Stephen John Sammut

Temporal tissue dynamics from a spatial snapshot - Nature One-shot tissue dynamics reconstruction can infer changes in tissue composition over time, from single-time-point spatial proteomics of human cancers.

www.nature.com/articles/s41...
Once more #METABRIC continues to enable major discoveries! @urialonlab.bsky.social used our data to do this 👇

One of the greatest privileges of my career has been to mentor amazing researchers that now run their own labs. Four of them just sent me this picture:
@hrazaalilab.bsky.social
@ruedalab.bsky.social
@stephensammut.bsky.social
and Alex Bruna @icr.ac.uk

You’re very welcome! Thanks for inviting me! Was so awesome spending time with you all and discussing science!! ❤️

Triple-negative breast cancer in biomed news this week🏥

So perfect timing to feature #ListerFellow @stephensammut.bsky.social 🤩He's hunting clinical biomarkers and using AI to predict treatment response from immune activation.

Repost and read ⤵️
lister-institute.org.uk/in-conversat...

@icr.ac.uk

Fantastic work by @kevinjtu.bsky.social done as MSc @caldaslab.bsky.social in collaboration with @ruedalab.bsky.social and @stephensammut.bsky.social. #TME deconvolution in 15,000 breast cancers! #METABRIC
@ims-mrl.bsky.social @hebrewuniversity.bsky.social @lautenbergc.bsky.social
🥳🥳👍👍💪💪

My poor laptop wishes I learned how to use the cluster earlier, but it’s sacrifice was not in vain! We learned some important things about the breast cancer tumor microenvironment, described in our paper published today:
www.cell.com/cell-reports...

Here's the 🧵

Multi-omic machine learning predictor of breast cancer therapy response - Nature Integration of pre-treatment tumour features in predictive models using machine learning could inform on response to therapy.

The first report of ML to integrate multi-omic data to generate a therapy response predictor. In a little over 3 years now cited >300 times in Web of Science! Incredibly proud @caldaslab.bsky.social and @stephensammut.bsky.social!!

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

Nice to have our paper highlighted!
@caldaslab.bsky.social always walking the walk!

www.uhnresearch.ca/news/rare-ca...

thank you Chris and Andrew! 🙂

Thank you Ben!!!

Thank you!!!! 🙂🙂

Incredibly humbled and honoured to have been awarded the 2025 Research Prize from @thelisterinstitute.bsky.social. ❤️

🧬 We’re harnessing high-resolution molecular profiling + AI to uncover how cancer disables the immune system and find ways of restoring it. @icr.ac.uk

#bcsm #ai #CancerResearch

Our warmest congratulations to Dr Stephen John Sammut, who has been awarded a highly prestigious research prize from @thelisterinstitute.bsky.social 🎉🏆

These awards aim to make a significant difference to the research work of scientists in the early years of running their own groups.

Thanks Feung! ❤️

Huge congratulations to Dr Stephen-John Sammut from the Breast Cancer Now Toby Robins Research Centre at the ICR, who's been awarded the BACR/AstraZeneca Young Scientist Frank Rose Award for 2024! 👏

@astra-zeneca.bsky.social @breastcancernow.bsky.social @stephensammut.bsky.social

#BACR2025 #BACR25

Lentiviral barcoding used to track the clonal growth of over 20,000 single-cell-derived clones in 110 xenografts from 26 patient-derived breast cancer xenograft models.

Beautiful work @nguyenlab.bsky.social!!

How does cancer affect motivation? Inflammatory cytokines hijack a brain circuit to cause apathy in cancer

A new Science summary spotlights a paper by CSHL’s Tobias Janowitz and colleagues that uncovers a neural circuit linking inflammation to reduced motivation in a mouse model of cancer cachexia. Check out the Science summary here: www.science.org/doi/10.1126/...

#Cachexia #ScienceMagazine

Online now in Cancer Discovery concurrent with the #AACR25 Opening Plenary, by plenary speaker Paul Mischel: A Guide to Extrachromosomal DNA (#ecDNA): Cancer's Dynamic Circular Genome doi.org/10.1158/2159...

ecDNA @theaacr.bsky.social
Paul Mischel from Stanford.
In breast cancer ecDNA is the main mechanism of amplification of the ER+ oncogene we co-discovered ZNF703!
@caldaslab.bsky.social

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...

