PRSTS432_H QTL Report (Homo sapiens) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
QTL Registration

QTL: PRSTS432_H (Prostate tumor susceptibility QTL 432 (human)) Homo sapiens

Symbol: PRSTS432_H
Name: Prostate tumor susceptibility QTL 432 (human)
RGD ID: 2301805
Trait: Prostate tumor susceptibility
LOD Score: HLOD: 1.73
P Value: 0.005
Variance: Not Available
Position
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh3783,065,621 - 29,065,621RGDGRCh37
Build 3683,109,992 - 29,109,992RGDNCBI36
Cross Type: Not Available
Population Stats: Subjects recruited from Brady Urology clinic at Johns Hopkins Hospital, Wake Forest University School of Medicine and asbestos workers



Candidate Gene Status
MSR1 is a candidate Gene for PRSTS432_H

Disease Annotations     Click to see Annotation Detail View

Phenotype Annotations     Click to see Annotation Detail View

Human Phenotype
References

References - curated
# Reference Title Reference Citation
1. Germline mutations and sequence variants of the macrophage scavenger receptor 1 gene are associated with prostate cancer risk. Xu J, etal., Nat Genet. 2002 Oct;32(2):321-5. Epub 2002 Sep 16.

Region

Markers in Region
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolExpected SizeChrStartStopSpeciesMatch
Position Markers

Peak: (D8S1135)
Human AssemblyChrPosition (strand)Source
GRCh37816,065,453 - 16,065,790UniSTS
Build 36816,109,824 - 16,110,161RGD
Celera815,029,985 - 15,030,314RGD
Cytogenetic Map5q31UniSTS
HuRef814,610,034 - 14,610,363UniSTS
HuRef5128,514,287 - 128,515,559UniSTS
Whitehead-RH Map859.5UniSTS
Whitehead-YAC Contig Map8 UniSTS
NCBI RH Map8169.0UniSTS


Additional Information

RGD Curation Notes
Note Type Note Reference
qtl_general Actual test parameter was the presence of a polymorphism in or near MSR1, which was sequenced in all subjects, frequency of MSR1 polymorphisms was also higher in non-HPC patients, considered separately (P < 0.009) 2301543
qtl_population Subjects recruited from Brady Urology clinic at Johns Hopkins Hospital, Wake Forest University School of Medicine and asbestos workers 2301543
qtl_population_details Mostly (~80%) men of European descent, some African Americans, three first degree relatives affected (HPC), total of 764 affected, also a group of 335 non-HPC patients and equal numbers of case controls 2301543
qtl_statistics HLOD: 1.73 2301543
qtl_statistics_details Software used: GENEHUNTER, heterogeneity LOD score was more significant than other LOD or Z scores, which were also signficant (p<0.05) 2301543