GWAS585225_H QTL Report (Homo sapiens) - Rat Genome Database

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QTL Registration

QTL: GWAS585225_H (basophil count QTL GWAS585225 (human)) Homo sapiens

Symbol: GWAS585225_H
Name: basophil count QTL GWAS585225 (human)
RGD ID: 406936249
Trait: basophil quantity   (VT:0002607)    
Measurement Type: blood basophil count   (CMO:0000034)    
LOD Score: Not Available
P Value: 2.0E-14
Variance: Not Available
Position
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh381951,225,221 - 51,225,222RGD_MAPPER_PIPELINEGRCh38
GRCh371951,728,477 - 51,728,478RGD_MAPPER_PIPELINEGRCh37
Population Stats: Not Available
JBrowse: View Region in Genome Browser (JBrowse)
Model



Experimental Data Annotations    Click to see Annotation Detail View

Clinical Measurement
Object SymbolSpeciesTermQualifierEvidenceWithReferenceNotesSourceOriginal Reference(s)
GWAS585225_HHumanblood basophil count  IAGPrs12459419405850206Based on the EFO term IDGWAS_CATALOGPMID:32888493

Vertebrate Trait
Object SymbolSpeciesTermQualifierEvidenceWithReferenceNotesSourceOriginal Reference(s)
GWAS585225_HHumanbasophil quantity  IAGPrs12459419405850206Based on the EFO term IDGWAS_CATALOGPMID:32888493

Experimental Factor Annotations    Click to see Annotation Detail View
Object SymbolSpeciesTermQualifierEvidenceWithReferenceNotesSourceOriginal Reference(s)
GWAS585225_HHumanbasophil count  IAGPrs12459419405850206 GWAS_CATALOGPMID:32888493
Experimental Data Annotations     Click to see Annotation Detail View

Clinical Measurement

Vertebrate Trait

References

References - curated
# Reference Title Reference Citation
1. RGD GWAS Catalog Import Pipeline RGD pipeline to import data from GWAS Catalog and create human variant and QTL records

Region

Genes in Region
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD IDSymbolNameChrStartStopSpecies
38667249LOC107985327uncharacterized LOC107985327195118690851271167Human
1347694CD33CD33 molecule195121107651240016Human

Position Markers

Peak: (rs12459419)
Human AssemblyChrPosition (strand)Source
GRCh381951,225,221 - 51,225,222RGD_MAPPER_PIPELINE


QTLs in Region (GRCh38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
407116550GWAS765526_Hmyeloid white cell count QTL GWAS765526 (human)4e-42myeloid white cell countwhite blood cell count (CMO:0000027)195122522151225222Human
406940420GWAS589396_Hprotein measurement QTL GWAS589396 (human)2e-77protein measurement195122522151225222Human
407164546GWAS813522_Hmyeloid cell surface antigen CD33 measurement QTL GWAS813522 (human)3e-165myeloid cell surface antigen CD33 measurement195122522151225222Human
407382222GWAS1031198_Hobsolete_red blood cell distribution width QTL GWAS1031198 (human)1e-08obsolete_red blood cell distribution widthred blood cell distribution width- standard deviation (CMO:0003232)195122522151225222Human
407005514GWAS654490_Hneutrophil count QTL GWAS654490 (human)7e-21neutrophil quantity (VT:0000222)blood neutrophil count (CMO:0000030)195122522151225222Human
407237006GWAS885982_HC-reactive protein measurement QTL GWAS885982 (human)8e-21C-reactive protein measurementblood C-reactive protein level (CMO:0003160)195122522151225222Human
407297290GWAS946266_Hmyeloid cell surface antigen CD33 measurement QTL GWAS946266 (human)1e-291myeloid cell surface antigen CD33 measurement195122522151225222Human
