Konstantin Benno Bräutigam

😂

Deep-learning-based gene perturbation effect prediction does not yet outperform simple linear baselines - Nature Methods The analysis presented in this Brief Communication shows that, despite their complexity, current deep learning models do not outperform linear baselines in predicting gene perturbation effects, thus e...

www.nature.com/articles/s41...

Happy to share our preprint on #pancreatic #cancer using a combined #digitalpathology #ish #ihc approach!

www.researchsquare.com/article/rs-6...

Fantastic workshop on the ecology and #evolution of cancer #EBEC2025! So thrilled and proud to have been part of it! @sangerinstitute.bsky.social #cambridge

Looking forward to the "Evolutionary Biology and Ecology of Cancer" course in #Cambridge at the #wellcome genome campus! #genomics

Evolutionary and immune microenvironment dynamics during neoadjuvant treatment of esophageal adenocarcinoma - Nature Cancer Graham and colleagues analyzed locally advanced esophageal adenocarcinoma clinical trial patient samples and identified major changes in gene expression profiles and immune microenvironment compositio...

Tour de force from @melissabarroux.bsky.social on evolutionary and microenvironmental dynamics of oesophageal adenocarcinoma through neoadjuvant therapy

Published @natcancer.nature.com

Melissa is an outstanding new clinician scientist.. one to watch.

www.nature.com/articles/s43...

@icr.ac.uk

Single cell multi-omic whole genome sequencing and chromatin accessibility profiling reveals genome-epigenome coevolution in colorectal cancer Epigenetic alterations co-evolve with genetic mutations to drive carcinogenesis and treatment response. Resolving genome-epigenome coevolution requires accurate multi-omic single cell measurement. Her...

dATAC: our new method for simultaneous very high quality whole genome sequencing and chromatin accessibility profiling of single cells. We used dATAC to trace epigenome clonal evolution in colon cancer. Devised by the extraordinarily talented @maxmossner.bsky.social

www.biorxiv.org/content/10.1...

Evolutionary paths towards metastasis - Nature Reviews Cancer In this Perspective, Kamila Naxerova discusses how genetic analyses of primary tumours and matched metastases can distinguish between competing metastasis evolution models, arguing that further insigh...

www.nature.com/articles/s41...

I enjoyed the read!

Tumor Immune Microenvironment in Pancreatic Ductal Adenocarcinoma revisited - Exploring the “Space” Pancreatic ductal adenocarcinoma (PDAC) remains one of the most deadly malignancies with a highly immunosuppressive tumor immune microenvironment (TIM…

Pancreatic cancer and its spatial TIME: Lots to learn and to do!

www.sciencedirect.com/science/arti...

#pathsky
Excellent talk on pancreatic neuroendocrine neoplasms at the Spring Meeting of the Austrian Society for Pathology y Konstantin Bräutigam @pathologop.bsky.social #oegpath

Thank you for inviting! Great meeting!

Immunocto: a massive immune cell database auto-generated for histopathology With the advent of novel cancer treatment options such as immunotherapy, studying the tumour immune micro-environment (TIME) is crucial to inform on prognosis and understand potential response to ther...

Happy to be part of "Immunocto", a massive immune cell database in a H&E/IF approach!

arxiv.org/abs/2406.02618

Neuroendokrine Neoplasien - Die Pathologie Neuroendocrine tumors (NETs) are a diverse group of neoplasms that originate from neuroendocrine cells throughout the body. Diagnosing NETs presents unique challenges due to their varied presentation,...

Neuroendocrine Tumors? No problem!

link.springer.com/article/10.1...

Dual inhibition of lactate transporters MCT1 and MCT4 in pancreatic neuroendocrine tumors targets metabolic heterogeneity and functional redundancy Our current understanding of the metabolic landscape of pancreatic neuroendocrine tumors (PanNETs) is very limited. Such knowledge could lead the development of novel therapeutic strategies for subgro...

⏰preprint alert⏰

I am very happy to share our recent preprint on targeting metabolism in Pancreatic Neuroendocrine Tumors via lactate transporters MCT1/4!

www.biorxiv.org/content/10.1...

Incredible amount of experimental work, many thanks to all contributors and especially to the seniors!

The tumour histopathology “glossary” for AI developers The applications of artificial intelligence (AI) and deep learning (DL) are leading to significant advances in cancer research, particularly in analysing histopathology images for prognostic and treat...

Are you using #AI to analyse #Histopathology images?

A team of ICR researchers have created a glossary to help AI developers understand tumour histopathology.

They hope that this will speed up the development of AI algorithms for cancer research ⤵️

doi.org/10.1371/jour...

Thanks for sharing ❤️

Meeting Darth Vader at the #festivalofgenomics! #genomics #excel #london

Thanks @trevorgraham.bsky.social ! We hope to fill this gap and to boost #cancer research! #ai #pathology

Tumor infiltrating lymphocytes (TILs) – Pathologia, quo vadis? – A global survey Tumor-infiltrating lymphocytes (TILs) and the tumor microenvironment have become increasingly important in cancer research, and immunotherapy has achi…

Our survey on routine #TIL reporting has finally been published open access in "Pathology-Research and Practice"!

www.sciencedirect.com/science/arti...

Many thanks to the 77 participants from all over the world, we are grateful for your participation! #pathology #tme #oncology

The role of the pathologist in the design and conducting of biomarker-driven clinical trials in cancer: position paper of the European Society of Pathology - Virchows Archiv Clinical trials in oncology are important tools to identify and establish new effective drugs for cancer treatment. Since the development of the concept of precision oncology, a huge number of multi-c...

link.springer.com/article/10.1...

The #pathologist role in trials.

Traveling in time to my alma mater, Charité Berlin.

Inaugural Meeting of the European Society for #Spatial #Biology in Berlin! Lovely venue and excellent line-up! #essb

The cellular dogma In this essay, I will put forth what I see as a major conceptual challenge for biology in the next decade, one that is inspired by Crick’s Central Dogma: understanding information flow in the cell in ...

Beautiful commentary on the importance of cell function in a "genocentric" age.

www.cell.com/cell/fulltex...

We have an open #PhD #studentship as part of our "Black Leaders in Cancer" programme at @crukconvergence.bsky.social & @icrlondon.bsky.social. About computational modelling of T-cell evolution in cancer. www.findaphd.com/phds/project... I'm looking forward to meeting prospective students #CRUKfunded