Gene Page: CSGALNACT1
Summary ?
| GeneID | 55790 |
| Symbol | CSGALNACT1 |
| Synonyms | CSGalNAcT-1|ChGn|beta4GalNAcT |
| Description | chondroitin sulfate N-acetylgalactosaminyltransferase 1 |
| Reference | MIM:616615|HGNC:HGNC:24290|Ensembl:ENSG00000147408|HPRD:13114|Vega:OTTHUMG00000130827 |
| Gene type | protein-coding |
| Map location | 8p21.3 |
| Pascal p-value | 0.115 |
| Sherlock p-value | 0.961 |
| Fetal beta | -1.12 |
| eGene | Anterior cingulate cortex BA24 Caudate basal ganglia Cortex Frontal Cortex BA9 Hippocampus Hypothalamus Nucleus accumbens basal ganglia Putamen basal ganglia Meta |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| CV:GWASdb | Genome-wide Association Studies | GWASdb records for schizophrenia | |
| CV:PGCnp | Genome-wide Association Study | GWAS | |
| 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 |
|---|---|---|---|---|---|---|---|---|
| rs4256608 | 8 | 19267560 | CSGALNACT1 | ENSG00000147408.10 | 1.415E-7 | 0 | 347980 | gtex_brain_ba24 |
| rs17407039 | 8 | 19268056 | CSGALNACT1 | ENSG00000147408.10 | 1.124E-7 | 0 | 347484 | gtex_brain_ba24 |
| rs11785649 | 8 | 19268233 | CSGALNACT1 | ENSG00000147408.10 | 1.066E-7 | 0 | 347307 | gtex_brain_ba24 |
| rs11782540 | 8 | 19268251 | CSGALNACT1 | ENSG00000147408.10 | 1.062E-7 | 0 | 347289 | gtex_brain_ba24 |
| rs7821446 | 8 | 19268822 | CSGALNACT1 | ENSG00000147408.10 | 3.138E-8 | 0 | 346718 | gtex_brain_ba24 |
| rs17407149 | 8 | 19274848 | CSGALNACT1 | ENSG00000147408.10 | 1.365E-7 | 0 | 340692 | gtex_brain_ba24 |
| rs6991231 | 8 | 19276556 | CSGALNACT1 | ENSG00000147408.10 | 2.265E-8 | 0 | 338984 | gtex_brain_ba24 |
| rs11204039 | 8 | 19280442 | CSGALNACT1 | ENSG00000147408.10 | 4.726E-7 | 0 | 335098 | gtex_brain_ba24 |
| rs12678336 | 8 | 19280552 | CSGALNACT1 | ENSG00000147408.10 | 4.534E-7 | 0 | 334988 | gtex_brain_ba24 |
| rs11787230 | 8 | 19280982 | CSGALNACT1 | ENSG00000147408.10 | 4.073E-7 | 0 | 334558 | gtex_brain_ba24 |
| rs11784873 | 8 | 19281113 | CSGALNACT1 | ENSG00000147408.10 | 4.071E-7 | 0 | 334427 | gtex_brain_ba24 |
| rs7004435 | 8 | 19282732 | CSGALNACT1 | ENSG00000147408.10 | 4.056E-7 | 0 | 332808 | gtex_brain_ba24 |
| rs4546679 | 8 | 19283335 | CSGALNACT1 | ENSG00000147408.10 | 4.051E-7 | 0 | 332205 | gtex_brain_ba24 |
| rs4333618 | 8 | 19283442 | CSGALNACT1 | ENSG00000147408.10 | 4.05E-7 | 0 | 332098 | gtex_brain_ba24 |
| rs4549789 | 8 | 19284015 | CSGALNACT1 | ENSG00000147408.10 | 4.043E-7 | 0 | 331525 | gtex_brain_ba24 |
| rs4554480 | 8 | 19284072 | CSGALNACT1 | ENSG00000147408.10 | 4.036E-7 | 0 | 331468 | gtex_brain_ba24 |
| rs4433156 | 8 | 19284247 | CSGALNACT1 | ENSG00000147408.10 | 1.868E-7 | 0 | 331293 | gtex_brain_ba24 |
| rs4481612 | 8 | 19285336 | CSGALNACT1 | ENSG00000147408.10 | 1.914E-9 | 0 | 330204 | gtex_brain_ba24 |
| rs13258090 | 8 | 19285726 | CSGALNACT1 | ENSG00000147408.10 | 4.556E-7 | 0 | 329814 | gtex_brain_ba24 |
| rs12543061 | 8 | 19286181 | CSGALNACT1 | ENSG00000147408.10 | 4.516E-7 | 0 | 329359 | gtex_brain_ba24 |
| rs10107416 | 8 | 19286253 | CSGALNACT1 | ENSG00000147408.10 | 1.649E-7 | 0 | 329287 | gtex_brain_ba24 |
