IMPC
- Release: 6.1
- Published: 03 December 2017
Statistical Package
- PhenStat
- Version: 2.14.0
Genome Assembly
- Mus musculus
- Version: GRCm38
Summary
- Number of phenotyped genes: 4,364
- Number of phenotyped mutant lines: 4,745
- Number of phenotype calls: 52,656
Data access
- Ftp site: ftp://ftp.ebi.ac.uk/pub/databases/impc/release-6.1
- RESTful interfaces: APIs
Highlights
Data release 6.1
- New data from the 3i project
- A fix to strain nomenclature for some legacy lines
Data Reports
Lines and Specimens
Phenotyping Center | Mutant Lines | Baseline Mice | Mutant Mice |
---|---|---|---|
JAX | 920 | 5,742 | 24,912 |
TCP | 443 | 5,891 | 19,740 |
HMGU | 227 | 2,264 | 4,156 |
KMPC | 24 | 408 | 510 |
MARC | 235 | 1,880 | 3,776 |
MRC Harwell | 449 | 4,341 | 11,359 |
RBRC | 71 | 1,674 | 1,509 |
ICS | 170 | 1,861 | 2,682 |
WTSI | 1,024 | 3,386 | 16,829 |
BCM | 403 | 1,207 | 12,839 |
UC Davis | 779 | 2,651 | 18,163 |
Experimental Data and Quality Checks
Data Type | QC passed | QC failed | issues |
---|---|---|---|
categorical | 11,129,868 | 3,389 * | 14,775 * |
unidimensional | 8,150,815 | 24,321 * | 188,283 * |
time series | 12,002,305 | 2,393 * | 0 |
text | 143,004 | 11,431 * | 34,141 * |
image record | 315,223 | 0 | 0 |
* Excluded from statistical analysis.
Procedures
Allele Types
Mutation | Name | Mutant Lines |
---|---|---|
Targeted Mutation | a | 1156 |
Targeted Mutation | 1 | 1113 |
Targeted Mutation | b | 2235 |
Targeted Mutation | 2 | 6 |
Targeted Mutation | c | 2 |
Targeted Mutation | d | 2 |
Targeted Mutation | e | 76 |
Mouse knockout programs: RRG305,FLP1,mirKO,EUCJ0019c12,IST12471H5,EUCJ0004f10,W096D02,EUCJ0079d10,YHD437,RRR454,Thy1-MAPT*P301S,pT1Betageo,RRH308,KOMP,CB0226,M076C04,EUC0047a08,NCC,EUC0050e03,EUC0027g03,XG716,EUCE0233a03,IMPC,RRJ142,EUCOMM,NCOM,YTC001,XG510,EUC0054a05
Phenotype Associations Overview
We provide a 'phenome' overview of statistically significant calls. By following the links below, you'll access the details of the phenotype calls for each center.
Phenotyping Center | Significant MP Calls | Pipeline |
---|---|---|
JAX | Browse | IMPC_001 |
JAX | Browse | JAX_001 |
TCP | Browse | TCP_001 |
HMGU | Browse | IMPC_001 |
HMGU | Browse | HMGU_001 |
KMPC | Browse | IMPC_001 |
MARC | Browse | IMPC_001 |
MRC Harwell | Browse | HRWL_001 |
ICS | Browse | ICS_001 |
WTSI | Browse | MGP_001 |
BCM | Browse | IMPC_001 |
BCM | Browse | BCM_001 |
UC Davis | Browse | UCD_001 |
Statistical Analysis
Statistical Methods
Data | Statistical Method |
---|---|
categorical | Fisher's exact test |
unidimensional | Wilcoxon rank sum test with continuity correction |
unidimensional | Mixed Model framework, generalized least squares, equation withoutWeight |
unidimensional | Mixed Model framework, linear mixed-effects model, equation withoutWeight |