MPD: Data set: Palmer3

Palmer3: Behavioral and metabolic traits in a panel of F1 hybrids involving 30 inbred strains and C57BL/6J males, where mice are +/- for the Tcf7l2 gene (2017)

Sittig LJ, Carbonetto P, Engel KA, Krauss KS, Barrios-Camacho CM, Palmer AA. Genetic Background Limits Generalizability of Genotype-Phenotype Relationships. Neuron. 2016 Sep 21;91(6):1253-9. doi: 10.1016/j.neuron.2016.08.013. Epub 2016 Sep 8. PubMed 27618673

Palmer3 downloads
• Download Palmer3 project data set animal data, as uploaded
• Download Palmer3 animal data matrix with factor-related expansion applied as necessary
• Download Palmer3 strain means, SD, N, etc. one row per strain/sex/measure

Ontology terms mapped to Palmer3 measures:

MA:0000059 blood
MA:0000167 central nervous system
MP:0000188 abnormal circulating glucose level
MP:0001259 abnormal body weight
MP:0001362 abnormal anxiety-related response
MP:0001392 abnormal locomotor behavior
MP:0001454 abnormal cued conditioning behavior
MP:0001469 abnormal contextual conditioning behavior
MP:0001486 abnormal startle reflex
MP:0003088 abnormal prepulse inhibition
MP:0003106 abnormal fear-related response
MP:0003360 abnormal depression-related behavior
MP:0013189 abnormal exploration in a new environment
VT:0000188 blood glucose amount
VT:0001259 body mass
VT:0001392 locomotor behavior trait
VT:0003088 prepulse inhibition trait
VT:0010471 exploratory behavior trait
VT:0010529 contextual fear conditioning behavior trait
VT:0010530 cued fear conditioning behavior trait
VT:0010715 fear-related behavior trait
VT:0010716 anxiety-related behavior trait
VT:0010725 startle reflex trait
VT:0015015 depression-related behavior trait

Investigators	Laura J Sittig University of Chicago, Chicago, IL Abraham A Palmer University of California, San Diego, San Diego, CA
Participants	Carbonetto P, Engel KA, Krauss KS, Barrios-Camacho CM
Contact	Abraham A Palmer aapalmer@ucsd.edu Lab web site
Part of a series:	• Tcf7l2 +/+ see Palmer5 • Tcf7l2 +/- (this project) Palmer3 • Cacna1c +/+ see Palmer6 • Cacna1c +/- see Palmer4
Project type	Phenotype strain survey data set
MPD identifiers	Palmer3 MPD:592
Data changelog	No updates/corrections. Initial release date: 09/2017.
Formatted citation	Click above to copy-paste the entire citation for this MPD web page.

F1 crosses were produced between male C57BL/6J mice heterozygous for the null allele of Tcf7l2 and wild-type females from 30 inbred laboratory strains. This gene is among the most strongly associated and best replicated genetic risk factors for type 2 diabetes. It has also been associated with schizophrenia and bipolar disorder. The generalizability of Tcf7l2 +/- physiological and behavioral phenotypes was evaluated using these 30 genetic backgrounds. Data for +/+ and +/- littermates are summarized graphically here. Data were downloaded from https://github.com/pcarbo/neuron

Procedures conducted:

• body weight
• open field test		Locomotor and exploratory behavior. 30 min test.
• fear conditioning test		Contextual fear, cued fear.
• acoustic startle test		Acoustic startle response, prepulse inhibition.
• forced swim test		Immobility time. 6 min test.
• metabolic panel		Glucose (blood). Before and after 16h fast.

Mice: F1 Tcf7l2 30 strains ♀♂ age 7-14wks 1 experimental group

Sort/ Pick	Data set	Procedure / Protocol	Treatment	Phenotype Measure / Variable (click to view)	Panel	No. of Strains	Sex	Age	Sample Size (Avg)
Palmer3:1	Palmer3	body weight	(none)	body weight at start of testing [g] bw_start 59201	F1 Tcf7l2	30	both	7wks	N=5

Palmer3:2	Palmer3	body weight	(none)	body weight at end of testing [g] bw_end 59202	F1 Tcf7l2	30	both	14wks	N=5

Palmer3:11	Palmer3	open field test	(none)	duration in center of arena [s] center 59211	F1 Tcf7l2	30	both	7-14wks	N=5

Palmer3:12	Palmer3	open field test	(none)	total distance traveled [cm] distance 59212	F1 Tcf7l2	30	both	7-14wks	N=5

Palmer3:21	Palmer3	fear conditioning test	(none)	percentage of time freezing during tone presentation on day 1 [%] d1_tone 59221	F1 Tcf7l2	30	both	7-14wks	N=5

Palmer3:22	Palmer3	fear conditioning test	(none)	percentage of time freezing to context on day 2 [%] d2_context 59222	F1 Tcf7l2	30	both	7-14wks	N=5

Palmer3:23	Palmer3	fear conditioning test	(none)	percentage of time freezing to tone on day 3 [%] d3_tone 59223	F1 Tcf7l2	30	both	7-14wks	N=5

Palmer3:31	Palmer3	acoustic startle test	(none)	acoustic startle response (ASR) evoked by 120 dB sound pressure level [amplitude] ASR 59231	F1 Tcf7l2	30	both	7-14wks	N=5

Palmer3:32	Palmer3	acoustic startle test	(none)	percentage prepulse inhibition (PPI) evoked by 120 dB sound pressure level with 6 dB prepulse stimulus [%] PPI 59232	F1 Tcf7l2	30	both	7-14wks	N=5

Palmer3:41	Palmer3	forced swim test	(none)	duration of immobility [s] immobility 59241	F1 Tcf7l2	30	both	7-14wks	N=5

Palmer3:51	Palmer3	metabolic panel	(none)	glucose (blood GLU, no fast) [mmol/L] glucose_base 59251	F1 Tcf7l2	30	both	7-14wks	N=5

Palmer3:52	Palmer3	metabolic panel	(none)	glucose (blood GLU, 16h fast) [mmol/L] glucose_fast 59252	F1 Tcf7l2	30	both	7-14wks	N=5

Palmer3: Behavioral and metabolic traits in a panel of F1 hybrids involving 30 inbred strains and C57BL/6J males, where mice are +/- for the Tcf7l2 gene (2017)

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