| rs12542575 | 8 | 19286558 | CSGALNACT1 | ENSG00000147408.10 | 4.556E-7 | 0 | 328982 | gtex_brain_ba24 |
| rs6992893 | 8 | 19287504 | CSGALNACT1 | ENSG00000147408.10 | 4.556E-7 | 0 | 328036 | gtex_brain_ba24 |
| rs6997164 | 8 | 19287856 | CSGALNACT1 | ENSG00000147408.10 | 9.238E-9 | 0 | 327684 | gtex_brain_ba24 |
| rs6983973 | 8 | 19287867 | CSGALNACT1 | ENSG00000147408.10 | 4.556E-7 | 0 | 327673 | gtex_brain_ba24 |
| rs11204040 | 8 | 19288525 | CSGALNACT1 | ENSG00000147408.10 | 4.556E-7 | 0 | 327015 | gtex_brain_ba24 |
| rs13255677 | 8 | 19288985 | CSGALNACT1 | ENSG00000147408.10 | 1.789E-7 | 0 | 326555 | gtex_brain_ba24 |
| rs11991105 | 8 | 19290655 | CSGALNACT1 | ENSG00000147408.10 | 9.397E-7 | 0 | 324885 | gtex_brain_ba24 |
| rs11780343 | 8 | 19290963 | CSGALNACT1 | ENSG00000147408.10 | 4.483E-7 | 0 | 324577 | gtex_brain_ba24 |
| rs11204041 | 8 | 19291371 | CSGALNACT1 | ENSG00000147408.10 | 4.584E-7 | 0 | 324169 | gtex_brain_ba24 |
| rs7823194 | 8 | 19292528 | CSGALNACT1 | ENSG00000147408.10 | 4.589E-7 | 0 | 323012 | gtex_brain_ba24 |
| rs12675717 | 8 | 19293177 | CSGALNACT1 | ENSG00000147408.10 | 5.121E-7 | 0 | 322363 | gtex_brain_ba24 |
| rs4430112 | 8 | 19293365 | CSGALNACT1 | ENSG00000147408.10 | 4.556E-7 | 0 | 322175 | gtex_brain_ba24 |
| rs4431609 | 8 | 19293565 | CSGALNACT1 | ENSG00000147408.10 | 2.064E-8 | 0 | 321975 | gtex_brain_ba24 |
| rs4921642 | 8 | 19293906 | CSGALNACT1 | ENSG00000147408.10 | 4.556E-7 | 0 | 321634 | gtex_brain_ba24 |
| rs6984145 | 8 | 19294111 | CSGALNACT1 | ENSG00000147408.10 | 4.556E-7 | 0 | 321429 | gtex_brain_ba24 |
| rs7833166 | 8 | 19294634 | CSGALNACT1 | ENSG00000147408.10 | 4.523E-7 | 0 | 320906 | gtex_brain_ba24 |
| rs13278459 | 8 | 19297583 | CSGALNACT1 | ENSG00000147408.10 | 1.724E-7 | 0 | 317957 | gtex_brain_ba24 |
| rs80127747 | 8 | 19299061 | CSGALNACT1 | ENSG00000147408.10 | 1.565E-7 | 0 | 316479 | gtex_brain_ba24 |
| rs12674938 | 8 | 19300813 | CSGALNACT1 | ENSG00000147408.10 | 1.714E-7 | 0 | 314727 | gtex_brain_ba24 |
| rs4618712 | 8 | 19302621 | CSGALNACT1 | ENSG00000147408.10 | 2.225E-7 | 0 | 312919 | gtex_brain_ba24 |
| rs6981898 | 8 | 19305705 | CSGALNACT1 | ENSG00000147408.10 | 2.658E-7 | 0 | 309835 | gtex_brain_ba24 |
| rs56298301 | 8 | 19305937 | CSGALNACT1 | ENSG00000147408.10 | 9.19E-10 | 0 | 309603 | gtex_brain_ba24 |
| rs7818345 | 8 | 19306618 | CSGALNACT1 | ENSG00000147408.10 | 2.657E-7 | 0 | 308922 | gtex_brain_ba24 |
| rs7835461 | 8 | 19307051 | CSGALNACT1 | ENSG00000147408.10 | 2.657E-7 | 0 | 308489 | gtex_brain_ba24 |
| rs35029660 | 8 | 19308126 | CSGALNACT1 | ENSG00000147408.10 | 1.969E-7 | 0 | 307414 | gtex_brain_ba24 |
| rs7011602 | 8 | 19308915 | CSGALNACT1 | ENSG00000147408.10 | 1.327E-6 | 0 | 306625 | gtex_brain_ba24 |
| rs4392915 | 8 | 19308938 | CSGALNACT1 | ENSG00000147408.10 | 1.885E-7 | 0 | 306602 | gtex_brain_ba24 |
| rs4392916 | 8 | 19309355 | CSGALNACT1 | ENSG00000147408.10 | 1.868E-7 | 0 | 306185 | gtex_brain_ba24 |
| rs4379462 | 8 | 19311496 | CSGALNACT1 | ENSG00000147408.10 | 2.945E-7 | 0 | 304044 | gtex_brain_ba24 |
| rs4409408 | 8 | 19311538 | CSGALNACT1 | ENSG00000147408.10 | 1.068E-7 | 0 | 304002 | gtex_brain_ba24 |
