The Summer School provides hands-on training in computational analysis of proteomics data generated by modern mass spectrometers. The practical parts will enable participants to perform sophisticated quantitative data analysis in their own future research using the publicly available MaxQuant and Perseus software.


MaxQuant Summer School 2025 will be in Utrecht!


Registration is open now!

Please register here: Eventbrite



Plenary speakers


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Alexander Makarov
Thermo Fisher Scientific

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Albert Heck
Utrecht University

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Kelly Stecker
Utrecht University

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Noortje de Haan
Leiden University Medical Centre

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Ron Heeren
Maastricht University


Schedule for time zone UTC-12

Time/Day Sunday, July 20 Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25
00:00
Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
00:45
Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A
01:30
Coffee break Coffee break Coffee break Coffee break Coffee break
02:00
MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
02:45
MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A
03:30
Q&A Q&A Q&A
18:45 Opening Announcements Announcements Announcements Announcements
19:00 Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
19:45 Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations
20:30 Coffee break Coffee break Coffee break Coffee break Coffee break
21:00 Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
21:45 MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions
22:30 Lunch break Lunch break Lunch break Lunch break Lunch break

Schedule for time zone UTC-11

Time/Day Sunday, July 20 Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25
01:00
Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
01:45
Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A
02:30
Coffee break Coffee break Coffee break Coffee break Coffee break
03:00
MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
03:45
MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A
04:30
Q&A Q&A Q&A
19:45 Opening Announcements Announcements Announcements Announcements
20:00 Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
20:45 Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations
21:30 Coffee break Coffee break Coffee break Coffee break Coffee break
22:00 Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
22:45 MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions
23:30 Lunch break Lunch break Lunch break Lunch break Lunch break

Schedule for time zone UTC-10

Time/Day Sunday, July 20 Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25
00:30
Lunch break Lunch break Lunch break Lunch break Lunch break
02:00
Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
02:45
Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A
03:30
Coffee break Coffee break Coffee break Coffee break Coffee break
04:00
MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
04:45
MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A
05:30
Q&A Q&A Q&A
20:45 Opening Announcements Announcements Announcements Announcements
21:00 Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
21:45 Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations
22:30 Coffee break Coffee break Coffee break Coffee break Coffee break
23:00 Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
23:45 MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions

Schedule for time zone UTC-9

Time/Day Sunday, July 20 Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25
00:00
Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
00:45
MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions
01:30
Lunch break Lunch break Lunch break Lunch break Lunch break
03:00
Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
03:45
Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A
04:30
Coffee break Coffee break Coffee break Coffee break Coffee break
05:00
MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
05:45
MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A
06:30
Q&A Q&A Q&A
21:45 Opening Announcements Announcements Announcements Announcements
22:00 Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
22:45 Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations
23:30 Coffee break Coffee break Coffee break Coffee break Coffee break

Schedule for time zone UTC-8

Time/Day Sunday, July 20 Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25
00:30
Coffee break Coffee break Coffee break Coffee break Coffee break
01:00
Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
01:45
MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions
02:30
Lunch break Lunch break Lunch break Lunch break Lunch break
04:00
Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
04:45
Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A
05:30
Coffee break Coffee break Coffee break Coffee break Coffee break
06:00
MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
06:45
MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A
07:30
Q&A Q&A Q&A
22:45 Opening Announcements Announcements Announcements Announcements
23:00 Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
23:45 Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations

Schedule for time zone UTC-7

Time/Day Sunday, July 20 Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25
00:00
Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
00:45
Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations
01:30
Coffee break Coffee break Coffee break Coffee break Coffee break
02:00
Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
02:45
MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions
03:30
Lunch break Lunch break Lunch break Lunch break Lunch break
05:00
Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
05:45
Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A
06:30
Coffee break Coffee break Coffee break Coffee break Coffee break
07:00
MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
07:45
MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A
08:30
Q&A Q&A Q&A
23:45 Opening Announcements Announcements Announcements Announcements

