MPD: Data set: CGDpheno3

Lenarcic AB, Svenson KL, Churchill GA, Valdar W. A general Bayesian approach to analyzing diallel crosses of inbred strains. Genetics. 2012 Feb;190(2):413-35. PubMed 22345610 FullText

CGDpheno3 downloads
• Download CGDpheno3 project data set animal data, as uploaded
• Download CGDpheno3 animal data matrix with factor-related expansion applied as necessary
• Download CGDpheno3 strain means, SD, N, etc. one row per strain/sex/measure

Ontology terms mapped to CGDpheno3 measures:

MA:0000009 adipose tissue
MA:0000010 cardiovascular system
MA:0000059 blood
MA:0000072 heart
MA:0001459 bone
MA:0002501 plasma
MP:0000180 abnormal circulating cholesterol level
MP:0000184 abnormal circulating HDL cholesterol level
MP:0000188 abnormal circulating glucose level
MP:0000217 abnormal leukocyte cell number
MP:0000226 abnormal mean corpuscular volume
MP:0000230 abnormal systemic arterial blood pressure
MP:0000717 abnormal lymphocyte cell number
MP:0001259 abnormal body weight
MP:0001586 abnormal erythrocyte cell number
MP:0001588 abnormal hemoglobin
MP:0001589 abnormal mean corpuscular hemoglobin
MP:0001629 abnormal heart rate
MP:0002089 abnormal postnatal growth/weight/body size
MP:0002586 abnormal platelet volume
MP:0002596 abnormal hematocrit
MP:0002602 abnormal eosinophil cell number
MP:0003795 abnormal bone structure
MP:0003897 abnormal ST segment
MP:0003898 abnormal QRS complex
MP:0003899 abnormal QT interval
MP:0003901 abnormal PR interval
MP:0003956 abnormal body size
MP:0003959 abnormal lean body mass
MP:0005457 abnormal percent body fat/body weight
MP:0005640 abnormal mean corpuscular hemoglobin concentration
MP:0008849 abnormal hemoglobin concentration distribution width
MP:0010066 abnormal red blood cell distribution width
MP:0010119 abnormal bone mineral density
MP:0010122 abnormal bone mineral content
MP:0010504 abnormal RR interval
MP:0010695 abnormal blood pressure regulation
MP:0011898 abnormal platelet cell number
MP:0011913 abnormal reticulocyte cell number
MP:0011918 abnormal PQ interval
MP:0011919 abnormal R wave
MP:0011969 abnormal circulating triglyceride level
MP:0012321 abnormal total tissue mass
MP:0012360 abnormal large unstained cell number
MP:0012397 abnormal nucleated erythrocyte cell number
MP:0012440 abnormal neutrophil cell number
MP:0012441 abnormal monocyte cell number
MP:0012442 abnormal basophil cell number
VT:0000180 blood cholesterol amount
VT:0000183 blood pressure trait
VT:0000184 blood HDL cholesterol amount
VT:0000188 blood glucose amount
VT:0000217 leukocyte quantity
VT:0000222 neutrophil quantity
VT:0000223 monocyte quantity
VT:0000231 heart excitatory physiology trait
VT:0000248 erythrocyte size trait
VT:0000717 lymphocyte quantity
VT:0001259 body mass
VT:0001586 erythrocyte quantity
VT:0001588 blood hemoglobin amount
VT:0002447 erythrocyte morphology trait
VT:0002602 eosinophil quantity
VT:0002607 basophil quantity
VT:0002644 blood triglyceride amount
VT:0003135 reticulocyte quantity
VT:0003179 platelet quantity
VT:0004152 blood iron amount
VT:0005007 bone mineral mass
VT:0005452 adipose amount
VT:0010003 bone morphology trait
VT:0010457 platelet size trait
VT:0010482 body fat mass
VT:0010483 body lean mass
VT:0100005 body size trait
VT:2000009 heart pumping trait

Institutional authorship	Center for Genome Dynamics (CGD) Lab web site
Investigators	Karen L Svenson The Jackson Laboratory, Bar Harbor, ME
Participants	Svenson KL, Lenarcic AB, Churchill GA, Valdar W
Contact	Karen L Svenson karen.svenson@jax.org Lab web site
Acknowledgements	Partial support from the National Institutes of Health (NIH) Center of Excellence in Genome Sciences grants P50 MH090338 and P50 MH006582, from NIH grant GM076468, from The Jackson Laboratory, and from the University of North Carolina Lineberger Comprehensive Cancer Center.
Project type	Phenotype strain survey data set
MPD identifiers	CGDpheno3 MPD:439
Data changelog	No updates/corrections. Initial release date: 12/2012.
Formatted citation	Click above to copy-paste the entire citation for this MPD web page.

An assessment of F1 hybrids bred from the 8 CC founder strains. Data for the founder strains are also present.