| rs10888163 | 8 | 19315034 | CSGALNACT1 | ENSG00000147408.10 | 4.208E-10 | 0 | 300506 | gtex_brain_ba24 |
| rs12155539 | 8 | 19316086 | CSGALNACT1 | ENSG00000147408.10 | 6.932E-7 | 0 | 299454 | gtex_brain_ba24 |
| rs58551730 | 8 | 19316627 | CSGALNACT1 | ENSG00000147408.10 | 6.932E-7 | 0 | 298913 | gtex_brain_ba24 |
| rs4625053 | 8 | 19317270 | CSGALNACT1 | ENSG00000147408.10 | 5.278E-9 | 0 | 298270 | gtex_brain_ba24 |
| rs4922034 | 8 | 19326307 | CSGALNACT1 | ENSG00000147408.10 | 6.306E-7 | 0 | 289233 | gtex_brain_ba24 |
| rs4244451 | 8 | 19326409 | CSGALNACT1 | ENSG00000147408.10 | 6.306E-7 | 0 | 289131 | gtex_brain_ba24 |
| rs4921647 | 8 | 19326443 | CSGALNACT1 | ENSG00000147408.10 | 6.38E-7 | 0 | 289097 | gtex_brain_ba24 |
| rs4244452 | 8 | 19326521 | CSGALNACT1 | ENSG00000147408.10 | 6.38E-7 | 0 | 289019 | gtex_brain_ba24 |
| rs4455847 | 8 | 19326546 | CSGALNACT1 | ENSG00000147408.10 | 7.892E-7 | 0 | 288994 | gtex_brain_ba24 |
| rs5013219 | 8 | 19326548 | CSGALNACT1 | ENSG00000147408.10 | 6.38E-7 | 0 | 288992 | gtex_brain_ba24 |
| rs4524812 | 8 | 19326553 | CSGALNACT1 | ENSG00000147408.10 | 6.38E-7 | 0 | 288987 | gtex_brain_ba24 |
| rs6586838 | 8 | 19332689 | CSGALNACT1 | ENSG00000147408.10 | 7.295E-7 | 0 | 282851 | gtex_brain_ba24 |
| rs4921648 | 8 | 19333013 | CSGALNACT1 | ENSG00000147408.10 | 6.062E-7 | 0 | 282527 | gtex_brain_ba24 |
| rs4921649 | 8 | 19333173 | CSGALNACT1 | ENSG00000147408.10 | 5.593E-7 | 0 | 282367 | gtex_brain_ba24 |
| rs4540423 | 8 | 19334006 | CSGALNACT1 | ENSG00000147408.10 | 6.092E-7 | 0 | 281534 | gtex_brain_ba24 |
| rs4311666 | 8 | 19334085 | CSGALNACT1 | ENSG00000147408.10 | 5.587E-7 | 0 | 281455 | gtex_brain_ba24 |
| rs11204045 | 8 | 19335101 | CSGALNACT1 | ENSG00000147408.10 | 5.593E-7 | 0 | 280439 | gtex_brain_ba24 |
| rs4413788 | 8 | 19336762 | CSGALNACT1 | ENSG00000147408.10 | 1.775E-7 | 0 | 278778 | gtex_brain_ba24 |
| rs4442163 | 8 | 19337021 | CSGALNACT1 | ENSG00000147408.10 | 5.593E-7 | 0 | 278519 | gtex_brain_ba24 |
| rs7460541 | 8 | 19337028 | CSGALNACT1 | ENSG00000147408.10 | 5.593E-7 | 0 | 278512 | gtex_brain_ba24 |
| rs398086404 | 8 | 19338703 | CSGALNACT1 | ENSG00000147408.10 | 5.531E-7 | 0 | 276837 | gtex_brain_ba24 |
| rs4921651 | 8 | 19339085 | CSGALNACT1 | ENSG00000147408.10 | 5.593E-7 | 0 | 276455 | gtex_brain_ba24 |
| rs4922037 | 8 | 19339703 | CSGALNACT1 | ENSG00000147408.10 | 5.585E-7 | 0 | 275837 | gtex_brain_ba24 |
| rs13265751 | 8 | 19340019 | CSGALNACT1 | ENSG00000147408.10 | 5.593E-7 | 0 | 275521 | gtex_brain_ba24 |
| rs13267265 | 8 | 19340718 | CSGALNACT1 | ENSG00000147408.10 | 5.593E-7 | 0 | 274822 | gtex_brain_ba24 |
| rs4256608 | 8 | 19267560 | CSGALNACT1 | ENSG00000147408.10 | 5.169E-9 | 0 | 347980 | gtex_brain_putamen_basal |
| rs17407039 | 8 | 19268056 | CSGALNACT1 | ENSG00000147408.10 | 7.595E-10 | 0 | 347484 | gtex_brain_putamen_basal |
| rs11785649 | 8 | 19268233 | CSGALNACT1 | ENSG00000147408.10 | 7.615E-10 | 0 | 347307 | gtex_brain_putamen_basal |
| rs11782540 | 8 | 19268251 | CSGALNACT1 | ENSG00000147408.10 | 1.068E-9 | 0 | 347289 | gtex_brain_putamen_basal |
| rs7821446 | 8 | 19268822 | CSGALNACT1 | ENSG00000147408.10 | 7.615E-10 | 0 | 346718 | gtex_brain_putamen_basal |