Schedule for time zone UTC-6

Time/Day Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25
00:45 Opening Announcements Announcements Announcements Announcements
01:00 Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
01:45 Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations
02:30 Coffee break Coffee break Coffee break Coffee break Coffee break
03:00 Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
03:45 MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions
04:30 Lunch break Lunch break Lunch break Lunch break Lunch break
06:00 Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
06:45 Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A
07:30 Coffee break Coffee break Coffee break Coffee break Coffee break
08:00 MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
08:45 MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A
09:30 Q&A Q&A Q&A

Schedule for time zone UTC-5

Time/Day Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25
01:45 Opening Announcements Announcements Announcements Announcements
02:00 Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
02:45 Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations
03:30 Coffee break Coffee break Coffee break Coffee break Coffee break
04:00 Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
04:45 MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions
05:30 Lunch break Lunch break Lunch break Lunch break Lunch break
07:00 Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
07:45 Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A
08:30 Coffee break Coffee break Coffee break Coffee break Coffee break
09:00 MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
09:45 MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A
10:30 Q&A Q&A Q&A

Schedule for time zone UTC-4

Time/Day Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25
02:45 Opening Announcements Announcements Announcements Announcements
03:00 Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
03:45 Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations
04:30 Coffee break Coffee break Coffee break Coffee break Coffee break
05:00 Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
05:45 MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions
06:30 Lunch break Lunch break Lunch break Lunch break Lunch break
08:00 Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
08:45 Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A
09:30 Coffee break Coffee break Coffee break Coffee break Coffee break
10:00 MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
10:45 MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A
11:30 Q&A Q&A Q&A

Schedule for time zone UTC-3

Time/Day Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25
03:45 Opening Announcements Announcements Announcements Announcements
04:00 Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
04:45 Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations
05:30 Coffee break Coffee break Coffee break Coffee break Coffee break
06:00 Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
06:45 MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions
07:30 Lunch break Lunch break Lunch break Lunch break Lunch break
09:00 Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
09:45 Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A
10:30 Coffee break Coffee break Coffee break Coffee break Coffee break
11:00 MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
11:45 MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A
12:30 Q&A Q&A Q&A

Schedule for time zone UTC-2

Time/Day Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25
04:45 Opening Announcements Announcements Announcements Announcements
05:00 Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
05:45 Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations
06:30 Coffee break Coffee break Coffee break Coffee break Coffee break
07:00 Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
07:45 MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions
08:30 Lunch break Lunch break Lunch break Lunch break Lunch break
10:00 Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
10:45 Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A
11:30 Coffee break Coffee break Coffee break Coffee break Coffee break
12:00 MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
12:45 MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A
13:30 Q&A Q&A Q&A

Schedule for time zone UTC-1

Time/Day Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25
05:45 Opening Announcements Announcements Announcements Announcements
06:00 Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
06:45 Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations
07:30 Coffee break Coffee break Coffee break Coffee break Coffee break
08:00 Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
08:45 MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions
09:30 Lunch break Lunch break Lunch break Lunch break Lunch break
11:00 Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
11:45 Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A
12:30 Coffee break Coffee break Coffee break Coffee break Coffee break
13:00 MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
13:45 MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A
14:30 Q&A Q&A Q&A

Schedule for time zone UTC+0

Time/Day Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25
06:45 Opening Announcements Announcements Announcements Announcements
07:00 Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
07:45 Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations
08:30 Coffee break Coffee break Coffee break Coffee break Coffee break
09:00 Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
09:45 MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions
10:30 Lunch break Lunch break Lunch break Lunch break Lunch break
12:00 Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
12:45 Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A
13:30 Coffee break Coffee break Coffee break Coffee break Coffee break
14:00 MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
14:45 MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A
15:30 Q&A Q&A Q&A

