IMPC survey: Completing the catalogue of  mammalian gene function and defining future priorities  

IMPC is currently evaluating its future production and phenotyping priorities. 

To date, IMPC has focused on protein coding genes with human orthologs and little to no functional annotation, also referred to as “dark genes”. To date, the International Mouse Phenotyping Consortium- IMPC [which includes the NIH-funded Knockout Mouse Phenotyping Program (KOMP2)] has produced knockout mouse lines for 11,208 unique genes and conducted comprehensive phenotyping on 9,774 knockout lines, representing 9,073 genes. All data is accessible at www.mousephenotype.org and mice are available to order from public mouse repositories [e.g., Mutant Mouse Resource and Research Center (MMRRC)]. 

The purpose of this survey is to ascertain your level of interest and enthusiasm for IMPC to continue its production and phenotyping of knockout mouse lines for the remaining human orthologous genes in the mouse genome. In addition, this survey seeks your input on the scientific value of IMPC producing and phenotyping allele types other than knockouts.

 As a representative of your field of research, please consider and answer the following 9 questions…think broadly!

Thank you for participating in this brief 10 minute survey. 

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1. I have used IMPC mice, data, and/or procedures in my research. *
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2. I have used IMPC mice or data in published papers and/or grant applications.

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Please explain your answer to Question 2 here: *

On a scale from 1 (strongly agree) to 5 (strongly disagree), please indicate your level of agreement with the following statement. 

3. IMPC mice have been scientifically or technically valuable for my and/or my colleagues’ scientific research.

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Please explain your answer to Question 3 here: 

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On a scale from 1 (strongly agree) to 5 (strongly disagree), please indicate your level of agreement with the following statement.  

4. IMPC data have been scientifically or technically valuable for my and/or my colleagues’ scientific research.

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Please explain your answer to Question 4 here: 

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On a scale from 1 (strongly agree) to 5 (strongly disagree), please indicate your level of agreement with the following statement.   

5. By the time the current phase of funding ends in 2027, IMPC will have produced and phenotyped knockout mouse lines for ~60% of the protein coding human orthologous genome. It would be scientifically and/or technically valuable for IMPC to continue to produce and phenotype knockout alleles for the remaining human orthologous genes in the mouse genome.  

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Please use this space to explain your answer to Question 5: 

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On a scale from 1 (strongly agree) to 5 (strongly disagree), please indicate your level of agreement with the following statement.

6. If production and phenotyping of knockout mouse lines for protein coding genes were to continue after 2027, when the current phase of the project ends, “human orthologous” and “unannotated” are the most important criteria IMPC should use to prioritize genes to be studied.

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Please explain your answer to Question 6. If any, indicate other criteria that should be used for gene prioritization: 

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On a scale from 1 (strongly agree) to 5 (strongly disagree), please  indicate your level of agreement with the following statement.   

7. If production and phenotyping of knockout mouse lines for protein coding genes were to continue after 2027, there are changes to the tests, analyses, and/or examinations conducted as part of the IMPC phenotyping pipeline that would benefit my field of research or motivate me to use IMPC mice or data.

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Please explain your answer to Question 7. Ιf any, provide examples of other tests, analyses, and/or examinations that should be considered:

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On a scale from 1 (strongly agree) to 5 (strongly disagree), please  indicate your level of agreement with the following statement.  

8. There is scientific value for IMPC to produce and phenotype alleles other than knockouts of protein-coding genes (e.g., conditional knockout alleles, knockout alleles of non-coding genes, mutations of regulatory elements, variants of human disease).

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Please explain your answer to Question  8. Provide examples of other allele types that IMPC should prioritize:

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On a scale from 1 (strongly agree) to 5 (strongly disagree), please indicate your level of agreement with the following statement.

9. IMPC data are available in a format amenable for analysis using artificial intelligence (AI) and machine learning (ML) technologies. 

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Please explain your answer to Question 9. If you do not agree already, please describe how IMPC data could be better suited for AI/ML technologies:

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