Data & Analysis
The data that we generate contains much information but is not always easy to access without specialized knowledge and software. Therefore, we try to make the results for our analysis accessible by creating Excel based reports accompanied by a descriptive email and if needed, a PowerPoint or PDF to visualize the data.
For Excel files we have created a cheat sheet which can help in deciphering the different metrics and columns typically presented in our Excel Reports.
What to expect?
For protein identifications we provide the an Excel report as a list of matched proteins based on either an False Discovery Rate (FDR) of 1% or 5% or an filtering based on number of matched peptides and/or scores. For each matched proteins we will report the associated signal which can be the average-area-of-the-3-most-abundant-peptides or an summed intensity of matched peptides assigned to the given protein. If more than one sample was submitted, we will typically use a matrix format where the calculated protein signal will be noted for each protein per samples.
Topics (to come):
How we report,
Typically software for identification and quantitation
How we store data and for how long.
Typically place to store primary data when publishing: PRIDE which is a proteomics data data repository hosted by EBI.