🚨 Open #position! The group of Zeinab Abdullah is looking for a Technical Assistant/Research Assistant Application deadline: October 30

🚨 Open #position! The group of Zeinab Abdullah is looking for a postdoc Application deadline: October 30

🚨 Open #position! The group of Zeinab Abdullah is looking for two PhD students for a) Characterisation of hepatic NK-like T cells b) Dissecting the role of STING signalling in anti-viral T cell responses Application deadline: October 30

My twitter/X feed has like many others become filled with Elon and Trump/Trump adjacent nonsense. I’m giving BlueSky a go and so far looks like a good portion of scitwitter has begun the migration. Come find me on the other app and let’s talk science.

As always, many thanks to the patients and many collaborators. @Doc_Bald @IEO_baldlab @IEO_Bonn @theHumanBorch

This paper scratches the surface of understanding how prolonged/sustained IFN impacts CD8+ TILs. We found it interesting that these cells can be observed in many scRNAseq datasets but are rarely mentioned. We hope this manuscript inspires others look further at these cells. 6/n

This suggests that perhaps ISG cells are a dysfunctional trajectory that is undesirable for anti-tumor responses. Furthermore, we explored public datasets and could identify ISG cells across various tumor types. Importantly, ISG cells were enriched within the tumor tissue. 5/n

However, in contrast to GZMK+ cells, the ISG population was transcriptionally inert. i.e they poorly responded (at a transcriptional level) to ex vivo stimulation. Meanwhile, GZMK+ cells quickly up-regulated an effector profile. 4/n

Leveraging scTCRseq we could track TCR clones before and after stimulation to understand their transcriptional response. We found that these Interferon-stimulated gene (ISG) cells were clonally related to a subset of CD8+ cells characterised by high GZMK expression. 3/n

Others have previously reported a subset of CD8+ TILs highly enriched for IFN signalling genes. The transcriptional profile of these cells suggests they encountered substantial IFN. However, the impact and consequence of this is unknown. 2/n

I am excited to share our latest paper. We profiled CD8+ TILs from HPV- HNSCC patients using scRNA/TCRseq. In addition, we performed an ex vivo stimulation of cells to capture their transcriptional response. 1/n https://t.co/cP1cAPkBel

Following several kind requests, here is a high-level summary of our pre-print in @biorxivpreprint (doi: https://t.co/lEPZxcCGvE): STAMP: Single-Cell Transcriptomics Analysis and Multimodal Profiling through Imaging STAMP is a scalable, cost-efficient method for single-cell

Online now: T lymphocyte recruitment to melanoma brain tumors depends on distinct venous vessels

We are looking for a highly motivated PhD Student! 🤩 If you are passionate about science and interested in tumor immunology and metabolism… join us in Bonn! 👩🏻‍🔬👨‍🔬 please share🙏

We developed an imaging-free spatial genomics technology where DNA barcodes diffuse to connect locally. Using UMAP, we reconstructed the physical locations of these barcodes, transforming spatial transcriptomics into purely molecular biology. https://t.co/BIPlyibPXa

🚨New lab preprint! 🚨 A deep dive to shed light on a long-standing controversy with RNA-targeting CRISPRs: Do they have high levels of collateral (trans) cleavage of other RNAs in the cell ✂️✂️✂️ — or not? New work from talented PhD student #SydneyHart & others in our lab. 📰

Rikard Forlin from ⁦@BrodinPetter⁩ lab presents results of our collaboration with ⁦@PixelgenTech⁩ at #HumanImmun24 Cool technology btw😉

This represents how we believe haematopoiesis is actually proceeding at a clonal level. I'll walk through our preprint early next week. "A multi-track landscape of haematopoiesis informed by cellular barcoding and agent-based modelling" https://t.co/Wnhi6095Rb

Very excited (& nervous) to share what we've been working on the past many years. Only took 3 first authors (Schreuder the experimentalist, @DawnSLin the analyst, and @syzmath the modeller) & co-senior Weber (computational, modeller, SynBio extraordinaire)

Big thanks to the patients whose contribution to science was invaluable and to the many co-authors, especially @theHumanBorch, Matthias Braun, and @Doc_Bald.