I combined fractions on peptide-prophet stage, and subsequently run
i-prophet and protein prophet.
sorry for the writing mistake.
ASIF
On Saturday, February 13, 2021 at 3:01:17 PM UTC+11 Asif Ahmed wrote:
> Hi David,
>
> Sorry for the late reply. It took some time to re-run the files.
> Agree
Hi David,
Sorry for the late reply. It took some time to re-run the files.
Agree with you, there was a problem with my "Decoy_" search.
For decoy-based MSGf+ search, I followed the step described at MSgf Github
page (https://github.com/MSGFPlus/msgfplus/issues/98) and re-run the
search. After
Hi Asif,
I am not sure what happened but the decoys in your search are tagged XXX_
in the search and DECOY_ in the database.
I think you have to first, carefully check your search parameters, that
they are compatible with N15 labeling, and second, verify you are using the
correct database in
Apologies.
Please find the database with decoy
https://drive.google.com/file/d/18ijaNWgmIompoJ0m99V0bCD4j54hXRlR/view?usp=sharing
ASIF
On Wednesday, February 10, 2021 at 10:55:02 AM UTC+11 David Shteynberg
wrote:
> It appears you forgot to include the _DECOY version of the database. Can
>
It appears you forgot to include the _DECOY version of the database. Can
you check?
On Tue, Feb 9, 2021 at 3:27 PM Asif Ahmed wrote:
> Hi David,
>
> In my sample- N15 fed (heavy) female fly mated with N14 (normal) male fly,
> after mating, I dissected the female reproductive organs and process
Hi David,
In my sample- N15 fed (heavy) female fly mated with N14 (normal) male fly,
after mating, I dissected the female reproductive organs and process the
sample using S-trap kit.
So, "theoretically" in the mated female reproductive tract proteome, there
would be plenty of female proteins (
