Research Groups

Mass Spectrometry at Dresdner Campus: A Road Map

MS Community Dresden:

The MS Community provides support to biological and clinical research projects carried at the Campus. It comprises MS-Facilities and MS-research groups from the MPI CBG, UKD, CMCB (TUD), CRTD and NCT, and Lipotype GmbH. The sites host more than 20 high-end MS instruments and have expertise in MS-based Lipidomics, Proteomics and Metabolomics. We work on service base and open for research collaborations. To our activities belong regular meetings, organization of ms-events, MS journal club and scientific consulting.

Events schedule

2021

X'Mass updates 2021 (hybrid format)

Host: Andrej Shevchenko
Speakers: TBA, please send your suggestions to clinical.lipidomicsmpi-cbg.de by mid November
Date and time: 07.12.2021, TBA
Location: https://zoom.us/j/5587099875 and MPI-CBG

MS Community welcomes: Dr. Wei Gao

Host: Andrej Shevchenko
Speaker: Dr. Wei Gao, a leader of MS unit at the Faculty of Psychology, TU Dresden
Topic: Research of stress biomarker based on LC-MS/MS
Date and time: 30.11.2021, 14:00.
Location: https://zoom.us/j/5587099875

The Lipidomics Webinar #3: Why Population Health Studies Must Include Lipidomics

Speaker: Christian Klose
Topic: Population health studies frequently rely on omics technologies but biomarker identification studies benefit only if the data are of high quality and reliably reproducible.
Date and time: 02.12.2021 17:00
More info and Registration: www.lipotype.com/lipidomics-webinars/why-population-health-studies-must-run-lipidomics

MS Community welcomes: Dr. Maria Fedorova

Host: Andrej Shevchenko
Speaker: Maria Fedorova, a group leader at the Center of Membrane Biochemistry and Lipid Research at the Medical Faculty of the TU Dresden
Topic: Lipid metabolism: analysis and integration
Date and time: 16.11.2021, 14:00.
Location: https://zoom.us/j/5587099875

The Lipidomics Webinar #2: Mouse Lipidomics: A Perfect Match?

Speaker: Christian Klose
Topic: Mouse has shown a remarkable specificity of lipids in different cells, tissues, and organs. The mouse lipidomics atlas facilitates experimental design and interpretation in mouse studies.
Date and time: 19.10.2021 17:00
More info and Registration: www.lipotype.com/lipidomics-webinars/mouse-lipidomics-for-clinical-research/

Journal club

Host: Canan Has
Topic: New open-source tools for MS-based proteomics
Paper: https://www.nature.com/articles/s41467-021-22303-zhttps://doi.org/10.1093/bioinformatics/btab674
https://doi.org/10.1101/2021.07.23.453379https://www.nature.com/articles/s41467-021-22303-z
www.nature.com/articles/s41467-021-22303-z
Date and time: 12.10.2020, 14:00.
Location: ZOOM https://zoom.us/j/5587099875

MS Summer digest

3 talks 3 minutes each:
1. Dr. Marc: NHS-Ester Tandem Labeling in One Pot Enables 48-Plex Quantitative Proteomics
2. Dr. Kai: Isomer Selective Comprehensive Lipidomics Analysis of Phosphoinositides in Biological Samples by Liquid Chromatography with Data Independent Acquisition Tandem Mass Spectrometry
3. pre-Dr. Tobi: Ultra-fast proteomics with Scanning SWATH
4. Q&A and general discussion

Date and time: 28.09.2021 14:00
Location: ZOOM https://zoom.us/j/5587099875

The Lipidomics Webinar #1: Lipids are Cool Again

Speaker: Kai Simons
Topic: Lipid metabolism homeostasis is essential for life, but the ongoing obesity pandemic threatens it. Blood lipidomics profiles may help stem the obesity affliction. Lipids are coming back.
Date and time: 21.09.2021 17:00
More info and Registration: https://www.lipotype.com/lipidomics-webinars/introduction-to-lipids-and-lipidomics/

