Previous IMPC Data Release 3.3 Notes

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IMPC

  • Release: 3.3
  • Published: 25 August 2015

Statistical Package

  • PhenStat
  • Version: 2.2.0

Genome Assembly

  • Mus musculus
  • Version: GRCm38

Summary

  • Number of phenotyped genes: 1,466
  • Number of phenotyped mutant lines: 1,537
  • Number of phenotype calls: 6,278

Data access

Highlights

Data release 3.3

Release notes: Represents a minor data release. Changes include:
  • Addition of more viability data

Data Reports

Lines and Specimens

Phenotyping Center Mutant Lines Baseline Mice Mutant Mice
JAX 231 1,322 4,658
NING 13 142 196
TCP 165 571 2,903
HMGU 86 818 1,429
MRC Harwell 186 2,520 4,191
RBRC 13 523 244
ICS 65 675 1,007
WTSI 434 1,751 6,380
BCM 72 435 1,487
UC Davis 272 883 6,133

Experimental Data and Quality Checks

Data Type QC passed QC failed issues
categorical 3,956,543 0 3,426 *
unidimensional 2,981,261 3,726 * 39,065 *
time series 7,383,933 9 * 77,684 *
text 51,597 18,591 * 161 *
image record 107,044 0 0

* Excluded from statistical analysis.

Procedures

Allele Types

Mutation Name Mutant Lines
Targeted Mutation a 346
Targeted Mutation 1 431
Targeted Mutation b 779
Targeted Mutation 2 5
Targeted Mutation c 2
Targeted Mutation d 1
Targeted Mutation e 24

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

Distribution of Phenotype Annotations

Status

Overall

By Center

More charts and status information are available from iMits.

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
JAXBrowseIMPC_001
JAXBrowseJAX_001
NINGBrowseIMPC_001
TCPBrowseTCP_001
HMGUBrowseIMPC_001
HMGUBrowseHMGU_001
MRC HarwellBrowseIMPC_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

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