Farmer1: QTL analysis of colitis severity in IL-10-deficient mice (2001)

Farmer MA, Sundberg JP, Bristol IJ, Churchill GA, Li R, Elson CO, Leiter EH. A major quantitative trait locus on chromosome 3 controls colitis severity in IL-10-deficient mice. Proc Natl Acad Sci U S A. 2001 Nov 20;98(24):13820-5. Epub 2001 Nov 13.   PubMed 11707574     FullText


       
A reciprocal intercross of C3H/HeJBir and C57BL/6J was generated to identify the QTLs of the colitis susceptibility modifiers (Cdcs). 411 F2 (201 female +210 male) IL-10-deficient mice were genotyped and necropsied at 6 weeks of age. Many of colitis-related phenotypes were measured and a major contributed QTL was identified on chromosome 3. For detailed protocols see Farmer et al 2001.

Note on studied population: IL-10-deficient mice

Procedures conducted:
• study archive  Colitis susceptibility, severity. Colon histopathology, body and spleen weight.

Farmer1 downloads
QTL projects have several available downloads.
Use the QTL Data Downloads button near the bottom of this page.
Ontology terms mapped to Farmer1 measures:
  MA:0000059   blood
  MA:0000141   spleen
  MA:0000335   colon
  MA:0002502   serum
  MA:0002509   feces
  MA:0002829   mesenteric lymph node
  MP:0000701   abnormal lymph node size
  MP:0001259   abnormal body weight
  MP:0001845   abnormal inflammatory response
  MP:0002458   abnormal B cell number
  MP:0003868   abnormal feces composition
  MP:0004951   abnormal spleen weight
  MP:0008073   abnormal CD4-positive, alpha beta T cell number
  MP:0008077   abnormal CD8-positive, alpha-beta T cell number
  MP:0008616   abnormal circulating interleukin-12 level
  MP:0020171   abnormal IgA level
  MP:0020174   abnormal IgG level
  MP:0020176   abnormal IgG2a level
  MP:0020201   abnormal granulocyte number
  MP:0020202   abnormal macrophage cell number
  VT:0000334   granulocyte quantity
  VT:0001259   body mass
  VT:0001664   digestion trait
  VT:0001805   blood immunoglobulin G amount
  VT:0001807   blood immunoglobulin A amount
  VT:0002458   B cell quantity
  VT:0004951   spleen mass
  VT:0005425   macrophage quantity
  VT:0008073   CD4-positive T cell quantity
  VT:0008077   CD8-positive T cell quantity
  VT:0008215   immature B cell quantity
  VT:0008466   mesenteric lymph node size trait
  VT:0008496   blood immunoglobulin G2a amount
  VT:0008616   blood interleukin-12 amount
  VT:0010139   immune response trait

Investigators M A Farmer
Gary A Churchill       The Jackson Laboratory,  Bar Harbor, ME
Participants Sundberg JP, Bristol IJ, Li R, Elson CO, Leiter EH
ContactGary A Churchill     gary.churchill@jax.org
Affiliated CenterQTL Archive
AcknowledgementsGrant: This work was supported by National Institutes of Health Grant PPG-44240.Institutional shared ser vices (The Jackson Laborator y) were supported by National Cancer Institute Cancer Center Support Grant CA-34196.
Project type QTL Archive data set
MPD identifiersFarmer1     MPD:113
Data changelog No updates/corrections.       Initial release date: 05/2011.
QTL data set parameters:
Progenitor strains B6.Il10-/-     C3H.Il10-/-    
Cross direction notation(C3H x B6) F1 x (C3H x B6) F1; (B6 x C3H) F1 x (B6 x C3H) F1
Cross typeF2 reciprocal intercross
Population size 201 ♀     210 ♂
Age6wks


Measured phenotypes:       To access these data use the QTL Data Downloads button at bottom of page.
Select table page: First Prev 1 - 10 / 39 (39) Next Last
Data set
Procedure / Protocol
Treatment
Phenotype Measure / Variable (click to view)
Panel
No. of Strains
Sex
Age
Sample Size (Avg)
Farmer1 histopathology (none) severity of lesions in cecum   [score]  CecumSeverity   11301 QTL population both 6wks N=206
Farmer1 histopathology (none) hyperplasia of cecum   [score]  CecumHyperplasia   11302 QTL population both 6wks N=206
Farmer1 histopathology (none) ulceration in cecum   [score]  CecumUlceration   11303 QTL population both 6wks N=206
Farmer1 histopathology (none) percentage of cecum damaged area   [%]  CecumDA   11304 QTL population both 6wks N=206
Farmer1 histopathology (none) sum of cecum severity, hyperplasia, ulceration and damaged area scores   [score]  CecumTotalScore   11305 QTL population both 6wks N=206
Farmer1 histopathology (none) percentage of proximal colon damaged area   [%]  ProxDA   11306 QTL population both 6wks N=206
Farmer1 histopathology (none) severity of lesions in proximal colon   [score]  ProxSeverity   11307 QTL population both 6wks N=206
Farmer1 histopathology (none) hyperplasia of proximal colon   [score]  ProxHyperplasia   11308 QTL population both 6wks N=206
Farmer1 histopathology (none) ulceration in proximal colon   [score]  ProxUlceration   11309 QTL population both 6wks N=206
Farmer1 histopathology (none) percentage of damaged area in mid colon   [%]  MidDA   11310 QTL population both 6wks N=206
To see more rows use the paging control at top.

Associated genomic features
MGI-curated QTL / genomic features that have been associated with this data set:
Cdcs1   Cdcs2   Cdcs3   Cdcs4   Cdcs5   Cdcs6  


Project / data set:   Farmer1     a.k.a. Farmer_2001
Excel file:   Data_Description_C3HxB6_Farmer2001.xlsx
CSV file:   Farmer2001_C3HxB6_B37_Data.csv
Readme / text file:   readme_Farmer2001.txt
QC plots, figures, etc.:   QCReport_Farmer2001.pdf