MS4U Discussion club: Mass Cytometry

Host: Andrej Shevchenko
Speaker: Claudia Peitzsch
Topic: Introduction to the suspension mass cytometry method
Paper: https://www.nature.com/articles/s41467-021-22303-z
Date and time: 08.06.2020, 14:00.
Location: ZOOM https://zoom.us/j/5587099875

MS4U Discussion club: Organoids Omics

Agenda:
1. Olya will talk about Lipidomics and Organoids  ~15 mins
2. Sofia will talk about Metabolomics and Organoids  ~15 mins
3. Ignacy will talk about Proteomics and Organoids  ~15 mins
4. Q&A and general discussion

Date and time: 01.06.2021 14:00
Location: ZOOM https://zoom.us/j/5587099875

Journal club

Host: Kai
Topic: A combined flow injection/reversed-phase chromatography-high-resolution mass spectrometry workflow for accurate absolute lipid quantification with 13C internal standards
Paper: https://pubs.rsc.org/en/content/articlehtml/2021/an/d0an02443k 
Date and time: 20.04.2021, 14:00.
Location: ZOOM https://zoom.us/j/5587099875

Journal club

Host: Andrej
Topic: Hybrid QconCAT-Based Targeted Absolute and Data-Independent Acquisition-Based Label-Free Quantification Enables In-Depth Proteomic Characterization of Wheat Amylase/Trypsin Inhibitor Extracts
Paper: https://pubs.acs.org/doi/full/10.1021/acs.jproteome.0c00752 
Date and time: 13.04.2021, 14:00.
Location: ZOOM https://zoom.us/j/5587099875

Journal club

Host: Olya
Topic: LIPIC: An Automated Workflow to Account for Isotopologue-Related Interferences in Electrospray Ionization High-Resolution Mass Spectra of Phospholipids
Paper: https://pubs.acs.org/doi/abs/10.1021/jasms.1c00008
Date and time: 06.04.2021, 14:00.
Location: ZOOM https://zoom.us/j/5587099875

MS4U Discussion club: protein cross-linking

Agenda:
1. Overview of XL-MS methods: principles, limitations, software
2. Application
Guest stars: - Alexander von Appen (Alex starts his lab here in a few weeks) and Adrian Nievergelt (Pigino group) - will talk how XL-MS could foster their research
3. Q&A and general discussion

Host: MS Community
Topic: Protein cross-linking
Date and time: 23.03.2021 14:00
Location: ZOOM https://zoom.us/j/5587099875

 

Journal club

Host: Olya
Topic: AI-driven Deep Visual Proteomics defines cell identity and heterogeneity
Paper: https://www.biorxiv.org/content/10.1101/2021.01.25.427969v1.full.pdf
Date and time: 16.02.2021, 14:00.
Location: ZOOM https://zoom.us/j/5587099875

 

MS4U Journal club

Host: Sarita Hebbar (Knust lab) and MS Community
Topic: Dynamic redox balance directs the oocyte-to-embryo transition via developmentally controlled reactive cysteine changes
Paper: https://www.pnas.org/content/pnas/115/34/E7978.full.pdf
Date and time: 02.02.2021, 14:00.
Location: ZOOM https://zoom.us/j/5587099875

 

 

Omics Flash Talks 2021

Our annual get-together in the format of flash talks. Please join our friendly talks, share the news on your omics scientific landscape and stay connected.