Schedule for time zone UTC+1

Time/Day Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25
07:45 Opening Announcements Announcements Announcements Announcements
08:00 Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
08:45 Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations
09:30 Coffee break Coffee break Coffee break Coffee break Coffee break
10:00 Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
10:45 MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions
11:30 Lunch break Lunch break Lunch break Lunch break Lunch break
13:00 Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
13:45 Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A
14:30 Coffee break Coffee break Coffee break Coffee break Coffee break
15:00 MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
15:45 MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A
16:30 Q&A Q&A Q&A

Schedule for time zone UTC+2

Time/Day Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25
08:45 Opening Announcements Announcements Announcements Announcements
09:00 Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
09:45 Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations
10:30 Coffee break Coffee break Coffee break Coffee break Coffee break
11:00 Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
11:45 MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions
12:30 Lunch break Lunch break Lunch break Lunch break Lunch break
14:00 Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
14:45 Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A
15:30 Coffee break Coffee break Coffee break Coffee break Coffee break
16:00 MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
16:45 MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A
17:30 Q&A Q&A Q&A

Schedule for time zone UTC+3

Time/Day Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25
09:45 Opening Announcements Announcements Announcements Announcements
10:00 Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
10:45 Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations
11:30 Coffee break Coffee break Coffee break Coffee break Coffee break
12:00 Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
12:45 MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions
13:30 Lunch break Lunch break Lunch break Lunch break Lunch break
15:00 Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
15:45 Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A
16:30 Coffee break Coffee break Coffee break Coffee break Coffee break
17:00 MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
17:45 MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A
18:30 Q&A Q&A Q&A

Schedule for time zone UTC+4

Time/Day Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25
10:45 Opening Announcements Announcements Announcements Announcements
11:00 Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
11:45 Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations
12:30 Coffee break Coffee break Coffee break Coffee break Coffee break
13:00 Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
13:45 MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions
14:30 Lunch break Lunch break Lunch break Lunch break Lunch break
16:00 Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
16:45 Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A
17:30 Coffee break Coffee break Coffee break Coffee break Coffee break
18:00 MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
18:45 MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A
19:30 Q&A Q&A Q&A

Schedule for time zone UTC+5

Time/Day Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25
11:45 Opening Announcements Announcements Announcements Announcements
12:00 Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
12:45 Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations
13:30 Coffee break Coffee break Coffee break Coffee break Coffee break
14:00 Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
14:45 MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions
15:30 Lunch break Lunch break Lunch break Lunch break Lunch break
17:00 Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
17:45 Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A
18:30 Coffee break Coffee break Coffee break Coffee break Coffee break
19:00 MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
19:45 MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A
20:30 Q&A Q&A Q&A

Schedule for time zone UTC+6

Time/Day Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25
12:45 Opening Announcements Announcements Announcements Announcements
13:00 Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
13:45 Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations
14:30 Coffee break Coffee break Coffee break Coffee break Coffee break
15:00 Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
15:45 MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions
16:30 Lunch break Lunch break Lunch break Lunch break Lunch break
18:00 Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
18:45 Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A
19:30 Coffee break Coffee break Coffee break Coffee break Coffee break
20:00 MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
20:45 MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A
21:30 Q&A Q&A Q&A

Schedule for time zone UTC+7

Time/Day Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25
13:45 Opening Announcements Announcements Announcements Announcements
14:00 Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
14:45 Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations
15:30 Coffee break Coffee break Coffee break Coffee break Coffee break
16:00 Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
16:45 MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions
17:30 Lunch break Lunch break Lunch break Lunch break Lunch break
19:00 Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
19:45 Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A
20:30 Coffee break Coffee break Coffee break Coffee break Coffee break
21:00 MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
21:45 MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A
22:30 Q&A Q&A Q&A

