• 
• 

09/2024

We have been at the Annual Meeting of the German Society for Neuropathology and Neuroanatomy (DGNN) in Regensburg.
Jan Philip Kolb presented our work with Histolution GmbH.
Maximilian Middelkamp presented our work in the digitalpathology field applying the Hierachical image Pyramid Transformer (HIPT) method.
Antonia Gocke presented her work on bioinformatic analyses of copy number variation CNV based on DNA-methylation data.
Well done everyone!

• 
• 

08/2024

Enjoying beautiful Hamburg together with the best team. We paddled along the Alster and Hamburg's canals in perfect weather. After that we had great mexican food.

• 
• 

07/2024

Great to have been part of FENS2024, the largest European Neuroscience Conference. Jelena Navolic presented her work characterizing brain migration disorders using spatial proteomics.

07/2024

Our study focusing on proteomics in medulloblastoma, a malignant primary Brain Tumor is now published in naturecommuncations!
Congratulations to first authors Shweta Godbole and Hannah Voß!
Have a look: https://www.nature.com/articles/s41467-024-50554-z

We performed multiomics analyses integrating DNA methylation, transcriptomics, proteomics and N-glycomics and show new insights into targetable alterations in this aggressive brain disease.
Thanks to the Deutsche Forschungsgemeinschaft (DFG) - German Research Foundation for their funding in the Emmy Noether programme and thanks to Universitätsklinikum Hamburg Eppendorf for funding within the close the gap programme!

• 
• 

06/2024

We had a great time at the European Congress on Digital Pathology ECDP2024. It is exciting to see how digital pathology and artificial intelligence will shape the future of (neuro)pathology!
Congratulations to Yannis Schumann for doing a great job presenting our results on ai-based classification on ependymoma! Well done Yannis!

05/2024

Pleased to share our latest work on spinal ependymoma published in Acta Neuropathologica and congratulations to Antonia Gocke for her first author paper!

We report a small series of cases that do not match to any WHOclassification defined category.

These spinal tumors
- harbor anaplastic histological features and express nuclear OLIG2 (in contrast to other ependymoma types)
- display nuclear MYCN accumulation but do not carry typical MYCN amplifications
- were mainly classified as #subependymoma using the #DNAmethylation based #braintumor classifier
- are characterized by a unique DNA methylation pattern distinct from subependymoma, MYCN amplified spinal ependymoma or other ependymoma types
- display a distinct #proteome profile that shares similarities with MYCN amplified spinal ependymoma.

Limited follow up data finally indicate a rather favourable clinical behaviour compared to MYCN amplified spinal ependymoma and further investigations are needed.

We propose the provisional designation as MYCN-like spinal ependymoma (SP-EPN-MYCN-like).

Have a look: https://link.springer.com/article/10.1007/s00401-024-02740-y

01/2024

Congratulations to Yannis who published his recent work in Brain Pathology! How might artificial intelligence help in diagnostic neuropathology? Using explainable AI, we asked whether deep neural networks can predict the molecular subtype of spinal cord ependymomas based on hematoxylin and eosin stained whole‐slide images. We further aimed to prospectively improve the consistency of histology-based diagnoses with molecular classification (DNA methylation profiling) by identifying and quantifying distinct morphological patterns of these molecular ependymoma types. Our approach may serve as a supplementary resource for integrated diagnostics and may even help to establish a standardized, high-quality level of histology-based diagnostics across institutions. Read the full article in our open access publication: http://doi.org/10.1111/bpa.13239

01/2024

Congratulations to Matthias who published his recent work in Neuro-Oncology! We used a multi-omics approach (integrating DNA methylation, RNA expression and proteome data) with the aim to further understand the pathophysiology of so called embryonal tumors with multilayered rosettes (ETMR). These brain tumors are rare but deadly and affect small children. Therefore, novel therapeutic approaches are desperately needed. We show that these tumors display a unique proteome profile that associates with histomorphology. Moreover, we could reveal that ETMR harbor proteasome regulatory proteins in abundancy, implicating their strong dependency on the proteasome machinery to safeguard proteostasis. Of note, ETMR tumor cells were highly vulnerable towards treatment with the proteasome inhibitor Marizomib. Hence, proteasome inhibition might be a new promising therapeutic option in ETMR. Read the full article in our open access publication: https://academic.oup.com/neuro-oncology/advance-article/doi/10.1093/neuonc/noad265/7503967

