on outsourcing and data management - icrisat
on outsourcing and data management - icrisat on outsourcing and data management - icrisat
Reasons to choose an NGS provider • Price • But be sensible as to how to judge price • Price should be judged on a full economic cost model • NGS sequencing can be thought of as multi component package – at the very least • Choice of biological material • Library construction • Sequencing • Base calling • Informatics • We need to start from the point of developing a clear view of what we are sequencing and why ? This should take account of not only the immediate aim of the work but also potential future value of the data
What are we sequencing and why ? • Is this a genome or transcriptome sequencing project ? The choice is not always a black and white one. • Have we thought clearly about how many and what genotypes and /or tissues we are going to sequence ? • Should we pool genotypes or tissues ? • Is the choice consistent with our primary aims ? i.e. Have we chosen genotypes to minimise ascertainment bias or are the developmental stages or tissues we want sufficiently represented • Have we thought about other uses for the data ? • Have we talked it thought with someone who actually knows the time of day
- Page 1 and 2: Outsourcing and Data handling Issue
- Page 3: Outsourcing • We don’t own a ma
- Page 7 and 8: Once you have made the choice • M
- Page 9 and 10: Processing and analysis • We disc
- Page 11: NGS Meetings
Reas<strong>on</strong>s to choose an NGS provider<br />
• Price<br />
• But be sensible as to how to judge price<br />
• Price should be judged <strong>on</strong> a full ec<strong>on</strong>omic cost model<br />
• NGS sequencing can be thought of as multi comp<strong>on</strong>ent<br />
package – at the very least<br />
• Choice of biological material<br />
• Library c<strong>on</strong>structi<strong>on</strong><br />
• Sequencing<br />
• Base calling<br />
• Informatics<br />
• We need to start from the point of developing a clear view of<br />
what we are sequencing <strong>and</strong> why ? This should take account<br />
of not <strong>on</strong>ly the immediate aim of the work but also potential<br />
future value of the <strong>data</strong>
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