IMPC Release Notes

IMPC
  • Release: 3.0
  • Published: 06 February 2015
Statistical Package
  • PhenStat
  • Version: 2.0.1
Genome Assembly
  • Mus musculus
  • Version: GRCm38
Summary
  • Number of phenotyped genes: 1,458
  • Number of phenotyped mutant lines: 1,528
  • Number of phenotype calls: 6,114

Data access

Highlights

Data release 3.0

In data release 3.0, we now have 1,456 mouse lines with phenotype data that has passed quality control. This is a marked increase since data release 2.0 and demonstrates the acceleration of data generation for the IMPC effort.

Statistical Analysis

The statistical analysis package used in data release 2.0 (PhenStat) has been updated to Version: 2.0.1.

Data Reports

Lines and Specimens

Phenotyping Center Mutant Lines Baseline Mice Mutant Mice
MRC Harwell 186 2,520 4,191
RBRC 13 523 244
NING 6 142 98
HMGU 86 818 1,429
ICS 65 675 1,007
WTSI 434 1,751 6,380
JAX 232 1,322 4,678
UC Davis 273 883 6,320
TCP 161 571 2,824
BCM 72 464 1,487

Experimental Data and Quality Checks

Data Type QC passed QC failed issues
categorical 3,935,293 0 3,426 *
unidimensional 2,782,486 3,724 * 38,737 *
time series 7,237,320 9 * 82 *
text 51,283 18,591 * 161 *
image record 106,682 0 0

* Excluded from statistical analysis.

Procedures

Allele Types

Mutation Name Mutant Lines
Targeted Mutation 2 5
Targeted Mutation d 1
Targeted Mutation 1 413
Targeted Mutation e 24
Targeted Mutation b 775
Targeted Mutation c 2
Targeted Mutation a 359

Mouse knockout programs: KOMP,EUCOMM,NCOM,IST12471H5

Distribution of Phenotype Annotations

Status

Overall

By Center

More charts and status information are available from iMits.

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
MRC HarwellBrowseIMPC_001
MRC HarwellBrowseHRWL_001
RBRCBrowseIMPC_001
NINGBrowseIMPC_001
HMGUBrowseIMPC_001
HMGUBrowseHMGU_001
ICSBrowseIMPC_001
ICSBrowseICS_001
WTSIBrowseMGP_001
JAXBrowseIMPC_001
JAXBrowseJAX_001
UC DavisBrowseUCD_001
TCPBrowseTCP_001
BCMBrowseIMPC_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

P-value distributions

Trends










Previous Releases