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ProteinCenter alternative?


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3 replies to this topic

#1 proteaMatt

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Posted 11 March 2013 - 06:15 AM

Does anyone know of a free or opensource alternative to ProteinCenter? I am interested in collecting cellular location data about protein that has been recovered from a lysate and analyzed by LC-MS.
Lab Technician at Protea Biosciences

#2 mdfenko

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Posted 11 March 2013 - 06:29 AM

maybe something at expasy?
talent does what it can
genius does what it must
i do what i get paid to do

#3 proteaMatt

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Posted 11 March 2013 - 06:52 AM

Just to clarify my work flow a little -
  • Digested a whole cell lysate
  • SCX MuDPit
  • C18 LC-ESI
  • Paragon search of collected masses from each of the MuDPit fractions in ProteinPilot
This yielded a long list of protein IDs. It would be possible to go down the list of IDs and look them up individually using UniprotKb (or something like that on expasy), but this process would be quite time consuming. I know that ProteinCenter can do this for a data set at once, but we don't currently have a license for that software.
Lab Technician at Protea Biosciences

#4 proteaMatt

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Posted 12 March 2013 - 11:53 AM

I asked this question on another forum, one of the posters showed me a solution that works perfectly for what I need.

STRAP - http://www.ncbi.nlm....les/PMC2787672/
http://www.bumc.bu.e...cpctools/strap/
Lab Technician at Protea Biosciences




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