Thermo Fisher Scientific Proteome Discoverer & Compound Discoverer User Meetings
We are delighted to invite you to our annual user meetings, taking place 9 - 11 December 2025 in Bremen, Germany.
These meetings are designed to help you make the most of your software — whether you’re new to the platform or looking to expand your expertise. You’ll hear real-world case studies, explore cutting-edge workflows, and gain practical insights from Thermo Fisher Scientific experts and fellow users.
This year’s program builds on the success of previous user meetings and includes:
- An optional full training day to strengthen your skills
- Two days of interactive sessions, user presentations, and best practice discussions
- A group networking dinner
- An optional guided tour of our Bremen factory or 1-2-1 discussions with experts (sign up at the event)
Our scientists, developers, and partners will be there to share the latest developments and answer your questions. Don’t miss this opportunity to learn, connect, and grow with the community.
Prices for the meetings are:
- 1-day software training | 9 Dec | €170
- 2-day user meeting | 10 - 11 Dec | €380
Early bird discount available now: Register now for both the training and the user meeting and get the training day for free (limited to 20 free places for Compound Discoverer and 10 places for Proteome Discoverer).
Proteome Discoverer
Proteome Discoverer Software user meeting
- 9-11 December 2025
- 8:45 a.m. to 6 p.m. | Conference Rooms 3 & 4 | Atlantic Grand Hotel | Bremen, Germany
Deepen your understanding of Thermo Scientific Proteome Discoverer Software and unlock new ways to advance your proteomics research. This dedicated meeting is tailored for researchers and analysts working with the software, covering topics from experimental design to data processing and interpretation.
What to expect:
- Optional full-day training: Get hands-on experience and practical tips
- Latest developments and new features in recent software releases
- Case studies from fellow users and real-world workflows
- Interactive discussions with Thermo Fisher experts and your peers
Proteome Discoverer Software Training agenda | Tue, 9 December 2025
8:45 a.m. Registration desk opens
9:25 a.m. Welcome, introduction
9:30 a.m. Session 1: Overview of supported workflows
11:00 a.m. Coffee break
11:30 a.m. Session 2: LFQ workflows
1:00 pm Lunch
2:00 p.m. Session 3: TMT workflows
3:00 p.m. Session 4: Study designs and statistics
3:30 p.m. Coffee break
4:00 p.m. Session 5: Identification of PTMs
5:00 p.m. Session 6: Hybrid DIA and targeted workflows
5:30 p.m. Q&A and wrap up
Proteome Discoverer Software User Meeting agenda | Wed, 10 December 2025
8:45 a.m. Registration desk opens
9:30 a.m. Welcome and Introduction
10.00 a.m. Introducing Proteome Discoverer 3.3 Software
10.30 a.m. Introducing the Thermo Scientific Orbitrap Astral Zoom MS
11.00 a.m. Coffee break
11.30 a.m. Hybrid DIA and targeted workflows
12.00 p.m. DIA-NN for proteomics data analysis
12:30 p.m. DIA-NN data processing in Proteome Discoverer Software
1.00 p.m. Lunch
2:00 p.m. Thermo Scientific Pierce Fe-NTA Phosphopeptide Enrichment Kit
2:30 p.m. PTM analysis in Proteome Discoverer Software
3:00 p.m. Customer presentation
3:30 p.m. Coffee break
4:00 p.m. Introducing Thermo Scientific ProsightPD 4.5 Software
4:30 p.m. Q&A
5:00 p.m. Wrap up Day 1
7.30 p.m. Networking dinner at Canova Restaurant & Café in der Kunsthalle
Proteome Discoverer Software User Meeting agenda | Thu, 11 December 2025
9:00 a.m. Best practices for experimental design and data processing
9:30 a.m. Statistical approaches in Proteome Discoverer Software incl. Statistics Insights
10:00 a.m. Protein Grouping and FDR
10:30 a.m. Coffee break
11:00 a.m. Olink® NGS-based proteomics data
11:30 a.m. Processing TMT32plex data in Proteome Discoverer Software
12:00 p.m. Customer presentation
12.30 p.m. Lunch
1:30 p.m. Customer presentation
2:00 p.m. Q&A
3:00 p.m. Wrap up Day 2
3:30 p.m. Optional: Factory tour (duration approx. 1.5hr) OR 1-2-1 discussions with experts
Compound Discoverer
Compound Discoverer Software user meeting
- 9-11 December 2025
- 8:45 a.m. to 6 p.m. | Goldener Saal | Atlantic Grand Hotel | Bremen, Germany
Explore the power of Thermo Scientific Compound Discoverer Software for small molecule analysis, metabolomics, and beyond. This user meeting is designed for scientists working with the software who want to streamline their workflows, discover new insights, and get the most from their data.
What to expect:
- Optional full-day training: Get hands-on experience and practical tips
- Latest developments and new features in recent software releases
- Case studies from fellow users and collaborative partners
- Interactive discussions with Thermo Fisher experts and your peers
Compound Discoverer Software Training agenda | Tue, 9 December 2025
8:45 a.m. Registration desk opens
9:25 a.m. Welcome, introduction
9:30 a.m. Session 1: How to get started for new users
11:00 a.m. Coffee break
11:30 a.m. Session 2: Untargeted applications e.g. metabolomics/E&L/environmental
1:00 p.m. Lunch
2:00 p.m. Session 3: MetID/transformation/environmental fate/etc.
3:30 p.m. Coffee break
4:00 p.m. Session 4: Specialized tools
5:00 p.m. Q&A & wrap up
Compound Discoverer Software User Meeting agenda | Wed, 10 December 2025
8:45 a.m. Registration desk opens
9:25 a.m. Welcome, introduction
9:30 a.m. Recap of enhancements in Compound Discoverer 3.4 Software
10:30 a.m. Introducing Compound Discoverer 3.5 Software
11:00 a.m. Coffee break
11:30 a.m. User presentation
12:00 p.m. Update on Spectral Libraries
12:30 p.m. Lunch
1:30 p.m. New features in mzCloud
2:00 p.m. User presentation
2:30 p.m. Reporting compound annotation confidence using automated scoring
3:00 p.m. Coffee break
3:30 p.m. Accessing Compound Discoverer Result Files using PyEDS
4:00 p.m. How to create a scripting node
4:30 p.m. Untargeted PFAS analysis in Compound Discoverer Software
5:00 p.m. Q&A & wrap up Day 1
7:30p.m. Networking dinner at Canova Restaurant & Café in der Kunsthalle
Compound Discoverer Software User Meeting agenda | Thu, 11 December 2025
9:00 a.m. Discussion: Best practices for experiment design, acquisition & processing
10:00 a.m. User presentation
10:30 a.m. Coffee break
11:00 a.m. Stable isotope labeling (targeted and untargeted)
11:30 a.m. Neutral loss search & compound class scoring
12:00 p.m. Molecular Networking
12:30 p.m. Lunch
1:30 p.m. GC-HRMS workflows in Compound Discoverer Software
2:00 p.m. Tips & tricks: Import/export, table navigation, summaries, custom plots…
2:30 p.m. Q&A & wrap up Day 2
3:00 p.m. Optional: Factory tour (duration approx. 1.5hr) OR 1-2-1 discussions with experts
