MPD: Data set: Lyons3

Lyons3: Identification of QTLs to determine cholesterol levels in 129S1/SvImJ and RIIIS/J F2 intercross (2004)

Lyons MA, Korstanje R, Li R, Walsh KA, Churchill GA, Carey MC, Paigen B. Genetic contributors to lipoprotein cholesterol levels in an intercross of 129S1/SvImJ and RIIIS/J inbred mice. Physiol Genomics. 2004 Apr 13;17(2):114-21. PubMed 14872007

Lyons3 downloads
QTL projects have several available downloads.
Use the QTL Data Downloads button near the bottom of this page.

Ontology terms mapped to Lyons3 measures:

MA:0000356 gall bladder
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:0020131 abnormal gallbladder volume
VT:0000180 blood cholesterol amount
VT:0000181 blood LDL cholesterol amount
VT:0000184 blood HDL cholesterol amount
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	Korstanje R, Li R, Walsh KA, Carey MC, Paigen B
Contact	Gary A Churchill gary.churchill@jax.org
Affiliated Center	QTL Archive
Acknowledgements	Funding provided by NIH DK51568, DK36588, DK52911, DK34854, HL66611, CA34196; National Health and Medical Research Council of Australia (222913), American Physiological Society, American Liver Foundation
Project type	QTL Archive data set
MPD identifiers	Lyons3 MPD:146
Data changelog	No updates/corrections. Initial release date: 07/2011.

An intercross of NZB/BlNJ and SM/J was generated to identify cholesterol gallstone susceptibility loci. F2 progeny were administered a high-fat (15%) diet for 18 wks and examined for gallstone formation. Gallstones were characterized qualitatively and quantitatively. Mice were fasted prior to sample collection. For detailed protocols see Lyons et al 2005.

QTL data set parameters:

Progenitor strains	129S1/SvImJ RIIIS/J
Cross direction notation	(RIIIS x 129) F1 x (RIIIS x 129) F1; (129 x RIIIS) F1 x (129 x RIIIS) F1
Cross type	F2 reciprocal intercross
Population size	0 ♀ 330 ♂
Age	14-20wks

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)
Lyons3	histopathology	high-fat diet	weight of gallstones [mg] GS_wt 14601	QTL population	m	14-20wks	N=330

Lyons3	histopathology	high-fat diet	number of gallstones [n] GS_no 14602	QTL population	m	14-20wks	N=330

Lyons3	histopathology	high-fat diet	gallstone score (score 0=absent, 1=crystals only, 2=sandy or solid gallstones) [score] Score_1 14603	QTL population	m	14-20wks	N=330

Lyons3	histopathology	high-fat diet	cholesterol monohydrate crystals, aggregates (score 0=absence, 1-4=severity) [score] AggChM 14604	QTL population	m	14-20wks	N=330

Lyons3	histopathology	high-fat diet	solid gallstones (score 0=absence, 4=severity) [score] Solid 14605	QTL population	m	14-20wks	N=330

Lyons3	histopathology	high-fat diet	sandy gallstones (score 0=absence, 1-4=severity) [score] Sandy 14606	QTL population	m	14-20wks	N=330

Lyons3	histopathology	high-fat diet	gallbladder mucin accumulation (score 0-3) 0=no mucin;1-3= mucin accumulation severity [score] Mucin 14607	QTL population	m	14-20wks	N=330

Lyons3	organ dimensions	high-fat diet	gallbladder volume [μL] GB_vol 14608	QTL population	m	14-20wks	N=330

Lyons3	lipid profile	high-fat diet	total lipoprotein cholesterol [mg/dL] Tot_Chol 14609	QTL population	m	14-20wks	N=330

Lyons3	lipid profile	high-fat diet	HDL cholesterol [mg/dL] HDL 14610	QTL population	m	14-20wks	N=330

Lyons3	lipid profile	high-fat diet	nonHDL cholesterol level [mg/dL] Non-HDL 14611	QTL population	m	14-20wks	N=330

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:
Chol10 Chol11 Hdlq17 Hdlq18 Hdlq5 Hdlq6 Hdlq89 Hdlq90 Hdlq99 Nhdlq3 Pcho1

Project / data set: Lyons3 a.k.a. Lyons_2004
Excel file: Data_Description_RIIISx129_Lyons2004.xlsx
CSV file: Lyons2004_RIIISx129_B37_Data.csv
Readme / text file: readme_Lyons2004.txt
QC plots, figures, etc.: QCReport_Lyons2004.pdf