Table 1.

Summary of the Studies Reviewed in This Paper

Disease category	Mice used	Finding/impact	Reference
Allergy	CCa	Identified CC027 as a mouse model of oral allergy response with recapitulation human disease and shows CC027 as having Th2-skewed response	Orgel et al. (2019), Smeekens et al. (2020)
Allergy/infectious disease	CC	Linked Sp140 gene to IgE response in the setting of allergy and parasite clearance	Matsushita et al. (2021)
Cancer	DOF1b	Demonstrates DOF1 mice can be used to discover germline factors of cancer metastasis that correlated to human diseases; demonstrates roadmap for actionable pathway discovery	Winter et al. (2017)
Cancer	CC	Identifies CC036 as model of spontaneous gastric tumorigenesis and identifies NfκB as likely causal gene	Wang et al. (2019)
Cancer	CCF1b	Utilized a CCF1 cross to discover loci modifying Apc-driven polyp formation	Dorman et al. (2021)
Cancer	CCF1	Developed a CCF1 model to investigate modifier genes influencing response to asbestos-induced mesothelioma	Behrouzfar et al. (2021)
Cancer	DOF1	Investigated germline modifiers of HER2 targeting breast cancer vaccine utilizing DOF1 mice and identified NK cells as a mediator of vaccine effectiveness	Wei et al. (2020)
Cancer	DOF1, CCF1	Showed that DOF1 and CCF1 mice can accept cross-strain syngeneic tumors and identified prolactin as a germline modifier of immune checkpoint blockade response	Hackett et al. (2022)
Infectious disease	CC	Demonstrated that known genetic loci influencing virus-induced paralysis have further unknown modifiers	Perez Gomez et al. (2021)
Infectious disease	CCF1,CCF2	Host genotype regulates anti-influenza-A antibody response	Noll et al. (2020)
Infectious disease	CC Founder	Demonstrated that upon infection with respiratory infections, CC mice induce expression of previously unannotated transcripts and strain-specific isoforms	Xiong et al. (2014)
Infectious disease	CCF1, CC-RIXc	Discovered baseline immune cell phenotypes to predict disease control of SARS-CoV infection	Graham et al. (2021)
Infectious disease	CC, CCF1	Demonstrated that CC mice recapitulate facets of EBV and can be used to predict human patient outcomes	Price et al. (2020)
Infectious disease	CC	Demonstrated that CC mice can serve as a model for Zika virus pathology and that known loci of infectious outcomes have further unknown modifiers	Manet et al. (2020)
Infectious disease	CC-RIX	CC-RIX lines can model levels of West Nile Virus infection	Green et al. (2016)
Infectious disease	CC	Identified and validated candidate genes influencing P. aeruginosa lung infection using CC mice	Lorè et al. (2020)
Infectious disease	CC	Identified CC006 as a model to study NK cell–mediated viral protection	Jensen et al. (2022)
Infectious disease	CC	Identified CC046 and CC058 as first immunocompetent mouse models of B. recurrentis	Rogovskyy et al. (2021)
Infectious disease	CCF1	Identified haplotypes associated with influenza A response in CCF1 mice	Maurizio et al. (2018)
Infectious disease	DOd	Created model to predict M. tuberculosis outcome using H&E staining from DO mice	Tavolara et al. (2021)
Infectious disease	CC	Discovered germline loci that influence host susceptibility to specific pathogens	Durrant et al. (2011), Smith et al. (2022), Vered et al. (2014), Zhang et al. (2018)
Inflammatory diseases	DO	Demonstrated large variation of silica-induced autoimmunity in DO mice	Mayeux et al. (2018)
Inflammatory diseases	CC	Identified CC011 as a spontaneous model of colitis and identified 4 loci of susceptibility	Rogala et al. (2014)
Inflammatory diseases	CC, CCF1, CCN2e	Identified CC003 and CC039 as susceptible to O3-induced inflammatory response and identified differentially basal gene expression in alveolar macrophages	Smith et al. (2021), Tovar et al. (2022)

CC: Collaborative Cross.

CCF1/DOF1: CC or DO with single cross to other strain.

CC-RIX, Collaborative Cross Recombinant Inbred Cross.

DO: Diversity Outbred.

CCN2: CC with double backcross to CC founder strain.