What software can I use to analize mzid results from an iTRAQ experiment?
Hi Diego,
Possibly, COMPASS from the Coon lab can do that for you as explained here:
http://pubs.acs.org/doi/ipdf/10.1021/acs.jproteome.6b00006#
Ilian
I need to install this program
25 July 2024 4,756 0 View
Following https://catniplab.github.io/Tafazoli-LearningControlBrain/ and https://insights.princeton.edu/2020/05/learning-to-control-the-brain/ which commercial technology is available ? Probably...
15 July 2024 4,339 0 View
I am new to running PCR gels. I loaded this gel and I thought it was fine, meaning I saw/felt no apparent punctures or spillovers to neighboring wells (see picture 1). When the gel started to run,...
30 June 2024 4,107 4 View
I'been seeing those white spots at the end of my wet-transfer lately. Since the Ponceu Red doesn't stain I guess there isn't any protein. Since it's under the 42kDa mark It isn't a problem since I...
18 June 2024 1,734 0 View
Hello, Can somebody please give me some reference to a paper or book where it is explained how to condensate: * from a Q8 serendipity FE to a Q4 FE with drilling DOFs (16 DOFs to 12 DOFs). *...
05 June 2024 936 1 View
Organoid with Claustro can be linked to LLM Neuroplatform - FinalSpark , finalspark.com/neuroplatform/ can be linked to chatGPT ? What to do with this ? Avatar Pilots ? Studying the case of...
28 May 2024 3,302 0 View
Hi everyone, I am culturing colorectal cancer organoids (Control and Experimental) and I observe a faster growing (number and size of organoids) in experimental condition. Now the question is,...
27 May 2024 9,258 0 View
The truth is that I have had many, many problems to be able to see a specific band of this protein. My problems have ranged from bad transfers, to unknowns that I have not been able to answer. The...
26 April 2024 8,595 4 View
Hello I have to work with a preform analyzer model 2650 - Photon Kinetics, but I have no preforms yet to start the calibration and the tests. Is it possible use other kind of sample with a well...
25 April 2024 564 1 View
Although I can detect the protein (above 200), leaving it for longer in the transfer (plus 2h), I think I am losing my endogenous protein, as its detection is not getting good. How can I solve it?
07 April 2024 2,338 3 View
I'm currently working on calculating the collision cross section (CCS) for various ions, and I'm facing challenges when dealing with sodiated and multiply charged ions. Most of the resources I’ve...
08 August 2024 8,329 0 View
We intend to study the interaction between peptides and polymer (like PP, PE and PS) through MD simulations using Martini force fields ( Martini 2 for PP and Martini 3 for PE, PS). We have...
08 August 2024 4,842 0 View
Hi, we have measured tryptic peptides using both DDA and DIA method on QExactive. In DDA replicates i saw unusual intensity drops occurring at the same sections of chromatograms in DDA replicates...
07 August 2024 3,218 4 View
I am analyzing cherts from different sources found within one specific geologic formation using ICP-MS/ES. My committee was asking this question about my analysis. I was not sure how to answer this
05 August 2024 7,902 3 View
Have you ever seen a LC-MS/MS method uses both internal standards and external standards (in matrix matching purpose) but the concentrations of internal standards are outside the calibration curve...
05 August 2024 3,084 6 View
Hello, I am currently analyzing some phosphoproteomics data, but I have peptides with multiple phosphorylation sites or phosphorylations together with carbamidomethylation or oxidation. How can I...
04 August 2024 8,432 3 View
Recently I'm trying to use Sep-pack C18 1 cc Vac Cartridge (Waters: SKU: WAT054955) to desalt digested peptides. However, the recovery rate is usually 40-60%. What is the normal recovery rate?
31 July 2024 6,544 11 View
I am currently working on a project involving liposomes and need to determine the maximum volume of siRNA that can be added to a 2.5 mL liposome solution with a total lipid concentration of 10...
30 July 2024 6,420 1 View
Dear Siesta Users, I installed Siesta 5.0.1 and I want to use Grimme's D3 correction. According to the 5.0.1 manual, I could use a few parameters to include the D3 correction in the...
27 July 2024 5,748 0 View
It has been long known that EDC carbodiimide and NHS easter's half life agains hydrolysis are highly related to pH. However, very surprisingly, not yet found a paper giving a table/chart of their...
25 July 2024 8,738 0 View