search

smith-chem-wisc / MetaMorpheus

Proteomics search software with integrated calibration, PTM discovery, bottom-up, top-down and LFQ capabilities
MIT License
90 stars 46 forks source link

Implement TMT quantification, including quantifying protein groups #2044

Open giladwv opened 3 years ago

giladwv commented 3 years ago

Maybe I missed it. Can one use TMT quantification with metamorpheous?

trishorts commented 3 years ago

Unfortunately, not at this time. You can do a search of TMT modified peptides by selecting the appropriate TMT labels from the Multiplex Label Checkbox uner Modifications. You have to click the triangle to open up and see all of the available options. image

image

the reporter intensity will be provided in the output and you can analyze the results manually.

Adding TMT quant is a priority for me. You can follow this issue for updates. https://github.com/smith-chem-wisc/MetaMorpheus/issues/1935

giladwv commented 3 years ago

Thanks... But i need it on the protein groups. :)

I appreciate the swift answer. Best. G

Best, Gilad W. Vainer, M.D. Ph.D. Department of Pathology Hadassah Hebrew-University Medical Center Jerusalem, Israel

On Sun, Mar 14, 2021, 18:38 trishorts @.***> wrote:

Unfortunately, not at this time. You can do a search of TMT modified peptides by selecting the appropriate TMT labels from the Multiplex Label Checkbox uner Modifications. You have to click the triangle to open up and see all of the available options. [image: image] https://user-images.githubusercontent.com/16841846/111076228-79127100-84b9-11eb-8e58-c640666f0d77.png

[image: image] https://user-images.githubusercontent.com/16841846/111076246-8891ba00-84b9-11eb-9fed-6fb67891cb3b.png

the reporter intensity will be provided in the output and you can analyze the results manually.

Adding TMT quant is a priority for me. You can follow this issue for updates. #1935 https://github.com/smith-chem-wisc/MetaMorpheus/issues/1935

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/smith-chem-wisc/MetaMorpheus/issues/2044#issuecomment-798938068, or unsubscribe https://github.com/notifications/unsubscribe-auth/ADK3F7BA2GF2JTLFSKXYIB3TDTQ7NANCNFSM4ZFCZVJA .

acesnik commented 2 years ago

See also https://github.com/smith-chem-wisc/MetaMorpheus/issues/1935 for more discussion.

acesnik commented 2 years ago

I want to bump this one, since TMT is popular and growing more popular.