Dataset Information

ISuRe-Cre is a genetic tool to reliably induce and report Cre-dependent genetic modifications.

ABSTRACT: Most biomedical research aimed at understanding gene function uses the Cre-Lox system, which consists of the Cre recombinase-dependent deletion of genes containing LoxP sites. This system enables conditional genetic modifications because the expression and activity of the recombinase Cre/CreERT2 can be regulated in space by tissue-specific promoters and in time by the ligand tamoxifen. Since the precise Cre-Lox recombination event is invisible, methods were developed to report Cre activity and are widely used. However, numerous studies have shown that expression of a given Cre activity reporter cannot be assumed to indicate deletion of other LoxP-flanked genes of interest. Here, we report the generation of an inducible dual reporter-Cre mouse allele, iSuRe-Cre. By significantly increasing Cre activity in reporter-expressing cells, iSuRe-Cre provides certainty that these cells have completely recombined floxed alleles. This genetic tool increases the ease, efficiency, and reliability of conditional mutagenesis and gene function analysis.

SUBMITTER: Fernandez-Chacon M

PROVIDER: S-EPMC6531465 | biostudies-literature | 2019 May

REPOSITORIES: biostudies-literature

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iSuRe-Cre is a genetic tool to reliably induce and report Cre-dependent genetic modifications.

Fernández-Chacón Macarena M Casquero-García Verónica V Luo Wen W Francesca Lunella Federica F Ferreira Rocha Susana S Del Olmo-Cabrera Sergio S Benedito Rui R

Nature communications 20190522 1

Most biomedical research aimed at understanding gene function uses the Cre-Lox system, which consists of the Cre recombinase-dependent deletion of genes containing LoxP sites. This system enables conditional genetic modifications because the expression and activity of the recombinase Cre/CreERT2 can be regulated in space by tissue-specific promoters and in time by the ligand tamoxifen. Since the precise Cre-Lox recombination event is invisible, methods were developed to report Cre activity and a ...[more]

PMID: 31118412

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Project description:BACKGROUND:The growth in the availability of personal genomic data to nonexperts poses multiple challenges to human-computer interaction research; data are highly sensitive, complex, and have health implications for individuals and families. However, there has been little research on how nonexpert users explore their genomic data. OBJECTIVE:We focus on how to support nonexperts in exploring and comparing their own personal genomic report with those of other people. We designed and evaluated CrossGenomics, a novel tool for comparing personal genetic reports, which enables exploration of shared and unshared genetic variants. Focusing on communicating comparative impact, rarity, and certainty, we evaluated alternative novel interactive prototypes. METHODS:We conducted 3 user studies. The first focuses on assessing the usability and understandability of a prototype that facilitates the comparison of reports from 2 family members. Following a design iteration, we studied how various prototypes support the comparison of genetic reports of a 4-person family. Finally, we evaluated the needs of early adopters-people who share their genetic reports publicly for comparing their genetic reports with that of others. RESULTS:In the first study, sunburst- and Venn-based comparisons of two genomes led to significantly higher domain comprehension, compared with the linear comparison and with the commonly used tabular format. However, results show gaps between objective and subjective comprehension, as sunburst users reported significantly lower perceived understanding and higher levels of confusion than the users of the tabular report. In the second study, users who were allowed to switch between the different comparison views presented higher comprehension levels, as well as more complex reasoning than users who were limited to a single comparison view. In the third study, 35% (17/49) reported learning something new from comparing their own data with another person's data. Users indicated that filtering and toggling between comparison views were the most useful features. CONCLUSIONS:Our findings (1) highlight features and visualizations that show strengths in facilitating user comprehension of genomic data, (2) demonstrate the value of affording users the flexibility to examine the same report using multiple views, and (3) emphasize users' needs in comparison of genomic data. We conclude with design implications for engaging nonexperts with complex multidimensional genomic data.

Dataset Information

ISuRe-Cre is a genetic tool to reliably induce and report Cre-dependent genetic modifications.

Publications

iSuRe-Cre is a genetic tool to reliably induce and report Cre-dependent genetic modifications.

Similar Datasets

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