Schedule for time zone UTC+8

Time/Day Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25
14:45 Opening Announcements Announcements Announcements Announcements
15:00 Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
15:45 Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations
16:30 Coffee break Coffee break Coffee break Coffee break Coffee break
17:00 Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
17:45 MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions
18:30 Lunch break Lunch break Lunch break Lunch break Lunch break
20:00 Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
20:45 Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A
21:30 Coffee break Coffee break Coffee break Coffee break Coffee break
22:00 MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
22:45 MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A
23:30 Q&A Q&A Q&A

Schedule for time zone UTC+9

Time/Day Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25 Saturday, July 26
00:30
Q&A Q&A Q&A
15:45 Opening Announcements Announcements Announcements Announcements
16:00 Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
16:45 Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations
17:30 Coffee break Coffee break Coffee break Coffee break Coffee break
18:00 Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
18:45 MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions
19:30 Lunch break Lunch break Lunch break Lunch break Lunch break
21:00 Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
21:45 Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A
22:30 Coffee break Coffee break Coffee break Coffee break Coffee break
23:00 MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
23:45 MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A

Schedule for time zone UTC+10

Time/Day Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25 Saturday, July 26
00:00
MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
00:45
MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A
01:30
Q&A Q&A Q&A
16:45 Opening Announcements Announcements Announcements Announcements
17:00 Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
17:45 Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations
18:30 Coffee break Coffee break Coffee break Coffee break Coffee break
19:00 Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
19:45 MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions
20:30 Lunch break Lunch break Lunch break Lunch break Lunch break
22:00 Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
22:45 Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A
23:30 Coffee break Coffee break Coffee break Coffee break Coffee break

Schedule for time zone UTC+11

Time/Day Monday, July 21 Tuesday, July 22 Wednesday, July 23 Thursday, July 24 Friday, July 25 Saturday, July 26
00:30
Coffee break Coffee break Coffee break Coffee break Coffee break
01:00
MaxQuant DDA basics Isobaric labeling Ion mobility CCS MaxQuant Atlas Q&A
01:45
MaxQuant DDA intermediate Isobaric labeling Q&A SDRF Q&A
02:30
Q&A Q&A Q&A
17:45 Opening Announcements Announcements Announcements Announcements
18:00 Mass spectrometry-based proteomics DIA identification Output tables PTMs theory Cross linking
18:45 Mass spectrometry-based proteomics DIA identification Kelly E. Stecker
Keynote speaker 		PTMs (MaxQuant) Participants presentations
19:30 Coffee break Coffee break Coffee break Coffee break Coffee break
20:00 Andromeda search engine DIA quantification & multiplexing Perseus introduction PTMs Cross linking
20:45 MaxQuant DDA workflow Machine learning and spectrum prediction Perseus basics I PTMs Interactions
21:30 Lunch break Lunch break Lunch break Lunch break Lunch break
23:00 Alexander Makarov
Keynote speaker 		Albert J. R. Heck
Keynote speaker 		Perseus basics II Noortje de Haan
Keynote speaker 		Ron Heeren
Keynote speaker
23:45 Label-free quantification DIA Perseus intermediate Single cell proteomics Q&A


Organizing Committee


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Jürgen Cox
MPI of Biochemistry

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Albert Heck
Utrecht University

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Corine Heuzer
Utrecht University

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Pavel Sinitcyn
Utrecht University


Event Curators


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Pelagia Kyriakidou
MPI of Biochemistry

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Jinqiu Xiao
MPI of Biochemistry

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Carlo De Nart
MPI of Biochemistry

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Juan Restrepo Lopez
MPI of Biochemistry

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Dmitry Alexeev
MPI of Biochemistry

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Shamil Urazbakhtin
MPI of Biochemistry

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Walter Viegener
MPI of Biochemistry

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Wenjie Bi
MPI of Biochemistry




Summer School Contacts:

For questions send an e-mail to the following address: summerschool@maxquant.de

Physical address:
Max-Planck-Institute of Biochemistry - Computational Systems Biochemistry
Am Klopferspitz 18, D-82152 Martinsried, Germany