Gene Page: SCRG1
Summary ?
| GeneID | 11341 |
| Symbol | SCRG1 |
| Synonyms | SCRG-1 |
| Description | stimulator of chondrogenesis 1 |
| Reference | MIM:603163|HGNC:HGNC:17036|HPRD:11932| |
| Gene type | protein-coding |
| Map location | 4q34.1 |
| Pascal p-value | 0.125 |
| Sherlock p-value | 0.895 |
| Fetal beta | -2.592 |
| eGene | Anterior cingulate cortex BA24 Caudate basal ganglia Cerebellum Cortex Frontal Cortex BA9 Hippocampus Nucleus accumbens basal ganglia Putamen basal ganglia Myers' cis & trans Meta |
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. | |
| Literature | High-throughput literature-search | Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenias | Click to show details |
| GO_Annotation | Mapping neuro-related keywords to Gene Ontology annotations | Hits with neuro-related keywords: 1 |
Section I. Genetics and epigenetics annotation
eQTL annotation
| SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
|---|---|---|---|---|---|---|---|---|
| rs2086477 | chr4 | 174347474 | SCRG1 | 11341 | 0.05 | cis | ||
| rs57194400 | 4 | 174313967 | SCRG1 | ENSG00000164106.3 | 1.305E-6 | 0 | 13564 | gtex_brain_ba24 |
| rs56372412 | 4 | 174314076 | SCRG1 | ENSG00000164106.3 | 9.941E-7 | 0 | 13455 | gtex_brain_ba24 |
| rs17259430 | 4 | 174314494 | SCRG1 | ENSG00000164106.3 | 1.452E-6 | 0 | 13037 | gtex_brain_ba24 |
| rs398083774 | 4 | 174314855 | SCRG1 | ENSG00000164106.3 | 1.286E-6 | 0 | 12676 | gtex_brain_ba24 |
| rs2086476 | 4 | 174315768 | SCRG1 | ENSG00000164106.3 | 2.122E-6 | 0 | 11763 | gtex_brain_ba24 |
| rs576586586 | 4 | 174315810 | SCRG1 | ENSG00000164106.3 | 1.307E-7 | 0 | 11721 | gtex_brain_ba24 |
| rs2101092 | 4 | 174315913 | SCRG1 | ENSG00000164106.3 | 1.249E-6 | 0 | 11618 | gtex_brain_ba24 |
| rs35746517 | 4 | 174316173 | SCRG1 | ENSG00000164106.3 | 1.293E-6 | 0 | 11358 | gtex_brain_ba24 |
| rs34803696 | 4 | 174318104 | SCRG1 | ENSG00000164106.3 | 5.9E-8 | 0 | 9427 | gtex_brain_ba24 |
| rs4696069 | 4 | 174323055 | SCRG1 | ENSG00000164106.3 | 1.453E-8 | 0 | 4476 | gtex_brain_ba24 |
| rs17325472 | 4 | 174323131 | SCRG1 | ENSG00000164106.3 | 9.52E-8 | 0 | 4400 | gtex_brain_ba24 |
| rs13148735 | 4 | 174323228 | SCRG1 | ENSG00000164106.3 | 4.043E-7 | 0 | 4303 | gtex_brain_ba24 |
| rs6827729 | 4 | 174323259 | SCRG1 | ENSG00000164106.3 | 5.197E-7 | 0 | 4272 | gtex_brain_ba24 |
| rs17259664 | 4 | 174324624 | SCRG1 | ENSG00000164106.3 | 3.014E-7 | 0 | 2907 | gtex_brain_ba24 |
| rs4696071 | 4 | 174325726 | SCRG1 | ENSG00000164106.3 | 2.726E-8 | 0 | 1805 | gtex_brain_ba24 |
| rs4696072 | 4 | 174326283 | SCRG1 | ENSG00000164106.3 | 3.077E-8 | 0 | 1248 | gtex_brain_ba24 |
| rs7655786 | 4 | 174327618 | SCRG1 | ENSG00000164106.3 | 3.589E-8 | 0 | -87 | gtex_brain_ba24 |
| rs1992466 | 4 | 174330663 | SCRG1 | ENSG00000164106.3 | 3.638E-9 | 0 | -3132 | gtex_brain_ba24 |
| rs9996723 | 4 | 174331387 | SCRG1 | ENSG00000164106.3 | 3.68E-9 | 0 | -3856 | gtex_brain_ba24 |
| rs4695836 | 4 | 174331821 | SCRG1 | ENSG00000164106.3 | 3.705E-9 | 0 | -4290 | gtex_brain_ba24 |
| rs13128793 | 4 | 174332612 | SCRG1 | ENSG00000164106.3 | 5.607E-8 | 0 | -5081 | gtex_brain_ba24 |
| rs397763068 | 4 | 174332966 | SCRG1 | ENSG00000164106.3 | 2.171E-7 | 0 | -5435 | gtex_brain_ba24 |
| rs7436467 | 4 | 174334864 | SCRG1 | ENSG00000164106.3 | 5.607E-8 | 0 | -7333 | gtex_brain_ba24 |
| rs7656222 | 4 | 174335738 | SCRG1 | ENSG00000164106.3 | 5.696E-8 | 0 | -8207 | gtex_brain_ba24 |
| rs6846432 | 4 | 174339165 | SCRG1 | ENSG00000164106.3 | 9.006E-7 | 0 | -11634 | gtex_brain_ba24 |
| rs7658420 | 4 | 174345788 | SCRG1 | ENSG00000164106.3 | 1.244E-6 | 0 | -18257 | gtex_brain_ba24 |
| rs1481121 | 4 | 174348397 | SCRG1 | ENSG00000164106.3 | 1.196E-6 | 0 | -20866 | gtex_brain_ba24 |
