Gene Page: CSF3R
Summary ?
| GeneID | 1441 |
| Symbol | CSF3R |
| Synonyms | CD114|GCSFR |
| Description | colony stimulating factor 3 receptor |
| Reference | MIM:138971|HGNC:HGNC:2439|Ensembl:ENSG00000119535|HPRD:00737|Vega:OTTHUMG00000008010 |
| Gene type | protein-coding |
| Map location | 1p35-p34.3 |
| Pascal p-value | 0.394 |
| Sherlock p-value | 0.219 |
| Fetal beta | -0.496 |
| eGene | Myers' cis & trans |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| CV:PGCnp | Genome-wide Association Study | GWAS | |
| DNM:Gulsuner_2013 | Whole Exome Sequencing analysis | 155 DNMs identified by exome sequencing of quads or trios of schizophrenia individuals and their parents. |
Section I. Genetics and epigenetics annotation
DNM table
| Gene | Chromosome | Position | Ref | Alt | Transcript | AA change | Mutation type | Sift | CG46 | Trait | Study |
|---|---|---|---|---|---|---|---|---|---|---|---|
| CSF3R | chr1 | 36941250 | C | G | NM_000760 NM_156039 NM_172313 | p.30S>T p.30S>T p.30S>T | missense missense missense | Schizophrenia | DNM:Gulsuner_2013 |
eQTL annotation
| SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
|---|---|---|---|---|---|---|---|---|
| rs6596945 | chr6 | 3071912 | CSF3R | 1441 | 0.15 | 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 |
| WDR48 | 0.96 | 0.96 |
| VEZT | 0.96 | 0.96 |
| POLR2B | 0.96 | 0.94 |
| HMG20A | 0.96 | 0.96 |
| CSDE1 | 0.95 | 0.95 |
| WDR3 | 0.95 | 0.95 |
| PTP4A1 | 0.95 | 0.96 |
| MATR3 | 0.95 | 0.96 |
| CNOT8 | 0.95 | 0.95 |
| NCBP1 | 0.95 | 0.95 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| MT-CO2 | -0.77 | -0.89 |
| FXYD1 | -0.76 | -0.89 |
| AF347015.31 | -0.75 | -0.87 |
| AF347015.33 | -0.75 | -0.86 |
| MT-CYB | -0.74 | -0.85 |
| IFI27 | -0.73 | -0.85 |
| AF347015.27 | -0.73 | -0.84 |
| AF347015.8 | -0.73 | -0.87 |
| HIGD1B | -0.72 | -0.86 |
| AIFM3 | -0.72 | -0.78 |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| KEGG CYTOKINE CYTOKINE RECEPTOR INTERACTION | 267 | 161 | All SZGR 2.0 genes in this pathway |
| KEGG JAK STAT SIGNALING PATHWAY | 155 | 105 | All SZGR 2.0 genes in this pathway |
| KEGG HEMATOPOIETIC CELL LINEAGE | 88 | 60 | All SZGR 2.0 genes in this pathway |
| KEGG PATHWAYS IN CANCER | 328 | 259 | All SZGR 2.0 genes in this pathway |
| FULCHER INFLAMMATORY RESPONSE LECTIN VS LPS DN | 463 | 290 | All SZGR 2.0 genes in this pathway |
| GOZGIT ESR1 TARGETS UP | 149 | 84 | All SZGR 2.0 genes in this pathway |
| DUNNE TARGETS OF AML1 MTG8 FUSION UP | 52 | 32 | All SZGR 2.0 genes in this pathway |
| KLEIN TARGETS OF BCR ABL1 FUSION | 45 | 34 | All SZGR 2.0 genes in this pathway |
| LOPEZ MBD TARGETS | 957 | 597 | All SZGR 2.0 genes in this pathway |
| BYSTRYKH HEMATOPOIESIS STEM CELL RUNX1 | 9 | 6 | All SZGR 2.0 genes in this pathway |
| MAGRANGEAS MULTIPLE MYELOMA IGG VS IGA DN | 26 | 16 | All SZGR 2.0 genes in this pathway |
| YAO HOXA10 TARGETS VIA PROGESTERONE UP | 79 | 58 | All SZGR 2.0 genes in this pathway |
| THEILGAARD NEUTROPHIL AT SKIN WOUND DN | 225 | 163 | All SZGR 2.0 genes in this pathway |
| VERHAAK AML WITH NPM1 MUTATED DN | 246 | 180 | All SZGR 2.0 genes in this pathway |
| RIZKI TUMOR INVASIVENESS 2D UP | 69 | 46 | All SZGR 2.0 genes in this pathway |
| SMID BREAST CANCER BASAL DN | 701 | 446 | All SZGR 2.0 genes in this pathway |
| VILIMAS NOTCH1 TARGETS DN | 20 | 12 | All SZGR 2.0 genes in this pathway |
| MARTINELLI IMMATURE NEUTROPHIL DN | 13 | 9 | All SZGR 2.0 genes in this pathway |
| CHEN METABOLIC SYNDROM NETWORK | 1210 | 725 | 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 |
| KYNG WERNER SYNDROM AND NORMAL AGING DN | 225 | 124 | All SZGR 2.0 genes in this pathway |
| HO LIVER CANCER VASCULAR INVASION | 13 | 6 | All SZGR 2.0 genes in this pathway |
| WANG RESPONSE TO GSK3 INHIBITOR SB216763 UP | 397 | 206 | All SZGR 2.0 genes in this pathway |
| PILON KLF1 TARGETS DN | 1972 | 1213 | All SZGR 2.0 genes in this pathway |
| PEDRIOLI MIR31 TARGETS DN | 418 | 245 | All SZGR 2.0 genes in this pathway |
| ROESSLER LIVER CANCER METASTASIS UP | 107 | 72 | All SZGR 2.0 genes in this pathway |
| ALTEMEIER RESPONSE TO LPS WITH MECHANICAL VENTILATION | 128 | 81 | All SZGR 2.0 genes in this pathway |