MPD: Data set: Lyons2

Lyons2: Gallstone susceptibility in F2 progeny of 129S1/SvImJ and CAST/EiJ (2003)

References (chronological)

1. Lyons MA, Wittenburg H, Li R, Walsh KA, Leonard MR, Churchill GA, Carey MC, Paigen B. New quantitative trait loci that contribute to cholesterol gallstone formation detected in an intercross of CAST/Ei and 129S1/SvImJ inbred mice. Physiol Genomics. 2003 Aug 15;14(3):225-39. PubMed 12837957

2. Lyons MA, Wittenburg H, Li R, Walsh KA, Korstanje R, Churchill GA, Carey MC, Paigen B. Quantitative trait loci that determine lipoprotein cholesterol levels in an intercross of 129S1/SvImJ and CAST/Ei inbred mice. Physiol Genomics. 2004 Mar 12;17(1):60-8. PubMed 14701919

3. Li R, Lyons MA, Wittenburg H, Paigen B, Churchill GA. Combining data from multiple inbred line crosses improves the power and resolution of quantitative trait loci mapping. Genetics. 2005 Mar;169(3):1699-709. Epub 2005 Jan 16. PubMed 15654110 FullText

Lyons2 downloads
QTL projects have several available downloads.
Use the QTL Data Downloads button near the bottom of this page.

Ontology terms mapped to Lyons2 measures:

MA:0000356 gall bladder
MA:0000358 liver
MA:0002501 plasma
MA:0002513 bile
MP:0000180 abnormal circulating cholesterol level
MP:0000181 abnormal circulating LDL cholesterol level
MP:0000184 abnormal circulating HDL cholesterol level
MP:0004773 abnormal bile composition
MP:0004847 abnormal liver weight
MP:0020131 abnormal gallbladder volume
VT:0000180 blood cholesterol amount
VT:0000181 blood LDL cholesterol amount
VT:0000184 blood HDL cholesterol amount
VT:0003402 liver mass
VT:0005084 gall bladder morphology trait
VT:0005675 gall bladder size trait

Investigators	M A Lyons Gary A Churchill The Jackson Laboratory, Bar Harbor, ME
Participants	Wittenburg H, Li R, Walsh KA, Korstanje R, Carey MC, Paigen B
Contact	Gary A Churchill gary.churchill@jax.org
Affiliated Center	QTL Archive
Acknowledgements	This work was supported in part by National Institute Health Grants DK-51568 (to B. Paigen), DK-36588, DK-52911, and DK-34854 (to M. C. Carey), and CA-34196 (core grant to the Jackson Laboratory). M. A. Lyons was supported by the American Physiological Society and the American Liver Foundation.
Project type	QTL Archive data set
MPD identifiers	Lyons2 MPD:131
Data changelog	No updates/corrections. Initial release date: 01/2008.

To determine the genetic contribution to variation among cholesterol levels, an F2 intercross between RIIIS/J and 129S1/SvImJ strains was generated. 330 male mice from F2 population were fed an atherogenic (high-fat) diet for 8-12 wks. The total plasma, HDL and non-HDL were determined at the end of feeding period and some significant QTLs were identified in these phenotypes. For detailed protocols see Lyons et al 2004.

QTL data set parameters:

Progenitor strains	129S1/SvImJ CAST/EiJ
Cross direction notation	(CASTx129) F1 x (CASTx129) F1; (129xCAST) F1 x (129xCAST) F1
Cross type	F2 intercross
Population size	0 ♀ 277 ♂
Age	16-18wks

Measured phenotypes: To access these data use the QTL Data Downloads button at bottom of page.

Data set	Procedure / Protocol	Treatment	Phenotype Measure / Variable (click to view)	Panel	Sex	Age	Sample Size (Avg)
Lyons2	organ weights	high-fat diet	liver weight [g] liver_wt 13101	QTL population	m	16-18wks	N=277

Lyons2	organ weights	high-fat diet	liver-to-bw ratio [ratio] liver_bw_ratio 13102	QTL population	m	16-18wks	N=277

Lyons2	organ dimensions	high-fat diet	gallbladder, volume [µL] gallbladder_vol 13103	QTL population	m	16-18wks	N=277

Lyons2	histopathology	high-fat diet	gallbladder, mucin (score 0-4) [score] gallbladder_mucin 13104	QTL population	m	16-18wks	N=277

Lyons2	histopathology	high-fat diet	gallbladder bile characteristics (score 0=no crystals, 1=crystals present, 2=solid or sandy gallstones present) [score] bile_score 13105	QTL population	m	16-18wks	N=277

Lyons2	histopathology	high-fat diet	cholesterol monohydrate crystals (score 0=absent, 1-4=increasing severity) [score] gallstone_crystals 13106	QTL population	m	16-18wks	N=277

Lyons2	histopathology	high-fat diet	sandy gallstones (score 0=absence, 1-4=severity) [score] gallstone_sandy 13107	QTL population	m	16-18wks	N=277

Lyons2	histopathology	high-fat diet	solid gallstones (score 0=absence, 1-5=severity) [score] gallstone_solid 13108	QTL population	m	16-18wks	N=277

Lyons2	histopathology	high-fat diet	number of solid gallstones [n] gallstone_count 13109	QTL population	m	16-18wks	N=277

Lyons2	histopathology	high-fat diet	weight of solid gallstones [mg] gallstone_weight 13110	QTL population	m	16-18wks	N=277

Lyons2	lipid profile	high-fat diet	HDL cholesterol (plasma) [mg/dL] HDL 13111	QTL population	m	16-18wks	N=277

Lyons2	lipid profile	high-fat diet	non-HDL cholesterol (plasma) [mg/dL] nonHDL 13112	QTL population	m	16-18wks	N=277

Lyons2	lipid profile	high-fat diet	total cholesterol (plasma), log transformed [log(mg/dL)] chol 13113	QTL population	m	16-18wks	N=277

Lyons2	histopathology	high-fat diet	solid gallstones, presence (score 0=absent, 1=present) [score] Solid 13114	QTL population	m	16-18wks	N=277

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:
Chol7 Chol8 Chol9 Gbvq1 Hdlq10 Hdlq13 Hdlq5 Hdlq67 Lch Lch2 Lith12 Lith13 Lith14 Lith25 Lith6 Nhdlq1 Nhdlq2

Project / data set: Lyons2 a.k.a. Lyons_2003b
Excel file: ._Data_Description_CASTx129_Lyons2003.xlsx
Excel file: Data_Description_CASTx129_Lyons2003b.xlsx
CSV file: ._Lyons2003_CASTx129_B37_Data.csv
CSV file: Lyons2003b_CASTx129_B37_Data.csv
Readme / text file: ._readme.txt
Readme / text file: readme_Lyons2003b.txt
QC plots, figures, etc.: QCReport_Lyons2003b.pdf