Hi -
I have a 6-plex TMT experiment that I've analyzed with Libra. There
are a number of proteins that report a "-9.0" value, and upon
inspection, it seems that the problem is the zero values for a number
of the channels within a peptide. Even though these are proteins that
I expect and can confirm are changing, I'd like to have the MS quant
data to go with it. Therefore, is there a way to have Libra ignore the
zero channels and base the quantitation just on the channels that have
non-zero values?
This is an example of a protein that is likely not present in 126,
128, 130, as it is induced only after I treat the cells, and thus, I
expected zero values.
libra 126 libra 127 libra 128 libra 129 libra
130 libra 131
0.000 218.403 20.091 9.921 9.528 172.267
0.000 333.445 0.000 7.648 15.679 220.115
0.000 140.678 0.000 1.936 0.000 76.169
9.694 76.514 5.412 5.864 4.139 45.162
0.000 204.598 5.602 14.225 9.856 88.057
2.409 269.972 10.250 3.719 0.000 193.905
I could go through by hand and redo all the calculations that Libra
does, ignoring the zero values. But my question is whether this is
legitimate and would there be an easier way. As I'd have to do this
for several hundred proteins.
Thanks!
Rebekah
--~--~---------~--~----~------------~-------~--~----~
You received this message because you are subscribed to the Google Groups
"spctools-discuss" group.
To post to this group, send email to [email protected]
To unsubscribe from this group, send email to
[email protected]
For more options, visit this group at
http://groups.google.com/group/spctools-discuss?hl=en
-~----------~----~----~----~------~----~------~--~---