| rs4412390 | 8 | 19270143 | CSGALNACT1 | ENSG00000147408.10 | 1.945E-7 | 0 | 345397 | gtex_brain_putamen_basal |
| rs12679671 | 8 | 19270831 | CSGALNACT1 | ENSG00000147408.10 | 2.047E-7 | 0 | 344709 | gtex_brain_putamen_basal |
| rs12679712 | 8 | 19271032 | CSGALNACT1 | ENSG00000147408.10 | 1.945E-7 | 0 | 344508 | gtex_brain_putamen_basal |
| rs11780388 | 8 | 19271554 | CSGALNACT1 | ENSG00000147408.10 | 3.84E-7 | 0 | 343986 | gtex_brain_putamen_basal |
| rs7006702 | 8 | 19272533 | CSGALNACT1 | ENSG00000147408.10 | 1.83E-7 | 0 | 343007 | gtex_brain_putamen_basal |
| rs4921638 | 8 | 19274793 | CSGALNACT1 | ENSG00000147408.10 | 1.948E-7 | 0 | 340747 | gtex_brain_putamen_basal |
| rs17407149 | 8 | 19274848 | CSGALNACT1 | ENSG00000147408.10 | 4.876E-9 | 0 | 340692 | gtex_brain_putamen_basal |
| rs13255946 | 8 | 19275354 | CSGALNACT1 | ENSG00000147408.10 | 7.217E-7 | 0 | 340186 | gtex_brain_putamen_basal |
| rs4391454 | 8 | 19275653 | CSGALNACT1 | ENSG00000147408.10 | 2.441E-7 | 0 | 339887 | gtex_brain_putamen_basal |
| rs4633071 | 8 | 19275852 | CSGALNACT1 | ENSG00000147408.10 | 1.948E-7 | 0 | 339688 | gtex_brain_putamen_basal |
| rs6991212 | 8 | 19276522 | CSGALNACT1 | ENSG00000147408.10 | 4.989E-7 | 0 | 339018 | gtex_brain_putamen_basal |
| rs6991231 | 8 | 19276556 | CSGALNACT1 | ENSG00000147408.10 | 3.689E-9 | 0 | 338984 | gtex_brain_putamen_basal |
| rs6990217 | 8 | 19276661 | CSGALNACT1 | ENSG00000147408.10 | 4.989E-7 | 0 | 338879 | gtex_brain_putamen_basal |
| rs7015440 | 8 | 19276991 | CSGALNACT1 | ENSG00000147408.10 | 4.989E-7 | 0 | 338549 | gtex_brain_putamen_basal |
| rs17479099 | 8 | 19277144 | CSGALNACT1 | ENSG00000147408.10 | 5.546E-7 | 0 | 338396 | gtex_brain_putamen_basal |
| rs11786847 | 8 | 19277200 | CSGALNACT1 | ENSG00000147408.10 | 5.546E-7 | 0 | 338340 | gtex_brain_putamen_basal |
| rs7016259 | 8 | 19277530 | CSGALNACT1 | ENSG00000147408.10 | 5.546E-7 | 0 | 338010 | gtex_brain_putamen_basal |
| rs7016592 | 8 | 19277735 | CSGALNACT1 | ENSG00000147408.10 | 5.546E-7 | 0 | 337805 | gtex_brain_putamen_basal |
| rs6999786 | 8 | 19277817 | CSGALNACT1 | ENSG00000147408.10 | 1.945E-7 | 0 | 337723 | gtex_brain_putamen_basal |
| rs11204039 | 8 | 19280442 | CSGALNACT1 | ENSG00000147408.10 | 1.844E-8 | 0 | 335098 | gtex_brain_putamen_basal |
| rs12678336 | 8 | 19280552 | CSGALNACT1 | ENSG00000147408.10 | 1.559E-8 | 0 | 334988 | gtex_brain_putamen_basal |
| rs11787230 | 8 | 19280982 | CSGALNACT1 | ENSG00000147408.10 | 8.403E-9 | 0 | 334558 | gtex_brain_putamen_basal |
| rs11784873 | 8 | 19281113 | CSGALNACT1 | ENSG00000147408.10 | 8.366E-9 | 0 | 334427 | gtex_brain_putamen_basal |
| rs7004435 | 8 | 19282732 | CSGALNACT1 | ENSG00000147408.10 | 5.215E-8 | 0 | 332808 | gtex_brain_putamen_basal |
| rs4546679 | 8 | 19283335 | CSGALNACT1 | ENSG00000147408.10 | 7.964E-9 | 0 | 332205 | gtex_brain_putamen_basal |
| rs4333618 | 8 | 19283442 | CSGALNACT1 | ENSG00000147408.10 | 7.924E-9 | 0 | 332098 | gtex_brain_putamen_basal |
| rs4549789 | 8 | 19284015 | CSGALNACT1 | ENSG00000147408.10 | 7.652E-9 | 0 | 331525 | gtex_brain_putamen_basal |
