Opened 10 years ago

Last modified 10 years ago

#762 closed task

Pre-normalization changes due to NeoPrep — at Version 2

Reported by: Nicklas Nordborg Owned by: Nicklas Nordborg
Priority: major Milestone: Reggie v3.4
Component: net.sf.basedb.reggie Keywords:
Cc:

Description (last modified by Nicklas Nordborg)

The neoprep require only 100ng of input rna in 25-45µl. The current pre-normalization is hard-wired for the manual protocol which is optimized for 1.1µg in 50µl.

The pre-normalization need to be modified so that it also works with the NeoPrep. The required RNA quantity and volume should be selectable, with at least the following presets:

  • The old (dUTP) method (1.1µg in 50µl)
  • TruSeq manual method (0.5µg in 45µl)
  • NeoPrep method (0.1µg in 45µl)

Due to the much lower quantity of RNA for NeoPrep the pre-normalization will need to support mixing a larger volume (to avoid volumes less than 1µl). This also means that the mRNA wizard need to be aware of this, since it currently assumes that everything is used from the pre-normalized aliquot.

Change History (2)

comment:1 by Nicklas Nordborg, 10 years ago

Milestone: Reggie v3.x → Reggie v3.4

comment:2 by Nicklas Nordborg, 10 years ago

Description: modified (diff)
Summary: Pre-normalization changes due to neoprep → Pre-normalization changes due to NeoPrep
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