Gene Page:SLC11A1
Summary?
| GeneID | 6556 |
| Symbol | SLC11A1 |
| Synonyms | LSH|NRAMP|NRAMP1 |
| Description | solute carrier family 11 member 1 |
| Reference | MIM:600266|HGNC:HGNC:10907|Ensembl:ENSG00000018280|HPRD:02601|Vega:OTTHUMG00000086747 |
| Gene type | protein-coding |
| Map location | 2q35 |
| Pascal p-value | 0.77 |
| Fetal beta | -0.344 |
| eGene | Myers' cis & trans |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| CV:GWASdb | Genome-wide Association Studies | GWASdb records for schizophrenia | |
| GSMA_IIE | Genome scan meta-analysis (European-ancestry samples) | Psr: 0.01016 | |
| GSMA_IIA | Genome scan meta-analysis (All samples) | Psr: 0.00916 |
Section I. Genetics and epigenetics annotation
eQTL annotation
eQTL annotation| SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
|---|---|---|---|---|---|---|---|---|
| rs10994209 | chr10 | 61877705 | SLC11A1 | 6556 | 0.14 | 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 |
| USP7 | 0.86 | 0.89 |
| EHBP1 | 0.84 | 0.86 |
| CLIP1 | 0.84 | 0.87 |
| MYT1L | 0.84 | 0.89 |
| ZMYND11 | 0.84 | 0.86 |
| SPTAN1 | 0.83 | 0.86 |
| PRDM2 | 0.83 | 0.88 |
| AC020663.1 | 0.83 | 0.84 |
| NOL4 | 0.83 | 0.87 |
| MIA3 | 0.82 | 0.86 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| FXYD1 | -0.70 | -0.72 |
| ENHO | -0.70 | -0.80 |
| HIGD1B | -0.70 | -0.76 |
| AF347015.31 | -0.69 | -0.72 |
| MT-CO2 | -0.69 | -0.72 |
| METRN | -0.68 | -0.77 |
| C1orf54 | -0.67 | -0.79 |
| IFI27 | -0.67 | -0.70 |
| AC021016.1 | -0.67 | -0.72 |
| AF347015.21 | -0.67 | -0.71 |
Section III. Gene Ontology annotation
| Molecular function | 去term | Evidence | Neuro keywords | PubMed ID |
|---|---|---|---|---|
| 去:0005506 | iron ion binding | IEA | - | |
| 去:0005215 | transporter activity | IEA | - | |
| 去:0005215 | transporter activity | TAS | 8537108 | |
| Biological process | 去term | Evidence | Neuro keywords | PubMed ID |
| 去:0009617 | response to bacterium | TAS | 7717395 | |
| 去:0006826 | iron ion transport | IEA | - | |
| 去:0006811 | ion transport | IEA | - | |
| 去:0006810 | transport | IEA | - | |
| 去:0006955 | immune response | NAS | 10967134 | |
| Cellular component | 去term | Evidence | Neuro keywords | PubMed ID |
| 去:0005575 | cellular_component | ND | - | |
| 去:0005624 | membrane fraction | TAS | 8537108 | |
| 去:0016020 | membrane | IEA | - | |
| 去:0005887 | integral to plasma membrane | TAS | 8537108 |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| KEGG LYSOSOME | 121 | 83 | All SZGR 2.0 genes in this pathway |
| PID MYC REPRESS PATHWAY | 63 | 52 | All SZGR 2.0 genes in this pathway |
| REACTOME LATENT INFECTION OF HOMO SAPIENS WITH MYCOBACTERIUM TUBERCULOSIS | 33 | 15 | All SZGR 2.0 genes in this pathway |
| REACTOME TRANSMEMBRANE TRANSPORT OF SMALL MOLECULES | 413 | 270 | All SZGR 2.0 genes in this pathway |
| REACTOME SLC MEDIATED TRANSMEMBRANE TRANSPORT | 241 | 157 | All SZGR 2.0 genes in this pathway |
| REACTOME TRANSPORT OF GLUCOSE AND OTHER SUGARS BILE SALTS AND ORGANIC ACIDS METAL IONS AND AMINE COMPOUNDS | 89 | 54 | All SZGR 2.0 genes in this pathway |
| REACTOME METAL ION SLC TRANSPORTERS | 22 | 13 | All SZGR 2.0 genes in this pathway |
| GAZDA DIAMOND BLACKFAN ANEMIA ERYTHROID DN | 493 | 298 | All SZGR 2.0 genes in this pathway |
| THUM SYSTOLIC HEART FAILURE UP | 423 | 283 | All SZGR 2.0 genes in this pathway |
| DEURIG T细胞PROLYMPHOCYTIC白血病 | 368 | 234 | All SZGR 2.0 genes in this pathway |
| GAL LEUKEMIC STEM CELL DN | 244 | 153 | All SZGR 2.0 genes in this pathway |
| TAKEDA TARGETS OF NUP98 HOXA9 FUSION 8D DN | 205 | 127 | All SZGR 2.0 genes in this pathway |
| SHIPP DLBCL CURED VS FATAL UP | 39 | 22 | All SZGR 2.0 genes in this pathway |
| GALINDO IMMUNE RESPONSE TO ENTEROTOXIN | 85 | 67 | All SZGR 2.0 genes in this pathway |
| NEMETH INFLAMMATORY RESPONSE LPS UP | 88 | 64 | All SZGR 2.0 genes in this pathway |
| HESS TARGETS OF HOXA9 AND MEIS1 DN | 77 | 48 | All SZGR 2.0 genes in this pathway |
| LENAOUR DENDRITIC CELL MATURATION DN | 128 | 90 | All SZGR 2.0 genes in this pathway |
| IVANOVA HEMATOPOIESIS MATURE CELL | 293 | 160 | All SZGR 2.0 genes in this pathway |
| RAMALHO STEMNESS DN | 74 | 55 | All SZGR 2.0 genes in this pathway |
| LIAN LIPA TARGETS 6M | 74 | 47 | All SZGR 2.0 genes in this pathway |
| BLALOCK ALZHEIMERS DISEASE UP | 1691 | 1088 | All SZGR 2.0 genes in this pathway |
| LIAN LIPA TARGETS 3M | 59 | 36 | All SZGR 2.0 genes in this pathway |
| LEE AGING CEREBELLUM UP | 84 | 58 | All SZGR 2.0 genes in this pathway |
| DAZARD RESPONSE TO UV SCC UP | 123 | 75 | All SZGR 2.0 genes in this pathway |
| ICHIBA GRAFT VERSUS HOST DISEASE D7 UP | 107 | 67 | All SZGR 2.0 genes in this pathway |
| CHEN METABOLIC SYNDROM NETWORK | 1210 | 725 | All SZGR 2.0 genes in this pathway |
| DANG REGULATED BY MYC DN | 253 | 192 | All SZGR 2.0 genes in this pathway |
| MIKKELSEN ES ICP WITH H3K4ME3 | 718 | 401 | All SZGR 2.0 genes in this pathway |
| BROWNE HCMV INFECTION 1HR DN | 222 | 147 | All SZGR 2.0 genes in this pathway |
| VERHAAK GLIOBLASTOMA MESENCHYMAL | 216 | 130 | All SZGR 2.0 genes in this pathway |
| HOLLEMAN PREDNISOLONE RESISTANCE ALL DN | 11 | 8 | All SZGR 2.0 genes in this pathway |
| HOLLEMAN DAUNORUBICIN ALL UP | 7 | 5 | All SZGR 2.0 genes in this pathway |