| rs4554480 | 8 | 19284072 | CSGALNACT1 | ENSG00000147408.10 | 1.2E-8 | 0 | 331468 | gtex_brain_putamen_basal |
| rs4433156 | 8 | 19284247 | CSGALNACT1 | ENSG00000147408.10 | 2.699E-9 | 0 | 331293 | gtex_brain_putamen_basal |
| rs4481612 | 8 | 19285336 | CSGALNACT1 | ENSG00000147408.10 | 6.027E-10 | 0 | 330204 | gtex_brain_putamen_basal |
| rs13258090 | 8 | 19285726 | CSGALNACT1 | ENSG00000147408.10 | 2.359E-9 | 0 | 329814 | gtex_brain_putamen_basal |
| rs12543061 | 8 | 19286181 | CSGALNACT1 | ENSG00000147408.10 | 9.88E-10 | 0 | 329359 | gtex_brain_putamen_basal |
| rs10107416 | 8 | 19286253 | CSGALNACT1 | ENSG00000147408.10 | 4.757E-10 | 0 | 329287 | gtex_brain_putamen_basal |
| rs201258166 | 8 | 19286333 | CSGALNACT1 | ENSG00000147408.10 | 8.012E-7 | 0 | 329207 | gtex_brain_putamen_basal |
| rs12542575 | 8 | 19286558 | CSGALNACT1 | ENSG00000147408.10 | 9.637E-10 | 0 | 328982 | gtex_brain_putamen_basal |
| rs6992893 | 8 | 19287504 | CSGALNACT1 | ENSG00000147408.10 | 9.637E-10 | 0 | 328036 | gtex_brain_putamen_basal |
| rs6997164 | 8 | 19287856 | CSGALNACT1 | ENSG00000147408.10 | 3.097E-10 | 0 | 327684 | gtex_brain_putamen_basal |
| rs6983973 | 8 | 19287867 | CSGALNACT1 | ENSG00000147408.10 | 9.637E-10 | 0 | 327673 | gtex_brain_putamen_basal |
| rs11204040 | 8 | 19288525 | CSGALNACT1 | ENSG00000147408.10 | 3.979E-9 | 0 | 327015 | gtex_brain_putamen_basal |
| rs13255677 | 8 | 19288985 | CSGALNACT1 | ENSG00000147408.10 | 3.158E-9 | 0 | 326555 | gtex_brain_putamen_basal |
| rs11991105 | 8 | 19290655 | CSGALNACT1 | ENSG00000147408.10 | 1.46E-8 | 0 | 324885 | gtex_brain_putamen_basal |
| rs11780343 | 8 | 19290963 | CSGALNACT1 | ENSG00000147408.10 | 1.01E-9 | 0 | 324577 | gtex_brain_putamen_basal |
| rs11204041 | 8 | 19291371 | CSGALNACT1 | ENSG00000147408.10 | 2.322E-8 | 0 | 324169 | gtex_brain_putamen_basal |
| rs7844175 | 8 | 19292244 | CSGALNACT1 | ENSG00000147408.10 | 4.689E-7 | 0 | 323296 | gtex_brain_putamen_basal |
| rs7822046 | 8 | 19292471 | CSGALNACT1 | ENSG00000147408.10 | 3.18E-7 | 0 | 323069 | gtex_brain_putamen_basal |
| rs7823194 | 8 | 19292528 | CSGALNACT1 | ENSG00000147408.10 | 9.653E-10 | 0 | 323012 | gtex_brain_putamen_basal |
| rs12675717 | 8 | 19293177 | CSGALNACT1 | ENSG00000147408.10 | 9.637E-10 | 0 | 322363 | gtex_brain_putamen_basal |
| rs4430112 | 8 | 19293365 | CSGALNACT1 | ENSG00000147408.10 | 9.637E-10 | 0 | 322175 | gtex_brain_putamen_basal |
| rs4431609 | 8 | 19293565 | CSGALNACT1 | ENSG00000147408.10 | 5.149E-10 | 0 | 321975 | gtex_brain_putamen_basal |
| rs4921642 | 8 | 19293906 | CSGALNACT1 | ENSG00000147408.10 | 9.382E-10 | 0 | 321634 | gtex_brain_putamen_basal |
| rs6984145 | 8 | 19294111 | CSGALNACT1 | ENSG00000147408.10 | 9.637E-10 | 0 | 321429 | gtex_brain_putamen_basal |
| rs7833166 | 8 | 19294634 | CSGALNACT1 | ENSG00000147408.10 | 8.626E-10 | 0 | 320906 | gtex_brain_putamen_basal |
| rs7012529 | 8 | 19296280 | CSGALNACT1 | ENSG00000147408.10 | 6.386E-7 | 0 | 319260 | gtex_brain_putamen_basal |
| rs13278459 | 8 | 19297583 | CSGALNACT1 | ENSG00000147408.10 | 4.435E-10 | 0 | 317957 | gtex_brain_putamen_basal |
| rs80127747 | 8 | 19299061 | CSGALNACT1 | ENSG00000147408.10 | 8.627E-10 | 0 | 316479 | gtex_brain_putamen_basal |
