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ProtProtocols / IsoProt

Protocol of the analysis of iTRAQ/TMT proteomics data including quantification, statistical analysis and maybe clustering
https://protprotocols.github.io
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Identify data sets for testing #33

Closed veitveit closed 6 years ago

veitveit commented 6 years ago

To test functionality, apply the protocol on 5 different data sets. We have one for now.

The search for other data will be quite restricted when allowing only 2 different conditions and everything run on one configuration (multiple MS run of the same samples).

This refers to #4 and #32

jgriss commented 6 years ago

One possibility with the same samples in different fractions: PXD000737

veitveit commented 6 years ago

Might be worth testing, but is on pooled samples which does help when running the statistical tests.

veitveit commented 6 years ago

With (potentially) solved issue #4, the protocols is now much more flexible to work with differently labelled multiple MS runs.

jgriss commented 6 years ago

Even though this is already closed, a time-course experiment that might be nice as a test case: PXD009585

veitveit commented 6 years ago

This one does not seem to exist. Anyways, most experimental designs should work now.

2018-07-09 12:06 GMT+02:00 Johannes Griss notifications@github.com:

Even though this is already closed, a time-course experiment that might be nice as a test case: PXD009585

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