| rs7655786 | 4 | 174327618 | SCRG1 | ENSG00000164106.3 | 1.122E-6 | 0.01 | -87 | gtex_brain_putamen_basal |
| rs1992466 | 4 | 174330663 | SCRG1 | ENSG00000164106.3 | 2.786E-6 | 0.01 | -3132 | gtex_brain_putamen_basal |
| rs9996723 | 4 | 174331387 | SCRG1 | ENSG00000164106.3 | 2.803E-6 | 0.01 | -3856 | gtex_brain_putamen_basal |
| rs4695836 | 4 | 174331821 | SCRG1 | ENSG00000164106.3 | 2.803E-6 | 0.01 | -4290 | gtex_brain_putamen_basal |
| rs6846432 | 4 | 174339165 | SCRG1 | ENSG00000164106.3 | 4.73E-6 | 0.01 | -11634 | gtex_brain_putamen_basal |
| rs13121541 | 4 | 174344196 | SCRG1 | ENSG00000164106.3 | 5.883E-7 | 0.01 | -16665 | gtex_brain_putamen_basal |
| rs201411208 | 4 | 174344816 | SCRG1 | ENSG00000164106.3 | 1.069E-6 | 0.01 | -17285 | gtex_brain_putamen_basal |
| rs7658420 | 4 | 174345788 | SCRG1 | ENSG00000164106.3 | 4.733E-6 | 0.01 | -18257 | gtex_brain_putamen_basal |
| rs1481121 | 4 | 174348397 | SCRG1 | ENSG00000164106.3 | 4.735E-6 | 0.01 | -20866 | gtex_brain_putamen_basal |
| rs4146857 | 4 | 174349920 | SCRG1 | ENSG00000164106.3 | 7.791E-7 | 0.01 | -22389 | gtex_brain_putamen_basal |
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.
No co-expressed genes in brain regions
Section III. Gene Ontology annotation
| Biological process | GO term | Evidence | Neuro keywords | PubMed ID |
|---|---|---|---|---|
| GO:0007399 | nervous system development | TAS | neurite (GO term level: 5) | 9660755 |
| Cellular component | GO term | Evidence | Neuro keywords | PubMed ID |
| GO:0005576 | extracellular region | IEA | - | |
| GO:0005615 | extracellular space | TAS | 9660755 |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| LIU PROSTATE CANCER DN | 481 | 290 | All SZGR 2.0 genes in this pathway |
| DEURIG T CELL PROLYMPHOCYTIC LEUKEMIA UP | 368 | 234 | All SZGR 2.0 genes in this pathway |
| DOANE BREAST CANCER ESR1 DN | 48 | 28 | All SZGR 2.0 genes in this pathway |
| LEE NEURAL CREST STEM CELL UP | 146 | 99 | All SZGR 2.0 genes in this pathway |
| CHEBOTAEV GR TARGETS UP | 77 | 62 | All SZGR 2.0 genes in this pathway |
| GAUSSMANN MLL AF4 FUSION TARGETS A UP | 191 | 128 | All SZGR 2.0 genes in this pathway |
| COLIN PILOCYTIC ASTROCYTOMA VS GLIOBLASTOMA UP | 35 | 32 | All SZGR 2.0 genes in this pathway |
| MOREAUX MULTIPLE MYELOMA BY TACI UP | 412 | 249 | All SZGR 2.0 genes in this pathway |
| BLALOCK ALZHEIMERS DISEASE DN | 1237 | 837 | All SZGR 2.0 genes in this pathway |
| XU GH1 AUTOCRINE TARGETS UP | 268 | 157 | All SZGR 2.0 genes in this pathway |
| IWANAGA CARCINOGENESIS BY KRAS UP | 170 | 107 | All SZGR 2.0 genes in this pathway |
| RIGGI EWING SARCOMA PROGENITOR DN | 191 | 123 | All SZGR 2.0 genes in this pathway |
| ACEVEDO METHYLATED IN LIVER CANCER DN | 940 | 425 | All SZGR 2.0 genes in this pathway |
| SMID BREAST CANCER RELAPSE IN BRAIN UP | 39 | 20 | All SZGR 2.0 genes in this pathway |
| SMID BREAST CANCER RELAPSE IN BONE DN | 315 | 197 | All SZGR 2.0 genes in this pathway |
| SMID BREAST CANCER LUMINAL B DN | 564 | 326 | All SZGR 2.0 genes in this pathway |
| SMID BREAST CANCER BASAL UP | 648 | 398 | All SZGR 2.0 genes in this pathway |
| BOQUEST STEM CELL CULTURED VS FRESH UP | 425 | 298 | All SZGR 2.0 genes in this pathway |
| BHATI G2M ARREST BY 2METHOXYESTRADIOL DN | 127 | 75 | All SZGR 2.0 genes in this pathway |
| YAUCH HEDGEHOG SIGNALING PARACRINE DN | 264 | 159 | All SZGR 2.0 genes in this pathway |
| WU SILENCED BY METHYLATION IN BLADDER CANCER | 55 | 42 | All SZGR 2.0 genes in this pathway |
| MIKKELSEN NPC ICP WITH H3K4ME3 | 445 | 257 | All SZGR 2.0 genes in this pathway |
| NIELSEN GIST VS SYNOVIAL SARCOMA DN | 20 | 17 | All SZGR 2.0 genes in this pathway |