Procedures conducted:

• metabolic panel		Glucose (plasma). 4h fast.
• lipid profile		Cholesterol, HDL, triglycerides. 4h fast, plasma.
• complete blood count		Hematology.
• tail cuff		Heart rate and blood pressure. Conscious mice.
• ECG		Wave amplitudes and intervals. Conscious.
• DXA		Body mass, fat mass, lean mass, bone mineral density and content, bone area.
• body weight

Sort/ Pick	Data set	Procedure / Protocol	Treatment	Phenotype Measure / Variable (click to view)	Panel	No. of Strains	Sex	Age	Sample Size (Avg)
CGDpheno3:1	CGDpheno3	metabolic panel	(none)	glucose (plasma GLU, 4h fast) [mg/dL] GLU 43901	CC diallel w/par	62	both	8wks	N=5

CGDpheno3:2	CGDpheno3	lipid profile	(none)	total cholesterol (plasma CHOL) [mg/dL] CHOL 43902	CC diallel w/par	62	both	8wks	N=5

CGDpheno3:3	CGDpheno3	lipid profile	(none)	HDL cholesterol (plasma HDL) [mg/dL] HDL 43903	CC diallel w/par	62	both	8wks	N=5

CGDpheno3:4	CGDpheno3	lipid profile	(none)	triglycerides (plasma TG, 4h fast) [mg/dL] TG 43904	CC diallel w/par	62	both	8wks	N=5

CGDpheno3:5	CGDpheno3	complete blood count	(none)	red blood cell count (RBC; per volume x 10⁶) [n/µL] RBC 43905	CC diallel w/par	62	both	7wks	N=5

CGDpheno3:6	CGDpheno3	complete blood count	(none)	white blood cell count (WBC; per volume x 10³) [n/µL] WBC 43906	CC diallel w/par	62	both	7wks	N=5

CGDpheno3:7	CGDpheno3	complete blood count	(none)	lymphocyte differential (LYM; percentage of total WBC) [%] pctLYMP 43907	CC diallel w/par	62	both	7wks	N=5

CGDpheno3:8	CGDpheno3	complete blood count	(none)	neutrophil differential (NEUT; percentage of total WBC) [%] pctNEUT 43908	CC diallel w/par	62	both	7wks	N=5

CGDpheno3:9	CGDpheno3	complete blood count	(none)	monocyte differential (MONO; percentage of total WBC) [%] pctMONO 43909	CC diallel w/par	62	both	7wks	N=5

CGDpheno3:10	CGDpheno3	complete blood count	(none)	basophil differential (BASO; percentage of total WBC) [%] pctBASO 43910	CC diallel w/par	62	both	7wks	N=5

CGDpheno3:11	CGDpheno3	complete blood count	(none)	eosinophil differential (EOS; percentage of total WBC) [%] pctEOS 43911	CC diallel w/par	62	both	7wks	N=5

CGDpheno3:12	CGDpheno3	complete blood count	(none)	large unstained cells (LUC; percentage of total WBC) [%] pctLUC 43912	CC diallel w/par	62	both	7wks	N=5

CGDpheno3:13	CGDpheno3	complete blood count	(none)	reticulocyte differential (Retic; percentage of total RBC) [%] pctRetic 43913	CC diallel w/par	62	both	7wks	N=5

CGDpheno3:14	CGDpheno3	complete blood count	(none)	RBC corpuscular distribution width (RDW) [%] RDW 43914	CC diallel w/par	62	both	7wks	N=5

CGDpheno3:15	CGDpheno3	complete blood count	(none)	mean RBC corpuscular volume (MCV) [fL] MCV 43915	CC diallel w/par	62	both	7wks	N=5

CGDpheno3:16	CGDpheno3	complete blood count	(none)	mean RBC corpuscular hemoglobin conent (MCH) [pg] MCH 43916	CC diallel w/par	62	both	7wks	N=5

CGDpheno3:17	CGDpheno3	complete blood count	(none)	mean RBC corpuscular hemoglobin concentration (MCHC) [g/dL] MCHC 43917	CC diallel w/par	62	both	7wks	N=5

CGDpheno3:18	CGDpheno3	complete blood count	(none)	RBC corpuscular hemoglobin concentration mean (CHCM) [g/dL] CHCM 43918	CC diallel w/par	62	both	7wks	N=5

CGDpheno3:19	CGDpheno3	complete blood count	(none)	hemoglobin concentration distribution width (HDW) [g/dL] HDW 43919	CC diallel w/par	62	both	7wks	N=5

CGDpheno3:20	CGDpheno3	complete blood count	(none)	measured hemoglobin (HGB) [g/dL] mHGB 43920	CC diallel w/par	62	both	7wks	N=5

CGDpheno3:21	CGDpheno3	complete blood count	(none)	calculated hemoglobin (HGB) [g/dL] cHGB 43921	CC diallel w/par	62	both	7wks	N=5

