MPD: Data set: Graham1

Graham JB, Thomas S, Swarts J, McMillan AA, Ferris MT, Suthar MS, Treuting PM, Ireton R, Gale M Jr, Lund JM. Genetic diversity in the collaborative cross model recapitulates human West Nile virus disease outcomes. MBio. 2015 May 5;6(3):e00493-15. doi: 10.1128/mBio.00493-15. PubMed 25944860

Graham1 downloads
• Download Graham1 project data set animal data, as uploaded
• Download Graham1 animal data matrix with factor-related expansion applied as necessary
• Download Graham1 strain means, SD, N, etc. one row per strain/sex/measure
• Graham1 supplementary data

Ontology terms mapped to Graham1 measures:

MA:0000141 spleen
MA:0000168 brain
MA:0000368 kidney
MA:0002502 serum
MP:0001259 abnormal body weight
MP:0008073 abnormal CD4-positive, alpha beta T cell number
MP:0008077 abnormal CD8-positive, alpha-beta T cell number
MP:0008550 abnormal circulating interferon-beta level
MP:0012773 abnormal CD4-positive, CD25-positive, alpha-beta regulatory T cell number
MP:0020180 abnormal IgM level
MP:0020185 altered susceptibility to viral infection
VT:0001259 body mass
VT:0008073 CD4-positive T cell quantity
VT:0008077 CD8-positive T cell quantity
VT:0008397 CD4-positive, CD25-positive, alpha-beta regulatory T cell morphology trait
VT:0008550 blood interferon-beta amount
VT:0010439 response to viral infection trait
VT:0010481 blood immunoglobulin M amount

Investigators	Jessica B Graham Fred Hutchinson Cancer Research Center, Seattle, WA Sunil Thomas University of Washington, Seattle, WA Michael Gale Jr. University of Washington, Seattle, WA Jennifer M Lund Fred Hutchinson Cancer Research Center, Seattle, WA
Participants	Swarts J, McMillan AA, Ferris MT, Suthar MS, Treuting PM, Ireton R
Contact	Jessica B Graham jgraham@fredhutch.org Lab web site
Acknowledgements	Funding provided by NIH AI100625, AI04002, AI083019
Project type	Phenotype strain survey data set
MPD identifiers	Graham1 MPD:633
Data changelog	No updates/corrections. Initial release date: 11/2018.
Formatted citation	Click above to copy-paste the entire citation for this MPD web page.

Experimental groups in this study:
• None • None • None • None • None • None • None • None • None

Procedures conducted:

• body weight
• health assessment		Clinical score.
• immune cell quantification		T cell populations in brain and spleen.
• RNA expression profiling		Viral load and expression of Ifnb1 and Ifit1 in brain, kidney and spleen.

Sort/ Pick	Data set	Procedure / Protocol	Treatment	Phenotype Measure / Variable (click to view)	Panel	No. of Strains	Sex	Age	Sample Size (Avg)
Graham1:1	Graham1	body weight	West Nile virus	body weight, post infection [g] bw 63301 day 0 day 3 day 6 day 8 day 9 day 10 day 11 day 12 day 13 day 14 (4 more)...	CC RIX	5	m	8-10wks	N=12

Graham1:15	Graham1	health assessment	West Nile virus	clinical score (0=healthy, 1=lethargic, 2=altered gait, 3=no movement, 4=moribund), post infection [score] clin_score 63315 day 0 day 3 day 6 day 8 day 9 day 10 day 11 day 12 day 13 day 14 (4 more)...	CC RIX	5	m	8-10wks	N=12

Graham1:29	Graham1	immune cell quantification	West Nile virus	percentage of CD3+ T cells that are CD4+ in brain, post infection [%] CD4_brain 63329 day 7 day 12 day 21 day 28	CC RIX	5	m	8-10wks	N=3

Graham1:33	Graham1	immune cell quantification	West Nile virus	percentage of CD3+ T cells that are CD4+ in spleen, post infection [%] CD4_spleen 63333 day 7 day 12 day 21 day 28	CC RIX	2	m	8-10wks	N=3