| rs4921644 | 8 | 19299481 | CSGALNACT1 | ENSG00000147408.10 | 1.147E-7 | 0 | 316059 | gtex_brain_putamen_basal |
| rs12674938 | 8 | 19300813 | CSGALNACT1 | ENSG00000147408.10 | 2.109E-9 | 0 | 314727 | gtex_brain_putamen_basal |
| rs4618712 | 8 | 19302621 | CSGALNACT1 | ENSG00000147408.10 | 7.609E-9 | 0 | 312919 | gtex_brain_putamen_basal |
| rs4922028 | 8 | 19303771 | CSGALNACT1 | ENSG00000147408.10 | 1.148E-6 | 0 | 311769 | gtex_brain_putamen_basal |
| rs4922029 | 8 | 19304533 | CSGALNACT1 | ENSG00000147408.10 | 1.313E-6 | 0 | 311007 | gtex_brain_putamen_basal |
| rs6981898 | 8 | 19305705 | CSGALNACT1 | ENSG00000147408.10 | 1.138E-8 | 0 | 309835 | gtex_brain_putamen_basal |
| rs56298301 | 8 | 19305937 | CSGALNACT1 | ENSG00000147408.10 | 7.141E-11 | 0 | 309603 | gtex_brain_putamen_basal |
| rs6586833 | 8 | 19306262 | CSGALNACT1 | ENSG00000147408.10 | 1.03E-6 | 0 | 309278 | gtex_brain_putamen_basal |
| rs7818345 | 8 | 19306618 | CSGALNACT1 | ENSG00000147408.10 | 1.138E-8 | 0 | 308922 | gtex_brain_putamen_basal |
| rs7835461 | 8 | 19307051 | CSGALNACT1 | ENSG00000147408.10 | 1.684E-7 | 0 | 308489 | gtex_brain_putamen_basal |
| rs57858518 | 8 | 19307290 | CSGALNACT1 | ENSG00000147408.10 | 6.501E-7 | 0 | 308250 | gtex_brain_putamen_basal |
| rs35029660 | 8 | 19308126 | CSGALNACT1 | ENSG00000147408.10 | 4.398E-9 | 0 | 307414 | gtex_brain_putamen_basal |
| rs7011602 | 8 | 19308915 | CSGALNACT1 | ENSG00000147408.10 | 6.275E-8 | 0 | 306625 | gtex_brain_putamen_basal |
| rs4392915 | 8 | 19308938 | CSGALNACT1 | ENSG00000147408.10 | 4.505E-9 | 0 | 306602 | gtex_brain_putamen_basal |
| rs4392916 | 8 | 19309355 | CSGALNACT1 | ENSG00000147408.10 | 4.403E-9 | 0 | 306185 | gtex_brain_putamen_basal |
| rs4379462 | 8 | 19311496 | CSGALNACT1 | ENSG00000147408.10 | 2.694E-9 | 0 | 304044 | gtex_brain_putamen_basal |
| rs4409408 | 8 | 19311538 | CSGALNACT1 | ENSG00000147408.10 | 1.385E-9 | 0 | 304002 | gtex_brain_putamen_basal |
| rs4486225 | 8 | 19313404 | CSGALNACT1 | ENSG00000147408.10 | 2.036E-7 | 0 | 302136 | gtex_brain_putamen_basal |
| rs13261824 | 8 | 19313912 | CSGALNACT1 | ENSG00000147408.10 | 1.467E-7 | 0 | 301628 | gtex_brain_putamen_basal |
| rs10888163 | 8 | 19315034 | CSGALNACT1 | ENSG00000147408.10 | 1.18E-12 | 0 | 300506 | gtex_brain_putamen_basal |
| rs12155539 | 8 | 19316086 | CSGALNACT1 | ENSG00000147408.10 | 6.77E-10 | 0 | 299454 | gtex_brain_putamen_basal |
| rs58551730 | 8 | 19316627 | CSGALNACT1 | ENSG00000147408.10 | 6.77E-10 | 0 | 298913 | gtex_brain_putamen_basal |
| rs4625053 | 8 | 19317270 | CSGALNACT1 | ENSG00000147408.10 | 1.75E-12 | 0 | 298270 | gtex_brain_putamen_basal |
| rs62496184 | 8 | 19319423 | CSGALNACT1 | ENSG00000147408.10 | 4.817E-7 | 0 | 296117 | gtex_brain_putamen_basal |
| rs35736969 | 8 | 19319620 | CSGALNACT1 | ENSG00000147408.10 | 4.958E-7 | 0 | 295920 | gtex_brain_putamen_basal |
| rs34221121 | 8 | 19319625 | CSGALNACT1 | ENSG00000147408.10 | 2.565E-9 | 0 | 295915 | gtex_brain_putamen_basal |
| rs12680768 | 8 | 19320196 | CSGALNACT1 | ENSG00000147408.10 | 2.767E-9 | 0 | 295344 | gtex_brain_putamen_basal |
