NRSP8: Bioinformatics Committee Survey

Bioinformatics and Computational Biology Priorities for the Next 5 years

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The information gathered in this survey will help to inform the decisions of the Bioinformatics Team to provide resources to meet the highest priority needs of the animal genome research community. To the extent that the public support of the Bioinformatics Team allows, these resources will be provided at no cost to the users. To address needs, that either go beyond the resources provided to the Bioinformatics Team or are specific to a very small group of users, some survey questions address the willingness to share the expenses for the development or provision of such resources. Thank you for your time and effort, as it will help us to try to meet the needs of the community.

The following questions are designed to provide the Bioinformatics team with background information about your laboratory and its computational needs.

Page 2 of the questions (#8-#16) are designed to get your input on what you think the priorities for the NRSP-8 Bioinformatics coordinator project should be, beyond the maintenance of current resources. A collaborative project is currently underway to develop a livestock (cattle, chicken, swine) genetic/phenotypic correlation database. (PLEASE PROVIDE AS MUCH DETAIL AS POSSIBLE).

 
1. What is the focus of your research? (Please check all that apply)
Molecular genetics
Quantitative genetics
Whole-genome association
QTL analysis
SNP analysis
2nd (and later) generation sequencing
Proteomics
Metabolomics
Large-scale transcriptional analysis (including miRNA, CHIP chip, and CHIPseq)
Complex quantitative modeling (e.g. “Systems Biology”)
Other (please list)
 
2. How much data do you expect to need to analyze over the next year?
TB-multiple GB/week: biocomputing is essential
TB-multiple GB/year: biocomputing is highly desirable
Less than multiple GB/year: biocomputing is useful
KB/year. I have no specific computing needs outside of standard packages such as MS EXCEL
Other (please describe on back)
 
3. How much data do you expect to need to analyze over the next 5 years?
TB-multiple GB/week: biocomputing is essential
TB-multiple GB/year: biocomputing is highly desirable
Less than multiple GB/year: biocomputing is useful
KB/year. I have no specific computing needs outside of standard packages such as MS EXCEL
Other (please describe on back)
 
4. Which of the following do you use to store/manage your lab data? (check all that apply)
Notebooks (hand-recorded)
Excel spreadsheet
Microsoft Access
Free database such as MySQL/Postgres
Commercial database such as Oracle/Sybase Server
FTP sites
Servers
LIMS system
Paid services to keep data
Other (please list)
 
5. Will your lab adopt the following means to manage laboratory data in the future? (Check all that apply)
Free database such as MySQL/Postgres
Commercial database such as Oracle/Sybase/SQL Server
FTP sites
Servers
LIMS system
Paid services to keep data
Others (please list)
 
6. If you answered question 5, how soon do you plan to adopt the use of computational tools to manage your lab data?
Within 3 months
Within 6 months
Within a year
Within a couple years
 
7. If you plan to upgrade the way your laboratory manages data, which problem do you think is most critical to solve? (Check all that apply)
Deciding which computer to purchase
Determining how to train students to use database tools
Hiring a computer/database person (maybe part time)
Seeking help from a collaborator
Seeking help within your institute/university
Needing more advice on what to do
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Contact: NAGRP Bioinformatics Team 		March 14, 2010 (Sunday)