Graham1:37	Graham1	immune cell quantification	West Nile virus	percentage of CD4+ T cells that are Foxp3+ in the brain, post infection [%] Treg_brain 63337 day 7 day 12 day 21 day 28	CC RIX	5	m	8-10wks	N=3

Graham1:41	Graham1	immune cell quantification	West Nile virus	percentage of CD4+ T cells that are Foxp3+ in the spleen, post infection [%] Treg_spleen 63341 day 7 day 12 day 21 day 28	CC RIX	2	m	8-10wks	N=3

Graham1:45	Graham1	immune cell quantification	West Nile virus	percentage of CD3+ T cells that are CD8+ in brain, post infection [%] CD8_brain 63345 day 7 day 12 day 21 day 28	CC RIX	5	m	8-10wks	N=3

Graham1:49	Graham1	immune cell quantification	West Nile virus	percentage of CD3+ T cells that are CD8+ in spleen, post infection [%] CD8_spleen 63349 day 7 day 12 day 21 day 28	CC RIX	2	m	8-10wks	N=3

Graham1:53	Graham1	immune cell quantification	West Nile virus	percentage of CD3+ T cells that are NS4b+ in brain, post infection [%] NS4b_brain 63353 day 7 day 12 day 21 day 28	CC RIX	5	m	8-10wks	N=3

Graham1:57	Graham1	immune cell quantification	West Nile virus	percentage of CD3+ T cells that are NS4b+ in spleen, post infection [%] NS4b_spleen 63357 day 7 day 12 day 21 day 28	CC RIX	2	m	8-10wks	N=3

Graham1:61	Graham1	immunoglobulin quantification	West Nile virus	virus-specific IgM in serum, post infection [ng/mL] WNV_IgM 63361 day 7 day 12 day 21 day 28	CC RIX	5	m	8-10wks	N=3

Graham1:65	Graham1	RNA expression profiling	West Nile virus	virus in brain, fold change compared to matched control, post infection WNV_brain 63365 day 4 day 7 day 12	CC RIX	5	m	8-10wks	N=1

Graham1:68	Graham1	RNA expression profiling	West Nile virus	virus in kidney, fold change compared to matched control, post infection WNV_kidney 63368 day 2 day 4 day 7 day 12	CC RIX	5	m	8-10wks	N=1

Graham1:72	Graham1	RNA expression profiling	West Nile virus	virus in spleen, fold change compared to matched control, post infection WNV_spleen 63372 day 2 day 4 day 7 day 12	CC RIX	5	m	8-10wks	N=1

Graham1:76	Graham1	RNA expression profiling	West Nile virus	Ifnb1 gene expression in brain, fold change compared to matched control, post infection Ifnb1_brain 63376 day 4 day 7 day 12	CC RIX	5	m	8-10wks	N=1

Graham1:79	Graham1	RNA expression profiling	West Nile virus	Ifnb1 gene expression in kidney, fold change compared to matched control, post infection Ifnb1_kidney 63379 day 2 day 4 day 7 day 12	CC RIX	5	m	8-10wks	N=1

Graham1:83	Graham1	RNA expression profiling	West Nile virus	Ifnb1 gene expression in spleen, fold change compared to matched control, post infection Ifnb1_spleen 63383 day 2 day 4 day 7 day 12	CC RIX	5	m	8-10wks	N=1

Graham1:87	Graham1	RNA expression profiling	West Nile virus	Ifit1 gene expression in brain, fold change compared to matched control, post infection Ifit1_brain 63387 day 4 day 7 day 12	CC RIX	5	m	8-10wks	N=1

Graham1:90	Graham1	RNA expression profiling	West Nile virus	Ifit1 gene expression in kidney, fold change compared to matched control, post infection Ifit1_kidney 63390 day 2 day 4 day 7 day 12	CC RIX	5	m	8-10wks	N=1

Graham1:94	Graham1	RNA expression profiling	West Nile virus	Ifit1 gene expression in spleen, fold change compared to matched control, post infection Ifit1_spleen 63394 day 2 day 4 day 7 day 12	CC RIX	5	m	8-10wks	N=1

Graham1: West Nile virus infection in males of F1 hybrids (RIX) of Collaborative Cross strains of mice (2015)

Filter Table Results