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Reposted by Stephen John Sammut

Carlos Caldas 🇵🇹🇮🇱🇪🇺🇬🇧🎗 @carloscaldas1960.bsky.social · Jul 14

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...

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.

www.nature.com

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Reposted by Stephen John Sammut

Carlos Caldas 🇵🇹🇮🇱🇪🇺🇬🇧🎗 @carloscaldas1960.bsky.social · Jul 12

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

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

Rare Cancer Cells Fuel Tumours

Scientists uncover how a small number of cancer cells can drive tumour growth in breast cancer.

www.uhnresearch.ca

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Stephen John Sammut @stephensammut.bsky.social · Jun 25

thank you Chris and Andrew! 🙂

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Stephen John Sammut @stephensammut.bsky.social · Jun 20

Thank you Ben!!!

Stephen John Sammut @stephensammut.bsky.social · Jun 20

Thank you!!!! 🙂🙂

Stephen John Sammut @stephensammut.bsky.social · Jun 19

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

The Lister Institute of Preventive Medicine @thelisterinstitute.bsky.social · Jun 19

We are very proud to introduce our brand new 2025 #ListerFellows! This year there are eight Prize recipients. lister-institute.org.uk/a-warm-welco...

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Reposted by Stephen John Sammut

The Institute of Cancer Research @icr.ac.uk · Jun 19

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.

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Stephen John Sammut @stephensammut.bsky.social · Jun 8

Thanks Feung! ❤️

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Reposted by Stephen John Sammut

The Institute of Cancer Research @icr.ac.uk · Jun 5

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

Dr Stephen-John Sammut pictured in his lab with a lab coat on.

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Stephen John Sammut @stephensammut.bsky.social · May 12

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!!

Long V. Nguyen @nguyenlab.bsky.social · May 12

I am excited to share the latest publication from the Nguyen, Caldas @carloscaldas1960.bsky.social and Rueda labs @ruedalab.bsky.social. This was a massive effort from a fantastic team and I’m grateful to everyone on the paper for their work on this project! doi.org/10.1016/j.ce...
#bcsm #PDTX

Redirecting

doi.org

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Reposted by Stephen John Sammut

Cold Spring Harbor Laboratory @cshlnews.bsky.social · Apr 29

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

How does cancer affect motivation?

Inflammatory cytokines hijack a brain circuit to cause apathy in cancer

www.science.org

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Reposted by Stephen John Sammut

Elizabeth McKenna @elizsmckenna.bsky.social · Apr 27

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...

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Reposted by Stephen John Sammut

Carlos Caldas 🇵🇹🇮🇱🇪🇺🇬🇧🎗 @carloscaldas1960.bsky.social · Apr 27

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

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Reposted by Stephen John Sammut

Trevor Graham @trevorgraham.bsky.social · Apr 23

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...

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...

www.biorxiv.org

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Stephen John Sammut @stephensammut.bsky.social · Apr 22

Amazing work @ruedalab.bsky.social !!

Oscar M Rueda @ruedalab.bsky.social · Apr 22

How much data and resolution do we need to estimate homologous recombination deficiency in breast cancer? Rong Zhu answers this question in our latest paper:

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

FEBS Press

This study develops a semi-supervised classifier integrating multi-genomic data (1404 training/5893 validation samples) to improve homologous recombination deficiency (HRD) detection in breast cancer....

febs.onlinelibrary.wiley.com

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Reposted by Stephen John Sammut

Oscar M Rueda @ruedalab.bsky.social · Apr 16

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....

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Reposted by Stephen John Sammut

Carlos Caldas 🇵🇹🇮🇱🇪🇺🇬🇧🎗 @carloscaldas1960.bsky.social · Apr 16

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!

Oscar M Rueda @ruedalab.bsky.social · Apr 16

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....

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Stephen John Sammut @stephensammut.bsky.social · Mar 21

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

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...

jobs.icr.ac.uk

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Reposted by Stephen John Sammut

Nature Portfolio @natureportfolio.nature.com · Mar 5

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 🧪

This is figure 5, which shows that aspirin promotes anti-metastatic immunity by releasing T cells from ARHGEF1-dependent suppression by TXA2.

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Reposted by Stephen John Sammut

Maurizio Callari @mauriziocallari.bsky.social · Mar 5

📢 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 👇

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,...

rdcu.be

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Reposted by Stephen John Sammut

Carlos Caldas 🇵🇹🇮🇱🇪🇺🇬🇧🎗 @carloscaldas1960.bsky.social · Feb 15

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...

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

www.nature.com

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Reposted by Stephen John Sammut

Carlos Caldas 🇵🇹🇮🇱🇪🇺🇬🇧🎗 @carloscaldas1960.bsky.social · Feb 5

@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/

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 ...

pubmed.ncbi.nlm.nih.gov

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Reposted by Stephen John Sammut

Carlos Caldas 🇵🇹🇮🇱🇪🇺🇬🇧🎗 @carloscaldas1960.bsky.social · Feb 6

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...

New data tool could bring RNA sequencing into standard clinical practice, improving diagnosis and treatment

www.icr.ac.uk

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Reposted by Stephen John Sammut

Carlos Caldas 🇵🇹🇮🇱🇪🇺🇬🇧🎗 @carloscaldas1960.bsky.social · Jan 23

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...

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.

www.nature.com

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