407121034GWAS770010_Hleukocyte count QTL GWAS770010 (human)7e-30leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)195122522151225222Human
407305161GWAS954137_Hlymphocyte count QTL GWAS954137 (human)8e-33lymphocyte countblood lymphocyte count (CMO:0000031)195122522151225222Human
1559110SCL22_HSerum cholesterol level QTL 22 (human)3.590.000241Lipid levelLDL cholesterol193190759457907594Human
407310166GWAS959142_HC-reactive protein measurement QTL GWAS959142 (human)1e-19C-reactive protein measurementblood C-reactive protein level (CMO:0003160)195122522151225222Human
407247632GWAS896608_Hneutrophil count QTL GWAS896608 (human)2e-10neutrophil quantity (VT:0000222)blood neutrophil count (CMO:0000030)195122522151225222Human
407106715GWAS755691_Hneutrophil count QTL GWAS755691 (human)5e-12neutrophil quantity (VT:0000222)blood neutrophil count (CMO:0000030)195122522151225222Human
406957851GWAS606827_Hplatelet crit QTL GWAS606827 (human)1e-10platelet critplateletcrit (CMO:0001349)195122522151225222Human
407334556GWAS983532_Hleukocyte count QTL GWAS983532 (human)9e-21leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)195122522151225222Human
1331657COPD9_HChronic obstructive pulmonary disease QTL 9 (human)1.94Chronic airflow obstructionpost-bronchodilator FEV1193102176057021760Human
407037917GWAS686893_Hmyeloid white cell count QTL GWAS686893 (human)3e-43myeloid white cell countwhite blood cell count (CMO:0000027)195122522151225222Human
407113435GWAS762411_Hleukocyte count QTL GWAS762411 (human)1e-32leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)195122522151225222Human
406947554GWAS596530_Hmyeloid cell surface antigen CD33 measurement QTL GWAS596530 (human)3e-1638myeloid cell surface antigen CD33 measurement195122522151225222Human
407248418GWAS897394_Hbasophil count QTL GWAS897394 (human)6e-11basophil quantity (VT:0002607)blood basophil count (CMO:0000034)195122522151225222Human
406892007GWAS540983_Hmyeloid cell surface antigen CD33 measurement QTL GWAS540983 (human)9e-445myeloid cell surface antigen CD33 measurement195122522151225222Human
407056877GWAS705853_Hbasophil count QTL GWAS705853 (human)1e-13basophil quantity (VT:0002607)blood basophil count (CMO:0000034)195122522151225222Human
407340137GWAS989113_Hhemoglobin A1 measurement QTL GWAS989113 (human)1e-23hemoglobin A1 measurement195122522151225222Human
407016435GWAS665411_Hneutrophil count QTL GWAS665411 (human)4e-19neutrophil quantity (VT:0000222)blood neutrophil count (CMO:0000030)195122522151225222Human
407210679GWAS859655_Hblood protein measurement QTL GWAS859655 (human)1e-12neutrophil quantity (VT:0000222)blood neutrophil count (CMO:0000030)195122522151225222Human
406937074GWAS586050_Hbasophil count QTL GWAS586050 (human)2e-12basophil quantity (VT:0002607)blood basophil count (CMO:0000034)195122522151225222Human
407193648GWAS842624_Hlymphocyte count QTL GWAS842624 (human)6e-14lymphocyte countblood lymphocyte count (CMO:0000031)195122522151225222Human
406936249GWAS585225_Hbasophil count QTL GWAS585225 (human)2e-14basophil quantity (VT:0002607)blood basophil count (CMO:0000034)195122522151225222Human
407305471GWAS954447_Hlymphocyte count QTL GWAS954447 (human)4e-30lymphocyte countblood lymphocyte count (CMO:0000031)195122522151225222Human


