Searching databases for protein identification - part 1

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  • เผยแพร่เมื่อ 22 ส.ค. 2024

ความคิดเห็น • 11

  • @gledaoci
    @gledaoci 7 ปีที่แล้ว

    Very nice explanation and good references!

  • @erynourika5218
    @erynourika5218 6 ปีที่แล้ว

    Great explanation. helps a lot

  • @highground3609
    @highground3609 ปีที่แล้ว

    I have a "chicken or egg" type question!
    where does the uniprot database come from? if it is the mass spectrometer that gives the sequence information, does the uniprot database derive from mass spec data?
    I also have another question; is uniprot different from a spectral library database for data independent acquisitions?

  • @shimonaahlawat5506
    @shimonaahlawat5506 2 ปีที่แล้ว

    Which software you have used for matching the fragment ion of peptide?

    • @mattpadula837
      @mattpadula837 2 ปีที่แล้ว

      They are mainly manually annotated. Otherwise, I have used Peaks Studio since v4.5 (~10+ years).

  • @leoalmeida2583
    @leoalmeida2583 2 ปีที่แล้ว

    Can you please name that 2010 paper?

    • @MatthewPadula
      @MatthewPadula  2 ปีที่แล้ว

      Can you be more specific?

    • @leoalmeida2583
      @leoalmeida2583 2 ปีที่แล้ว

      @@MatthewPadula I wanted to read the paper at 13:20 but I could not find it on the internet.

    • @MatthewPadula
      @MatthewPadula  2 ปีที่แล้ว +1

      @@leoalmeida2583 Nesvizhskii, A. I. (2010). "A survey of computational methods and error rate estimation procedures for peptide and protein identification in shotgun proteomics." J Proteomics 73(11): 2092-2123.

    • @leoalmeida2583
      @leoalmeida2583 2 ปีที่แล้ว

      @@MatthewPadula thank you very much. I started my journey into proteomics and your channel has been very useful.

    • @brookcommunitytheatre9368
      @brookcommunitytheatre9368 2 ปีที่แล้ว +1

      @@leoalmeida2583 Excellent. Don't be afraid to ask more questions. Either here or via email.