrid | BioGRID | 16169070 |
SAFB2 | KIAA0138 | scaffold attachment factor B2 | Two-hybrid | BioGRID | 16169070 |
SLC25A6 | AAC3 | ANT3 | ANT3Y | MGC17525 | solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 6 | Two-hybrid | BioGRID | 16169070 |
TAZ | BTHS | CMD3A | EFE | EFE2 | FLJ27390 | G4.5 | LVNCX | Taz1 | XAP-2 | tafazzin | Two-hybrid | BioGRID | 16169070 |
TUBB2A | TUBB | TUBB2 | dJ40E16.7 | tubulin, beta 2A | Two-hybrid | BioGRID | 16169070 |
TWF2 | A6RP | A6r | MSTP011 | PTK9L | twinfilin, actin-binding protein, homolog 2 (Drosophila) | Two-hybrid | BioGRID | 16169070 |
YLPM1 | C14orf170 | ZAP | ZAP3 | YLP motif containing 1 | Two-hybrid | BioGRID | 16169070 |
Section V. Pathway annotation
Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
---|---|---|---|
VECCHI GASTRIC CANCER EARLY DN | 367 | 220 | All SZGR 2.0 genes in this pathway |
MULLIGHAN NPM1 MUTATED SIGNATURE 1 UP | 276 | 165 | All SZGR 2.0 genes in this pathway |
MULLIGHAN NPM1 SIGNATURE 3 UP | 341 | 197 | All SZGR 2.0 genes in this pathway |
SABATES COLORECTAL ADENOMA DN | 291 | 176 | All SZGR 2.0 genes in this pathway |
PROVENZANI METASTASIS UP | 194 | 112 | All SZGR 2.0 genes in this pathway |
GAUSSMANN MLL AF4 FUSION TARGETS G UP | 238 | 135 | All SZGR 2.0 genes in this pathway |
KIM MYC AMPLIFICATION TARGETS UP | 201 | 127 | All SZGR 2.0 genes in this pathway |
RICKMAN HEAD AND NECK CANCER F | 54 | 32 | All SZGR 2.0 genes in this pathway |
KIM GERMINAL CENTER T HELPER UP | 66 | 42 | All SZGR 2.0 genes in this pathway |
RORIE TARGETS OF EWSR1 FLI1 FUSION DN | 30 | 23 | All SZGR 2.0 genes in this pathway |
LU AGING BRAIN DN | 153 | 120 | All SZGR 2.0 genes in this pathway |
KAAB HEART ATRIUM VS VENTRICLE UP | 249 | 170 | All SZGR 2.0 genes in this pathway |
LEIN NEURON MARKERS | 69 | 45 | All SZGR 2.0 genes in this pathway |
LEIN LOCALIZED TO PROXIMAL DENDRITES | 37 | 26 | All SZGR 2.0 genes in this pathway |
WANG LSD1 TARGETS DN | 39 | 30 | All SZGR 2.0 genes in this pathway |
OSADA ASCL1 TARGETS UP | 46 | 30 | All SZGR 2.0 genes in this pathway |
BRUECKNER TARGETS OF MIRLET7A3 UP | 111 | 69 | All SZGR 2.0 genes in this pathway |
YOSHIMURA MAPK8 TARGETS UP | 1305 | 895 | All SZGR 2.0 genes in this pathway |
MEISSNER NPC HCP WITH H3K4ME2 | 491 | 319 | All SZGR 2.0 genes in this pathway |
MIKKELSEN MEF HCP WITH H3K27ME3 | 590 | 403 | All SZGR 2.0 genes in this pathway |
KIM ALL DISORDERS CALB1 CORR UP | 548 | 370 | All SZGR 2.0 genes in this pathway |
ROESSLER LIVER CANCER METASTASIS UP | 107 | 72 | All SZGR 2.0 genes in this pathway |
Section VI. microRNA annotation
miRNA family | Target position | miRNA ID | miRNA seq | ||
---|---|---|---|---|---|
UTR start | UTR end | Match method | |||
miR-544 | 94 | 100 | 1A | hsa-miR-544 | AUUCUGCAUUUUUAGCAAGU |
- SZ: miRNAs which differentially expressed in brain cortex of schizophrenia patients comparing with control samples using microarray. Click here to see the list of SZ related miRNAs.
- Brain: miRNAs which are expressed in brain based on miRNA microarray expression studies. Click here to see the list of brain related miRNAs.