Mascot: The trusted reference standard for protein identification by mass spectrometry for 25 years

Classic training course (archive recording, 2014)

The classic training course describes Mascot Server 2.5, Mascot Distiller 2.5 and Mascot Daemon 2.5. These videos were recorded in 2014, originally as an intensive 2-day course that covers every aspect of protein identification and characterisation using Mascot.

The video recordings are available on our Youtube channel. If there are any technical problems accessing or viewing the material, please email

We recommend viewing the presentations in order, because they occasionally refer back to material covered earlier. For most presentations, there are web-based practical exercises that will reinforce the most important messages. Links to resources and papers mentioned in the videos are listed in the video description.

After viewing the talks, you may find it useful to refer to archived copies of slides and speaker notes.

Module Mascot 2.5
Introduction to Database Searching using Mascot PDF
Search Parameters PDF
Sequence Databases PDF
Modifications PDF
Scoring and Statistics PDF
Very Large Searches PDF
Mascot Distiller PDF
Sequence Queries PDF
Mascot Daemon PDF
Quantitation PDF
Sequence Database Administration PDF
Administration and Configuration PDF