• 
• 

01/2024

Very honored for being awarded with the Werner Otto Award for Basic Research related to our work on proteomics in brain tumors (with focus on medulloblastoma, https://www.nature.com/articles/s41467-022-31007-x , https://www.biorxiv.org/content/10.1101/2023.01.09.523234v1 ). ). It was a real honor and a pleasure to meet and discuss with Prof. Otto and the colleagues from the advisory board of the Werner Otto Foundation ( https://www.werner-otto-stiftung.de/ ). Thanks to my great team , without yo our achievements would not be possible! And many thanks to the Werner Otto Foundation for supporting research! https://www.werner-otto-stiftung.de/foerderung-von-forschung/preis-der-werner-otto-stiftung/#preistraeger

• 
• 

12/2023

Congratulations to Nigar Mammadova for being awarded with a Werner Otto stipend for her planned MD thesis work. Nigar will analyse the role of LIN28A in malignant brain tumors. Thank you to the Werner Otto Foundation ( https://www.werner-otto-stiftung.de ) for supporting the next generation of clinician scientists!

• 
• 

12/2023

Congratulations to Piotr Sumislawski for being awarded with the Hans Sautter-Promotionspreis for his doctoral thesis in the field of ophthalmology! He was one of my first MD students (proud doctoral supervisor speaking :)). The award ceremony took place today at the Erika-Haus. Thanks so much to the Förderkreis des UKE for this great event and for honoring the work of young scientists ( https://www.uke.de/allgemein/ueber-uns/freundes-und-foerderkreis/index.html )!

• 
• 

12/2023

Ever wondered about the sleeping beauty problem, if life is a simulation or what cyborg cockroaches might be useful for? We learned about these things and more at today's science slam at our christmas get together. Thanks to my fantastic team for this great year we could spend and work together! I am looking forward to 2024!

• 
• 

11/2023

Congratulations to Jelena for publishing as first author in Analytical Chemistry! Her work focused on spatial proteomics in the developing mouse brain using nanosecond infrared laser ablation (NIRL).

Big thanks to Jan Hahn and Manuela Moritz for the great collaborative work! Check it out at https://pubs.acs.org/doi/10.1021/acs.analchem.3c02637

• 
• 

06/2023

Great job Shweta! Shweta Godbole presented our work on proteomics in medulloblastoma at the SnoPed2023 conference. Many thanks also to the Kind Philipp Foundation ( https://www.deutsches-stiftungszentrum.de/stiftungen/kind-philipp-stiftung-f%C3%BCr-p%C3%A4diatrisch-onkologische-forschung ) for supporting Shwetas congress participation with a stipend!

Classification based on "Omic" data with missing data points

• 
• 

04/2023

Can we use multidimensional data (e.g. from single cell transcriptomics or proteomics) to classify samples despite missing data? Yannis Schumann worked on a novel algorithm that makes this possible. The article "Robust classification using average correlations as features (ACF)" published in BMC Bioinformatics can be found at: https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-023-05224-0 . It was a joint work with the Chair of High Performance Computing at the HSU. Congratulations to Yannis!

Hannah Voß

• 
• 

11/2022

Hannah Voß was awarded the first posterprize at the "Neurowoche 2022" in Berlin. She showed our data on proteomics in medulloblastoma. Congratulations!

Maximilian Middelkamp

• 
• 

09/2022

Third in a row - Maximilian Middelkamp successfully defended his medical doctoral thesis today.
He did a great job and had published his results in Acta Neuropathologica Communications
( https://lnkd.in/guv4T3fJ ).

Congratulations from the whole team!

Piotr Sumislawski

Piotr Sumislawski

• 
• 

08/2022

Piotr Sumislawski defended his dissertation successfully today. He had studied a rare type of embryonal eye cancer and had published his results together in Oncogenesis
(https://lnkd.in/e4tBZPhB ).
Congratulations from the whole team!

07/2022

We are on Twitter now! Check it out at
https://twitter.com/Julia_E_Neumann?t=tnPzhHalrrhYCeA22kYFqQ&s=09

07/2022

Very happy to announce that our paper on the integration of "omics" data with missing values is now published in Nature communications https://lnkd.in/eT2zcXYm ( https://rdcu.be/cP0ns ). Our algorithm "HarmonizR" is free to use and can be found on GitHub. It allows the integration of independently generated Omic datasets and is of special interest for proteomic datasets that contain lots of missing values. This has been a great interdisciplinary collaboration with the Section Mass Spectrometry and Proteomics; UKE ( Prof. Hartmut Schlüters group ) and the Chair of High Performance Computing, Helmut Schmidt University ( Prof. Philipp Neumanns group ).