@lbastianmd.bsky.social
translational leukemia research // ALL 🧬 disease classification // crossroads of B cell development and leukemogenesis // Co-Head of Functional Genomics of Acute Leukemia Lab @ UKSH, Kiel 🌊, Germany and PI @ catchall-kfo5010.com // mountain 🥾 enthusiast
Our cross-age analysis of #KMT2A rearranged #B-ALL is out in @hemasphere-journal.bsky.social: advancing age 👶👵 is linked to immaturity🌱, chemotherapy resistance and poor outcome with RNA-seq providing a lense into these connections. 👏 to Alina Hartmann and our team! 📎 doi.org/10.1002/hem3...
No bull: This Austrian cow has learned to use tools.
Learn more: https://scim.ag/3LYTXNd
🎇 1st paper of the lab this year: IDH1 mutations downregulate IL1R1 in acute myeloid leukemia. IL1R1 low expression is enriched in IDH1-mutant AML and linked to 📈 better ouctome! 👏 to Sophie Steinhäuser, Simone Lipinski and team at #UKSH / @uni-kiel.de ! 🔗 rdcu.be/eYeg8
🌊Embarking to 2⃣0⃣2⃣6⃣ with our first preprint: Established on 2,314 T-ALL transcriptomes, ALLCatchR now discriminates 20 T-ALL gene expression subtypes, including an clonal-hematopoiesis cluster in adults! 🙏 Kudos to Thomas Beder! doi.org/10.64898/202...
Finally out📯: 1st population-level picture of AML+ALL incidence & outcomes across all age groups in Germany! My colleague David Baden took the long tour to aggregate this data:
doi.org/10.1016/j.la... - Will be intro Figurę 1 to many presentations, David!🙏
1/4 🌍 We are looking for a passionate #PhD student in #Metabolic #Microbiome #Modeling in the Marie Skłodowska-Curie Doctoral Network MenoBrain. Join us at one of Europe’s microbiome research hubs and push the boundaries of microbiome science! @uni-kiel.de
🔗 www.uniklinikum-jena.de/menobrain/en...
Big shoutout to the whole group who made #IntegrateALL possible - especially @alinamh.bsky.social, Thomas Beder and Claudia Baldus at www.catchall-kfo5010.com
Big shoutout to the whole group who made #IntegrateALL possible - especially @alinamh.bsky.social, Thomas Beder and Claudia Baldus at www.catchall-kfo5010.com
IntegrateALL: an end-to-end RNA-seq analysis pipeline for multilevel data extraction and interpretable subtype classification in B-precursor ALL https://www.biorxiv.org/content/10.1101/2025.09.25.673987v1
🔗 Get the pipeline here:
github.com/NadineWolgas...
We welcome your feedback, issues & pull requests — and are happy to help you get started!🚀
#OpenSource #Bioinformatics #AcuteLymphoblasticLeukemia
In n=31/1210 B-ALL cases (2.6%), #IntegrateALL identified drivers from two different subtypes in one sample! One gene expression signature dominated in most cases, supporting unsupervised screening for drivers.
Analysis with our ICC/WHO-HAEM5 based rule-set yielded ~80% unambiguous subtype definitions based on driver calls and corresponding gene expression signatures, which was validated across independent cohorts. - Many thanks to collaborators @ www.mll.com!
With #IntegrateALL, we extract from RNA-seq:
- Expression counts
- B-ALL subtypes via #ALLCatchR
- Driver gene fusions
- SNVs
- Virtual karyotypes
For classifying #RNASeqCNV B-ALL karyotypes, we built #KaryALL, a machine-learning classifier reaching 0.98 accuracy!
Excited to share our preprint📯:
We introduce #IntegrateALL, an open-source RNA-seq pipeline for interpretable molecular diagnostics in acute lymphoblastic leukemia!🧬
Big thanks to Nadine Wolgast & team @ www.uksh.de
, catchall-kfo5010.com!
See: doi.org/p7k5 and 🧵
Finally some larger perspective after a long day on call… 🚀
What determines Inotuzumab sensitivity in #ALL?
New @bloodjournal.bsky.social study from C. Escherich &
@junjyang.bsky.social Lab highlights the role of B cell developmental state and EBF1. It was a pleasure to provide a commentary!
🔬 doi.org/10.1182/bloo...
🗒️ doi.org/10.1182/bloo...
@Hemasphere_EHA acknowledged our ALLCatchR paper on machine learning based subtype classification in ALL as highly influential publication! 💥So happy and grateful! Big kudos to Thomas and our team at 👉catchall-kfo5010.com #EHA2025
So true!!