IMPC
- Release: 4.0
- Published: 20 October 2015
Statistical Package
- PhenStat
- Version: 2.2.0
Genome Assembly
- Mus musculus
- Version: GRCm38
Summary
- Number of phenotyped genes: 2,218
- Number of phenotyped mutant lines: 2,340
- Number of phenotype calls: 12,159
Data access
- Ftp site: ftp://ftp.ebi.ac.uk/pub/databases/impc/release-4.0
- RESTful interfaces: APIs
Highlights
Data release 4.0
Data Reports
Lines and Specimens
Phenotyping Center | Mutant Lines | Baseline Mice | Mutant Mice |
---|---|---|---|
JAX | 390 | 2,495 | 9,309 |
NING | 65 | 734 | 943 |
TCP | 228 | 3,669 | 9,239 |
HMGU | 102 | 1,134 | 1,791 |
MRC Harwell | 286 | 2,905 | 6,757 |
RBRC | 26 | 859 | 578 |
ICS | 99 | 1,001 | 1,521 |
WTSI | 588 | 2,632 | 13,519 |
BCM | 129 | 815 | 3,170 |
UC Davis | 427 | 1,249 | 9,427 |
Experimental Data and Quality Checks
Data Type | QC passed | QC failed | issues |
---|---|---|---|
categorical | 5,827,451 | 756 * | 4,544 * |
unidimensional | 4,399,848 | 7,342 * | 105,213 * |
time series | 8,721,563 | 116 * | 81,063 * |
text | 81,962 | 13,970 * | 15,690 * |
image record | 186,464 | 0 | 0 |
* Excluded from statistical analysis.
Procedures
Allele Types
Mutation | Name | Mutant Lines |
---|---|---|
Targeted Mutation | a | 433 |
Targeted Mutation | 1 | 648 |
Targeted Mutation | b | 1196 |
Targeted Mutation | 2 | 5 |
Targeted Mutation | c | 2 |
Targeted Mutation | d | 1 |
Targeted Mutation | e | 40 |
Mouse knockout programs: KOMP,EUCOMM,NCOM,mirKO,IST12471H5
Distribution of Phenotype Annotations
Status
Overall
Phenotype Associations
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 |
NING | Browse | IMPC_001 |
TCP | Browse | TCP_001 |
HMGU | Browse | IMPC_001 |
HMGU | Browse | HMGU_001 |
MRC Harwell | Browse | HRWL_001 |
RBRC | Browse | IMPC_001 |
ICS | Browse | IMPC_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 |