Host: Andrej Shevchenko
Date and time: 26.01.2020, 14:00-17:00.
Location: ZOOM https://zoom.us/j/5587099875

14:00-14:05

Dr. Andrej Shevchenko

Welcome and introduction

 

14:05-14:15

Dr. Ignacy Rzagalinski

Fast-tracking QconCAT approach for absolute protein quantification

Shevchenko lab, Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany

14:15-14:25

Dr. Bharath Raghuraman

Absolute quantification: Pathway to proteome

14:25-14:35

Dr. Christian Klose

Lipotype's Highlights in 2020

Lipotype, Dresden, Germany

14:35-14:45

Nikolai Köhler, PhD researcher

Systemic Lipidome Alterations in HCC-induced Cachexia

Pauling lab, Computational Systems Medicine on Lipids and Metabolism,  Technical University Munich, Germany

14:45-14:55

BREAK  for coffee and chat

14:55-15:05

Tim Rose, PhD researcher &

Dr. Olga Vvedenskaya

Spartans project: subgroups of NAFL patients based on lipidomics

Pauling lab & Shevchenko lab

15:05-15:15

Anna TkachevPhD researcher

Extensive feature degenerecies in untargeted LC-MS experiments: how many lipid compounds are we quantifying?

Khaitovich lab, Center for Neurobiology and Brain Restoration, Skolkovo Institute of Science and Technology, Moscow, Russia

15:15-15:25

Aleskandra MitinaPhD researcher

Role of breast milk lipid composition in postnatal brain development

15:25 - 15:35

Dr. Matthias Pietzke

Towards a More Reliable Identification of Isomeric Metabolites Using Pattern Guided Retention Validation

Kempa lab, Proteomics and Metabolomics Platform, Max-Delbrück-Centrum for Molecular Medicine, Berlin, Germany

15:35-15:50

Dr. Christof Mitterer

Nano-pillar columns separation technique from Microfluidics

PharmaFluidics NV, Gent, Belgium

15:50-16:00

BREAK  for coffee and chat

16:00-16:10

Dr. Marcus Höring

Updates from Liebisch lab and future plans

Liebisch lab, Clinical Chemistry and Laboratory Medicine, University of Regensburg, Germany

16:10-16:20

Dr. Iqbal Mahmud

Unraveling Fusobacterium nucleatum Mediated Metabolic Pathway Alterations in Cancer Cells  using High Resolution Mass Spectrometry

Garrett Laboratory, Department of Pathology, Immunology, and Laboratory medicine, College of Medicine |University of Florida, FL, USA

16:20-16:30

Dr. Sofia Traikov

Metabolomics in Dresden Campus and future plans

Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany

16:30-16:40

Dr. Pia Hoenscheid

The national Covid project and future plans

National Center for Tumor Diseases, Dresden, Germany

16:40-16:45

Dr. Andrej Shevchenko

Closing remarks

 

 

Journal club

Host: Bharath
Topic: Quantitative shotgun proteome analysis by direct infusion
Paper: https://www.nature.com/articles/s41592-020-00999-z
Date and time: 19.01.2021, 14:00.
Location: ZOOM https://zoom.us/j/5587099875

The JC rules are the following:

  1. The assigned person choses the paper in advance and sends it around, but does not present it.
  2. Most importantly, Everyone Reads the Paper!
  3. Starting person (randomly chosen) describes (questiones, criticizes) the first figure/paragraph/topic, and all together we try to figure out what authors wanted to say. The second person (randomly chosen) describes the second figure and so on.
  4. Please come if you read the paper.
  5. If you bring your colleagues or friends, make sure that they are aware of the rules.

For more information please contact

Olga Vvedenskaya

News

New research group in Dresden MS Community

Dr. Maria Fedorova appointed research group leader at the Center for Membrane Biochemistry and Lipid Research, Dresden, Germany.

 

MS Journal Club for Users (MS4U) series

This series is supported by Campus MS community, continues from November 2020.

New JC format aims to compensate absence of face-to-face meetings, and help scientists and medical crowd to to assess ms-based publications in their research field. It should also tighten contacts between scientific research community and analytics available at the Campus.

These monthly meetings will be helpful for you if
- you would like to know more about how exactly MS works
- you would like to know how MS technology can contribute to your research
- you would like to use certain MS method

 

in Media

[in German] https://www.nct-dresden.de/das-nctucc-dresden/newsroom/aktuelles.html

[in English] https://tu-dresden.de/tu-dresden/newsportal/news/tumor-characterization-using-mass-spectrometry-new-community-supports-research-projects-in-dresden