| rs201094651 | 8 | 19320665 | CSGALNACT1 | ENSG00000147408.10 | 6.349E-7 | 0 | 294875 | gtex_brain_putamen_basal |
| rs61345831 | 8 | 19320666 | CSGALNACT1 | ENSG00000147408.10 | 5.658E-7 | 0 | 294874 | gtex_brain_putamen_basal |
| rs4427190 | 8 | 19321385 | CSGALNACT1 | ENSG00000147408.10 | 6.298E-7 | 0 | 294155 | gtex_brain_putamen_basal |
| rs4922031 | 8 | 19323062 | CSGALNACT1 | ENSG00000147408.10 | 3.604E-7 | 0 | 292478 | gtex_brain_putamen_basal |
| rs13267801 | 8 | 19326834 | CSGALNACT1 | ENSG00000147408.10 | 2.458E-7 | 0 | 288706 | gtex_brain_putamen_basal |
| rs13275706 | 8 | 19327151 | CSGALNACT1 | ENSG00000147408.10 | 2.452E-7 | 0 | 288389 | gtex_brain_putamen_basal |
| rs11786904 | 8 | 19327267 | CSGALNACT1 | ENSG00000147408.10 | 1.315E-7 | 0 | 288273 | gtex_brain_putamen_basal |
| rs13250181 | 8 | 19328766 | CSGALNACT1 | ENSG00000147408.10 | 1.324E-7 | 0 | 286774 | gtex_brain_putamen_basal |
| rs13261732 | 8 | 19330215 | CSGALNACT1 | ENSG00000147408.10 | 1.324E-7 | 0 | 285325 | gtex_brain_putamen_basal |
| rs12682196 | 8 | 19332963 | CSGALNACT1 | ENSG00000147408.10 | 1.223E-7 | 0 | 282577 | gtex_brain_putamen_basal |
| rs200774223 | 8 | 19335648 | CSGALNACT1 | ENSG00000147408.10 | 1.069E-7 | 0 | 279892 | 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
| Molecular function | GO term | Evidence | Neuro keywords | PubMed ID |
|---|---|---|---|---|
| GO:0008955 | peptidoglycan glycosyltransferase activity | IDA | 11514575 | |
| GO:0016740 | transferase activity | IEA | - | |
| GO:0015020 | glucuronosyltransferase activity | IDA | 11514575 | |
| GO:0046872 | metal ion binding | NAS | 12163485 | |
| GO:0047237 | glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity | IDA | 12163485 | |
| GO:0047238 | glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity | IDA | 12163485 | |
| Biological process | GO term | Evidence | Neuro keywords | PubMed ID |
| GO:0007399 | nervous system development | NAS | neurite (GO term level: 5) | 11514575 |
| GO:0008283 | cell proliferation | NAS | 11514575 | |
| GO:0009653 | anatomical structure morphogenesis | NAS | 11514575 | |
| GO:0008037 | cell recognition | NAS | 11514575 | |
| GO:0015014 | heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process | NAS | 11514575 | |
| GO:0030210 | heparin biosynthetic process | NAS | 11514575 | |
| GO:0030206 | chondroitin sulfate biosynthetic process | IDA | 11514575 |12163485 | |
| GO:0019276 | UDP-N-acetylgalactosamine metabolic process | IDA | 11514575 | |
| GO:0030198 | extracellular matrix organization | NAS | 11514575 | |
| GO:0050651 | dermatan sulfate proteoglycan biosynthetic process | ISS | 11788602 | |
| GO:0050653 | chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process | IDA | 12163485 | |
| GO:0046398 | UDP-glucuronate metabolic process | IDA | 11514575 | |
| Cellular component | GO term | Evidence | Neuro keywords | PubMed ID |
| GO:0005794 | Golgi apparatus | IEA | - | |
| GO:0005622 | intracellular | IC | 12163485 | |
| GO:0005625 | soluble fraction | IDA | 11514575 | |
| GO:0016020 | membrane | IEA | - | |
| GO:0016021 | integral to membrane | IEA | - | |