Additional Information

GWAS QTLs Related by Peak Marker
Data has come from the GWAS Catalog   
The highlighted row represents the current QTL
QTL GWAS Catalog Study Disease Trait Study Size Risk Allele Risk Allele Frequency P Value P Value MLOG Peak Marker Reported Odds Ratio or Beta-coefficient Ontology Accession PubMed
GWAS540983_H GCST90241989 Myeloid cell surface antigen CD33 levels (CD33.3166.92.1) 3,301 European ancestry individuals T 0.329 9E-445 444.046 rs12459419 0.94 myeloid cell surface antigen CD33 measurement (EFO:0008238)
 PMID:29875488
GWAS585225_H GCST90002292 Basophil count 474,001 European ancestry individuals T 0.322962 2E-14 13.699 rs12459419 0.016693 basophil count (EFO:0005090)
 PMID:32888493
GWAS586050_H GCST90002379 Basophil count 408,112 British individuals T 0.32389 2E-12 11.699 rs12459419 0.01665054 basophil count (EFO:0005090)
 PMID:32888494
GWAS589396_H GCST010900 Protein quantitative trait loci 394 European ancestry individuals ? NR 2E-77 76.699 rs12459419 N/A protein measurement (EFO:0004747)
 PMID:32492067
GWAS596530_H GCST90248431 Myeloid cell surface antigen CD33 levels 10,708 European ancestry individuals T 0.33 3E-1638 1637.523 rs12459419 0.937 myeloid cell surface antigen CD33 measurement (EFO:0008238)
 PMID:34648354
GWAS606827_H GCST004607 Plateletcrit 164,339 European ancestry individuals T 0.3243 1E-10 10 rs12459419 0.02507022 platelet crit (EFO:0007985)
 PMID:27863252
GWAS654490_H GCST90002351 Neutrophil count 519,288 European ancestry individuals T 0.322 7E-21 20.155 rs12459419 0.019244 neutrophil count (EFO:0004833)
 PMID:32888493
GWAS665411_H GCST90002355 Neutrophil count 627,215 African American or Afro-Caribbean, African ancestry, European ancestry, East Asian ancestry, Hispanic or Latin American and South Asian ancestry individuals T 0.299754 4E-19 18.398 rs12459419 N/A neutrophil count (EFO:0004833)
 PMID:32888493
GWAS686893_H GCST90002374 White blood cell count 562,243 European ancestry individuals T 0.321624 3E-43 42.523 rs12459419 0.027106 myeloid white cell count (EFO:0007988)
 PMID:32888493
GWAS705853_H GCST90002296 Basophil count 577,663 African American or Afro-Caribbean, African ancestry, European ancestry, East Asian ancestry, Hispanic or Latin American and South Asian ancestry individuals T 0.29798 1E-13 13 rs12459419 N/A basophil count (EFO:0005090)
 PMID:32888493
None Available GCST007074 Red cell distribution width approximately 445,000 European ancestry individuals ? NR 1E-8 8 rs12459419 N/A Red cell distribution width (EFO:0009188)
 PMID:30595370
GWAS755691_H GCST90002398 Neutrophil count 408,112 British individuals T 0.323911 5E-12 11.302 rs12459419 0.016417962 neutrophil count (EFO:0004833)
 PMID:32888494
GWAS762411_H GCST007070 White blood cell count approximately 444,000 European ancestry individuals ? NR 1E-32 32 rs12459419 N/A leukocyte count (EFO:0004308)
 PMID:30595370
GWAS765526_H GCST90002378 White blood cell count 746,667 African American or Afro-Caribbean, African ancestry, European ancestry, East Asian ancestry, Hispanic or Latin American and South Asian ancestry individuals T 0.290492 4E-42 41.398 rs12459419 N/A myeloid white cell count (EFO:0007988)
 PMID:32888493
GWAS770010_H GCST90002407 White blood cell count 408,112 British individuals T 0.323941 7E-30 29.155 rs12459419 0.026739044 leukocyte count (EFO:0004308)
 PMID:32888494
GWAS813522_H GCST90101334 Myeloid cell surface antigen CD33 levels 997 European ancestry individuals T NR 3E-165 164.523 rs12459419 1.133 myeloid cell surface antigen CD33 measurement (EFO:0008238)
 PMID:28240269
GWAS842624_H GCST90085815 Lymphocyte count 234,778 European ancestry individuals C 0.675 6E-14 13.222 rs12459419 N/A lymphocyte count (EFO:0004587)
 PMID:34469753
GWAS859655_H GCST90002052 CD45 on Immature Myeloid-Derived Suppressor Cells 1,555 Sardinian (founder/genetic isolate) ancestry individuals T 0.18228 1E-12 12 rs12459419 0.3509 blood protein measurement (EFO:0007937)
 PMID:32929287
GWAS885982_H GCST90029070 C-reactive protein levels 575,531 European ancestry individuals T NR 8E-21 20.097 rs12459419 0.02 C-reactive protein measurement (EFO:0004458)
 PMID:35459240
GWAS896608_H GCST90056178 Neutrophil count 234,802 European ancestry individuals C 0.675 2E-10 9.699 rs12459419 N/A neutrophil count (EFO:0004833)
 PMID:34469753
GWAS897394_H GCST90056179 Basophil count 234,678 European ancestry individuals C 0.675 6E-11 10.222 rs12459419 N/A basophil count (EFO:0005090)
 PMID:34469753
GWAS946266_H GCST90161642 Myeloid cell surface antigen CD33 levels 2,935 Qatari ancestry individuals T 0.20494 1E-291 291 rs12459419 1.231 myeloid cell surface antigen CD33 measurement (EFO:0008238)
 PMID:36168886
GWAS954137_H GCST90002316 Lymphocyte count 524,923 European ancestry individuals T 0.322084 8E-33 32.097 rs12459419 0.024063 lymphocyte count (EFO:0004587)
 PMID:32888493
GWAS954447_H GCST90002320 Lymphocyte count 643,370 African American or Afro-Caribbean, African ancestry, European ancestry, East Asian ancestry, Hispanic or Latin American and South Asian ancestry individuals T 0.29834 4E-30 29.398 rs12459419 N/A lymphocyte count (EFO:0004587)
 PMID:32888493
GWAS959142_H GCST90179146 C-reactive protein levels (MTAG) 575,531 European ancestry individuals T NR 1E-19 19 rs12459419 0.01976 C-reactive protein measurement (EFO:0004458)
 PMID:36376304
GWAS983532_H GCST90018978 White blood cell count 350,470 European ancestry individuals, 154,355 East Asian ancestry individuals T NR 9E-21 20.046 rs12459419 0.0204 leukocyte count (EFO:0004308)
 PMID:34594039
GWAS989113_H GCST90018958 Hemoglobin A1c levels 344,182 European ancestry individuals, 71,221 East Asian ancestry individuals T NR 1E-23 23 rs12459419 0.0223 hemoglobin A1 measurement (EFO:0007629)
 PMID:34594039
None Available GCST90018968 Neutrophil count 349,856 European ancestry individuals, 82,810 East Asian ancestry individuals T NR 1E-12 12 rs12459419 0.0165 neutrophil count (EFO:0004833)
 PMID:34594039
Database Acc Id Source(s)
GWAS Catalog GCST90002292 GWAS Catalog

RGD Curation Notes
Note Type Note Reference