Amazing work @ruedalab.bsky.social !!

Excited to share our latest work on monitoring response to treatment using ctDNA and shallow WGS using a Bayesian Model developed by Solon Karapanagiotis with @Carloscaldas1960.bsky.social, Emma Beddowes and @mortegaduran.bsky.social

febs.onlinelibrary.wiley.com/doi/full/10....

1/n
Fantastic to see this published. Anticipatory genomics demonstration: ctDNA and ML to predict CT progression!
Well done @emmajb001.bsky.social and @mortegaduran.bsky.social! Great collaboration of @caldaslab.bsky.social with @ruedalab.bsky.social!
#DETECT started by @sj-dawson.bsky.social!

Postdoctoral Training Fellow - Computational Single Cell Biology (Dr Stephen-John Sammut) in Chelsea | The Institute of Cancer Research View details and apply for this Postdoctoral Training Fellow - Computational Single Cell Biology (Dr Stephen-John Sammut) vacancy in Chelsea . Salary: Starting salary is based on previ...

Join Our Team! We're looking for a #computational #postdoc to join our group @icr.ac.uk in Chelsea #hiring

We are using single-cell methods to model breast tumour evolution during chemo + immuno-therapy, using serial tumour samples

More details: jobs.icr.ac.uk/vacancies/11...

#bcsm

Aspirin may enhance the immune response against cancer metastasis in mice, according to research published in Nature. The authors suggest that the findings could aid the development of effective anti-metastatic immunotherapies. https://go.nature.com/3F3GWOB 🧪

Determinants of response and molecular dynamics in HER2+ER+ breast cancers from the NA-PHER2 trial receiving HER2-targeted and endocrine therapies Nature Communications - NA-PHER2 was a neoadjuvant trial of HER2-targeted trastuzumab and pertuzumab plus the CDK4/6 inhibitor palbociclib with or without endocrine therapy in HER2-positive,...

📢 Our work just published in
@naturecomms.bsky.social @natureportfolio.nature.com!
What is driving #response to #targeted #treatments in HER2+ER+ #breastcancer? How is the tumour ecosystem affected by treatment? Find the answers in our paper 👉 rdcu.be/ecbVR
Key points below 👇

A pooled analysis evaluating prognostic significance of Residual Cancer Burden in invasive lobular breast cancer - npj Breast Cancer npj Breast Cancer - A pooled analysis evaluating prognostic significance of Residual Cancer Burden in invasive lobular breast cancer

In ILC, after neo-adjuvant therapy, RCB retains prognostic value. @caldaslab.bsky.social and @stephensammut.bsky.social happy to have contributed.
Walking the walk.

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

Quantifying the tumour vasculature environment from CD-31 immunohistochemistry images of breast cancer using deep learning based semantic segmentation - PubMed Our proposed method shows promise as a tool for studying the tumour vasculature and its relationship with surrounding cells and tissue types. Furthermore, the correlation with tumour grade highlights ...

@caldaslab.bsky.social proud to contribute to this! ML/AI to quantify CD31 IHC of blood vessels in breast cancer!
Well done lead author Tristan Whitmarsh!

pubmed.ncbi.nlm.nih.gov/39905431/

Important translational piece from @icrlondon.bsky.social and Brisken lab. Yet again #METABRIC being used to develop/validate tool! @caldaslab.bsky.social research continues to have huge impact! Walking the walk!

www.icr.ac.uk/about-us/icr...

Multi-omic machine learning predictor of breast cancer therapy response - Nature Integration of pre-treatment tumour features in predictive models using machine learning could inform on response to therapy.

We published this exactly 3 years ago. Already Highly Cited (250 citations on WoS!!).
Thanks to @stephensammut.bsky.social @ercresearch.bsky.social @cruk-ci.bsky.social
@caldaslab.bsky.social
Pioneered use of ML/AI for multi-omic data integration.
Walking the walk!
www.nature.com/articles/s41...