| GO:0030173 | integral to Golgi membrane | NAS | 11514575 |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| KEGG GLYCOSAMINOGLYCAN BIOSYNTHESIS CHONDROITIN SULFATE | 22 | 16 | All SZGR 2.0 genes in this pathway |
| REACTOME CHONDROITIN SULFATE BIOSYNTHESIS | 21 | 15 | All SZGR 2.0 genes in this pathway |
| REACTOME CHONDROITIN SULFATE DERMATAN SULFATE METABOLISM | 49 | 33 | All SZGR 2.0 genes in this pathway |
| REACTOME GLYCOSAMINOGLYCAN METABOLISM | 111 | 69 | All SZGR 2.0 genes in this pathway |
| REACTOME METABOLISM OF CARBOHYDRATES | 247 | 154 | All SZGR 2.0 genes in this pathway |
| ONKEN UVEAL MELANOMA DN | 526 | 357 | All SZGR 2.0 genes in this pathway |
| HOOI ST7 TARGETS DN | 123 | 78 | All SZGR 2.0 genes in this pathway |
| CORRE MULTIPLE MYELOMA UP | 74 | 45 | All SZGR 2.0 genes in this pathway |
| CASORELLI APL SECONDARY VS DE NOVO UP | 39 | 25 | All SZGR 2.0 genes in this pathway |
| LIU TARGETS OF VMYB VS CMYB DN | 43 | 30 | All SZGR 2.0 genes in this pathway |
| ELVIDGE HYPOXIA UP | 171 | 112 | All SZGR 2.0 genes in this pathway |
| ELVIDGE HYPOXIA BY DMOG UP | 130 | 85 | All SZGR 2.0 genes in this pathway |
| RODRIGUES THYROID CARCINOMA ANAPLASTIC DN | 537 | 339 | All SZGR 2.0 genes in this pathway |
| HAHTOLA SEZARY SYNDROM UP | 98 | 58 | 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 |
| FARMER BREAST CANCER APOCRINE VS LUMINAL | 326 | 213 | All SZGR 2.0 genes in this pathway |
| NUYTTEN EZH2 TARGETS DN | 1024 | 594 | All SZGR 2.0 genes in this pathway |
| BENPORATH CYCLING GENES | 648 | 385 | All SZGR 2.0 genes in this pathway |
| CERVERA SDHB TARGETS 2 | 114 | 76 | All SZGR 2.0 genes in this pathway |
| HADDAD B LYMPHOCYTE PROGENITOR | 293 | 193 | All SZGR 2.0 genes in this pathway |
| ALCALAY AML BY NPM1 LOCALIZATION DN | 184 | 132 | All SZGR 2.0 genes in this pathway |
| VERHAAK AML WITH NPM1 MUTATED DN | 246 | 180 | All SZGR 2.0 genes in this pathway |
| CUI TCF21 TARGETS 2 DN | 830 | 547 | All SZGR 2.0 genes in this pathway |
| WALLACE PROSTATE CANCER RACE DN | 88 | 42 | All SZGR 2.0 genes in this pathway |
| RIGGI EWING SARCOMA PROGENITOR DN | 191 | 123 | 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 NORMAL LIKE UP | 476 | 285 | All SZGR 2.0 genes in this pathway |
| BREDEMEYER RAG SIGNALING VIA ATM NOT VIA NFKB UP | 49 | 32 | All SZGR 2.0 genes in this pathway |
| RUIZ TNC TARGETS UP | 153 | 107 | All SZGR 2.0 genes in this pathway |
| WOO LIVER CANCER RECURRENCE UP | 105 | 75 | All SZGR 2.0 genes in this pathway |
| WHITFIELD CELL CYCLE G2 M | 216 | 124 | All SZGR 2.0 genes in this pathway |
| FIGUEROA AML METHYLATION CLUSTER 2 DN | 9 | 8 | All SZGR 2.0 genes in this pathway |
| FIGUEROA AML METHYLATION CLUSTER 4 DN | 15 | 9 | All SZGR 2.0 genes in this pathway |
| FIGUEROA AML METHYLATION CLUSTER 6 DN | 38 | 19 | All SZGR 2.0 genes in this pathway |
| PHONG TNF RESPONSE VIA P38 COMPLETE | 227 | 151 | All SZGR 2.0 genes in this pathway |
| DURAND STROMA S UP | 297 | 194 | 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-299-5p | 1062 | 1068 | 1A | hsa-miR-299-5p | UGGUUUACCGUCCCACAUACAU |
| miR-9 | 1065 | 1071 | m8 | hsa-miR-9SZ | UCUUUGGUUAUCUAGCUGUAUGA |
- 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.