CGDpheno3:22	CGDpheno3	complete blood count	(none)	hematocrit (HCT) [%] HCT 43922	CC diallel w/par	62	both	7wks	N=5

CGDpheno3:23	CGDpheno3	complete blood count	(none)	platelet count (PLT; units per volume x 10³) [n/µL] PLT 43923	CC diallel w/par	62	both	7wks	N=5

CGDpheno3:24	CGDpheno3	complete blood count	(none)	mean platelet volume (MPV) [fL] MPV 43924	CC diallel w/par	62	both	7wks	N=5

CGDpheno3:25	CGDpheno3	tail cuff	(none)	systolic blood pressure [mmHg] systolic_BP 43925	CC diallel w/par	24	both	10wks	N=4

CGDpheno3:26	CGDpheno3	tail cuff	(none)	pulse rate [n/min] pulse 43926	CC diallel w/par	24	both	10wks	N=4

CGDpheno3:27	CGDpheno3	ECG	(none)	heart rate [n/min] HR 43927	CC diallel w/par	42	both	12wks	N=5

CGDpheno3:28	CGDpheno3	ECG	(none)	coefficient of variance, heart rate [%] CV 43928	CC diallel w/par	42	both	12wks	N=5

CGDpheno3:29	CGDpheno3	ECG	(none)	R-wave amplitude [mV] R_amplitude 43929	CC diallel w/par	42	both	12wks	N=5

CGDpheno3:30	CGDpheno3	ECG	(none)	R plus S-wave amplitude [mV] RS_amplitude 43930	CC diallel w/par	42	both	12wks	N=5

CGDpheno3:31	CGDpheno3	ECG	(none)	interval between R-waves (RR) [ms] RR 43931	CC diallel w/par	42	both	12wks	N=5

CGDpheno3:32	CGDpheno3	ECG	(none)	interval between peak of P-wave to Q-wave (PQ) [ms] PQ 43932	CC diallel w/par	42	both	12wks	N=5

CGDpheno3:33	CGDpheno3	ECG	(none)	interval between peak of P-wave to R-wave (PR) [ms] PR 43933	CC diallel w/par	42	both	12wks	N=5

CGDpheno3:34	CGDpheno3	ECG	(none)	interval between beginning and end of QRS complex [ms] QRS 43934	CC diallel w/par	42	both	12wks	N=5

CGDpheno3:35	CGDpheno3	ECG	(none)	interval between peak of Q-wave to end of T-wave (QT) [ms] QT 43935	CC diallel w/par	42	both	12wks	N=5

CGDpheno3:36	CGDpheno3	ECG	(none)	rate-corrected QT interval [ms] QTc 43936	CC diallel w/par	42	both	12wks	N=5

CGDpheno3:37	CGDpheno3	ECG	(none)	difference between smallest and largest QT interval [ms] QT_dispersion 43937	CC diallel w/par	42	both	12wks	N=5

CGDpheno3:38	CGDpheno3	ECG	(none)	difference between smallest and largest rate-corrected QT interval [ms] QTc_dispersion 43938	CC diallel w/par	42	both	12wks	N=5

CGDpheno3:39	CGDpheno3	ECG	(none)	interval between S-wave and end of T-wave (ST) [ms] ST 43939	CC diallel w/par	42	both	12wks	N=5

CGDpheno3:40	CGDpheno3	DXA	(none)	whole body bone mineral density (BMD) [g/cm²] BMD 43940	CC diallel w/par	62	both	16wks	N=5

CGDpheno3:41	CGDpheno3	DXA	(none)	whole body bone mineral content (BMC) [g] BMC 43941	CC diallel w/par	62	both	16wks	N=5

CGDpheno3:42	CGDpheno3	DXA	(none)	whole body bone area, head excluded [cm²] bone_area 43942	CC diallel w/par	62	both	16wks	N=5

CGDpheno3:43	CGDpheno3	DXA	(none)	total body area without head [cm²] total_area 43943	CC diallel w/par	62	both	16wks	N=5

CGDpheno3:44	CGDpheno3	DXA	(none)	weight of lean tissue mass, head excluded [g] LTM 43944	CC diallel w/par	62	both	16wks	N=5

CGDpheno3:45	CGDpheno3	DXA	(none)	percent fat, head excluded [%] pct_fat 43945	CC diallel w/par	62	both	16wks	N=5

CGDpheno3:46	CGDpheno3	DXA	(none)	total tissue mass, head excluded [g] TTM 43946	CC diallel w/par	62	both	16wks	N=5

CGDpheno3:47	CGDpheno3	body weight	(none)	body weight [g] bw 43947	CC diallel w/par	62	both	16wks	N=5

CGDpheno3: Multi-system survey of mouse physiology in 8 inbred founder strains and 54 F1 hybrids of the Collaborative Cross (2012)

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