Candida Genome Database Survey

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* 1. What is your job?

PI/Group Leader/Professor

Postdoc

Graduate Student

Undergraduate Student

Other (please specify)

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* 2. What is the primary organism you work on?

C. albicans

C. glabrata

C. parapsilosis

C. dubliniensis

Other (please specify)

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* 3. What type of work do you do? Check all that apply.

Basic Research

Clinical/Applied Research

Teaching

Bioinformatics

Other (please specify)

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* 4. What types of data do you create currently or expect to create within the next few years? Check all that apply.

Cell Physiology/Metabolism

Cellular Structure

Comparative Genomics/Evolution

Gene Expression

Genome Sequence

Mutant Phenotype/Genetic Interaction

Physical Interaction

Population Genetics

Protein Localization

Protein Modification

Protein Structure

Other (please specify)

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* 5. How often do you use CGD?

Very frequently, often multiple times per day

Daily

Weekly

Monthly

Occasionally

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* 6. From your perspective, what is the most important function of CGD? Please, drag and drop responses in order of importance, where 1 is the most important.

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* 7. Is there any important function missing from Question 7 Please, specify:

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* 8. Are there new features, or changes to the web site, that would make it easier for you to access the data that you need in CGD? Please elaborate:

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* 9. What other resources do you use to help you in your research?

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* 10. Do these other resources fully serve your needs for your Candida research?

Yes

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* 11. What improvements to the User Interface would you like to suggest? Please elaborate:

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* 12. Are there any search features, not currently available at CGD that would be useful to you? Please elaborate:

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* 13. Please rate the following types of large-scale data with respect to their importance and priority for incorporation into CGD, where 1 is most important/highest priority. Drag and drop answers in order of importance.

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* 14. Are there additional new large-scale data types that you would like to see in CGD? Please elaborate:

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* 15. Please rate the following aspects of literature-based curation with respect to their importance and priority, where 1 is most important/highest priority. Drag and drop answers in order of importance.

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* 16. Are there additional types of curated data that you would like to see included in CGD? Please elaborate:

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* 17. In addition to the Candida species currently curated at CGD (albicans, glabrata, dublinensis, parapsilosis), which additional species would you choose as highest priority for us to incorporate and curate next?

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* 18. Do you use the JBrowse Genome Browser (see example)

Yes

Occasionally

Never

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* 19. If so, what is the primary purpose for you to use JBrowse?

Browsing through chromosome maps

Finding and retrieving sequences of interest

Analysis of expression data

Analysis of sequence conservation between strains and species

Analysis of transcribed regions

Identifying regulatory regions

Other (please specify)

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* 20. Do you have other suggestions for new features or data to include in the JBrowse Genome Browser?

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* 21. Do you use the Homology Information pages in CGD (see example)?

Often

Occasionally

Never; it is not useful to me

Didn’t know it was there, but it seems useful

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* 22. Do you have suggestions for new tools or data to improve access to the homology data?

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* 23. We use high-throughput sequence data to improve the genome sequences and their annotation in several ways. Please rate the following with respect to their importance and priority to you, where 1 is most important/highest priority. Drag and drop answers in order of importance.

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* 24. Among the data types and analysis tools, please rate with respect to their importance and priority, where 1 is most important/highest priority. Drag and drop answers in order of importance.

Candida Genome Database Survey

Question Title

* 1. What is your job?

Question Title

* 2. What is the primary organism you work on?

Question Title

* 3. What type of work do you do? Check all that apply.

Question Title

* 4. What types of data do you create currently or expect to create within the next few years? Check all that apply.

Question Title

* 5. How often do you use CGD?

Question Title

* 6. From your perspective, what is the most important function of CGD? Please, drag and drop responses in order of importance, where 1 is the most important.

Question Title

* 7. Is there any important function missing from Question 7 Please, specify:

Question Title

* 8. Are there new features, or changes to the web site, that would make it easier for you to access the data that you need in CGD? Please elaborate:

Question Title

* 9. What other resources do you use to help you in your research?

Question Title

* 10. Do these other resources fully serve your needs for your Candida research?

Question Title

* 11. What improvements to the User Interface would you like to suggest? Please elaborate:

Question Title

* 12. Are there any search features, not currently available at CGD that would be useful to you? Please elaborate:

Question Title

* 13. Please rate the following types of large-scale data with respect to their importance and priority for incorporation into CGD, where 1 is most important/highest priority. Drag and drop answers in order of importance.

Question Title

* 14. Are there additional new large-scale data types that you would like to see in CGD? Please elaborate:

Question Title

* 15. Please rate the following aspects of literature-based curation with respect to their importance and priority, where 1 is most important/highest priority. Drag and drop answers in order of importance.

Question Title

* 16. Are there additional types of curated data that you would like to see included in CGD? Please elaborate:

Question Title

* 17. In addition to the Candida species currently curated at CGD (albicans, glabrata, dublinensis, parapsilosis), which additional species would you choose as highest priority for us to incorporate and curate next?

Question Title

* 18. Do you use the JBrowse Genome Browser (see example)

Question Title

* 19. If so, what is the primary purpose for you to use JBrowse?

Question Title

* 20. Do you have other suggestions for new features or data to include in the JBrowse Genome Browser?

Question Title

* 21. Do you use the Homology Information pages in CGD (see example)?

Question Title

* 22. Do you have suggestions for new tools or data to improve access to the homology data?

Question Title

* 23. We use high-throughput sequence data to improve the genome sequences and their annotation in several ways. Please rate the following with respect to their importance and priority to you, where 1 is most important/highest priority. Drag and drop answers in order of importance.

Question Title

* 24. Among the data types and analysis tools, please rate with respect to their importance and priority, where 1 is most important/highest priority. Drag and drop answers in order of importance.

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* 25. Are there additional new analysis tools that you would like us to incorporate? If so, please describe

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* 26. Do you have any other comments or suggestions for CGD?