IMPC Release Notes

IMPC
  • Release: 4.3
  • Published: 26 April 2016
Statistical Package
  • PhenStat
  • Version: 2.2.0
Genome Assembly
  • Mus musculus
  • Version: GRCm38
Summary
  • Number of phenotyped genes: 2,432
  • Number of phenotyped mutant lines: 2,562
  • Number of phenotype calls: 21,667

Data access

Highlights

Data release 4.3

Data release 4.3 includes:
  • Include additional embryo data
  • Include additional viability data
  • Changes to the analysis of Auditory Brain Stem Response parameters. When statistical analysis is not appropriate for mixed model analysis, analysis will proceed using the Reference Range Plus method as described in the PhenStat user guide
  • Control group formation is split when specimen production centre is different from phenotyping centre

Data Reports

Lines and Specimens

Phenotyping Center Mutant Lines Baseline Mice Mutant Mice
JAX 429 3,636 12,248
NING 93 985 1,362
TCP 240 3,889 11,093
HMGU 126 1,277 2,189
MRC Harwell 309 2,983 7,331
RBRC 32 980 701
ICS 104 1,038 1,655
WTSI 611 2,664 13,944
BCM 143 1,426 4,817
UC Davis 476 1,370 10,520

Experimental Data and Quality Checks

Data Type QC passed QC failed issues
categorical 6,597,532 756 * 4,764 *
unidimensional 4,543,845 7,503 * 113,801 *
time series 9,077,104 128 * 80,403 *
text 89,429 14,625 * 17,159 *
image record 211,801 0 0

* Excluded from statistical analysis.

Procedures

Select all Deselect all

Allele Types

Mutation Name Mutant Lines
Targeted Mutation 1 737
Targeted Mutation a 433
Targeted Mutation b 1331
Targeted Mutation 2 5
Targeted Mutation c 2
Targeted Mutation d 1
Targeted Mutation e 44

Mouse knockout programs: KOMP,EUCOMM,NCOM,mirKO,IST12471H5

Distribution of Phenotype Annotations

Status

Overall

By Center

Select all Deselect all
Select all Deselect all

More charts and status information are available from iMits.

Select all Deselect all


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
JAXBrowseIMPC_001
JAXBrowseJAX_001
NINGBrowseIMPC_001
TCPBrowseTCP_001
HMGUBrowseIMPC_001
HMGUBrowseHMGU_001
MRC HarwellBrowseHRWL_001
RBRCBrowseIMPC_001
ICSBrowseIMPC_001
ICSBrowseICS_001
WTSIBrowseMGP_001
BCMBrowseIMPC_001
BCMBrowseBCM_001
UC DavisBrowseUCD_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




Select all Deselect all





Select all Deselect all



Previous Releases