I thought I did. Here's what I wrote regarding XPRESS: It simply reports light area to heavy area ratios. You'll have to do adjustments after the fact i.e. centering the mean ratio to 1:1 if you expect the bulk of your samples to be 1:1.
If that doesn't answer your normalization question, please clarify. On Thu, Nov 30, 2023 at 6:11 PM sudarshan kumar <kumarsuders...@gmail.com> wrote: > Hi Jimmy, > Can you please explain my query. > Regards, > Sud > > On Wed, Nov 22, 2023 at 3:13 PM sudarshan kumar <kumarsuders...@gmail.com> > wrote: > >> Oh ! thank you >> Let me explain- >> I have mixed two samples light and heavy labelled proteins (at cell level) >> But if the cell count was not equal in the two groups, it will result in >> unequal contribution of proteins to the mixture. In this case the ratio L/H >> for individual protein will not be correct. >> The solution is normalization (as we do in St. Peter) >> >> so I wanted to know if such normalization is done in Express before >> calculating the light to heavy ratio. >> >> >> On Wed, Nov 22, 2023 at 3:07 PM Jimmy Eng <jke...@gmail.com> wrote: >> >>> I don't know what "normalized intensity/peak area" of each peptide means >>> in this context but I can say that XPRESS doesn't do any normalization. It >>> simply reports light area to heavy area ratios. You'll have to do >>> adjustments after the fact i.e. centering the mean ratio to 1:1 if you >>> expect the bulk of your samples to be 1:1. >>> On Wednesday, November 22, 2023 at 1:12:35 PM UTC-8 sudarshan kumar >>> wrote: >>> >>>> How do we know that the express ratio is calculated from the normalized >>>> intensity /peak area of each peptide? >>>> >>>> I ask this question because when we mix the light and heavy samples, >>>> there may be difference in the initial quantity of protein taken from the >>>> two groups. >>>> >>> -- >>> You received this message because you are subscribed to the Google >>> Groups "spctools-discuss" group. >>> To unsubscribe from this group and stop receiving emails from it, send >>> an email to spctools-discuss+unsubscr...@googlegroups.com. >>> To view this discussion on the web visit >>> https://groups.google.com/d/msgid/spctools-discuss/ed5c84e0-054a-4070-a058-3a3237b5bf45n%40googlegroups.com >>> <https://groups.google.com/d/msgid/spctools-discuss/ed5c84e0-054a-4070-a058-3a3237b5bf45n%40googlegroups.com?utm_medium=email&utm_source=footer> >>> . >>> >> >> >> -- >> ------------------------------------------------------------------- >> The real voyage of discovery consists not in seeking new lands but seeing >> with new eyes. — Marcel Proust >> >> Dr. Sudarshan Kumar >> (Fulbright-Nehru Fellow) >> (B.V.Sc.& A.H., M.V.Sc., PhD.) >> Sr. Scientist >> Animal Biotechnology Center >> (Proteomics and Cell Biology Lab.) >> National Dairy Research Institute Karnal, 132001 >> Haryana, India >> Contact No 09254912456 >> URL www.ndri.res.in >> Orcid Id: https://orcid.org/0000-0002-9816-4307 >> >> > > -- > ------------------------------------------------------------------- > The real voyage of discovery consists not in seeking new lands but seeing > with new eyes. — Marcel Proust > > Dr. Sudarshan Kumar > (Fulbright-Nehru Fellow) > (B.V.Sc.& A.H., M.V.Sc., PhD.) > Sr. Scientist > Animal Biotechnology Center > (Proteomics and Cell Biology Lab.) > National Dairy Research Institute Karnal, 132001 > Haryana, India > Contact No 09254912456 > URL www.ndri.res.in > Orcid Id: https://orcid.org/0000-0002-9816-4307 > > -- > You received this message because you are subscribed to the Google Groups > "spctools-discuss" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to spctools-discuss+unsubscr...@googlegroups.com. > To view this discussion on the web visit > https://groups.google.com/d/msgid/spctools-discuss/CALZrgHQuJ-A8wATjCO1f5gKKJA%3DfiLtTDZWdzqNtnYsdhAs5eQ%40mail.gmail.com > <https://groups.google.com/d/msgid/spctools-discuss/CALZrgHQuJ-A8wATjCO1f5gKKJA%3DfiLtTDZWdzqNtnYsdhAs5eQ%40mail.gmail.com?utm_medium=email&utm_source=footer> > . > -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To unsubscribe from this group and stop receiving emails from it, send an email to spctools-discuss+unsubscr...@googlegroups.com. To view this discussion on the web visit https://groups.google.com/d/msgid/spctools-discuss/CAJqD6EP9kuBEGRc%3D1hjPE9hm-0E39OG2zHyUrH29tPohFdZ-5Q%40mail.gmail.com.
