Beyond excited to share my first work with Omer's group at Sanger!
With amazing co-authors Alexander & Fani we are passionate about neurodevelopmental genetics and this work really showed us the power of uncovering new genetics with spatial transcriptomics!
🧵👇 Background / motivation / key results
11.11.2025 21:00 — 👍 5 🔁 2 💬 0 📌 0
Very proud of our paper on "scrambling-by-hopping" LADs, which was just published: www.nature.com/articles/s41.... Congrats to Lise Dauban and the rest of the team – this was a real tour-de-force!
02.09.2025 17:26 — 👍 58 🔁 24 💬 0 📌 0
🧠 Excited to share my main PhD project! We mapped the regulatory rules governing Glioblastoma plasticity using single-cell multi-omics and deep learning. This work is part of a two-paper series with @bayraktarlab.bsky.social @oliverstegle.bsky.social and @moritzmall.bsky.social, Preprint at end🧵👇
16.05.2025 10:04 — 👍 78 🔁 29 💬 1 📌 6
How does tumour heterogeneity arise? How can we predict cancer cell plasticity? In 2 new studies, we trace #glioblastoma heterogeneity to a spatial cancer cell trajectory w. multimodal cell atlassing bit.ly/4mkrWgs & predict plasticity w. snRNA/ATAC+deep learning bit.ly/3FbI6Ic 🧵
16.05.2025 11:42 — 👍 73 🔁 31 💬 6 📌 5
I’m happy to share that our scCellFie manuscript is finally on bioRxiv — a project that was an amazing opportunity to return to my roots in metabolism!
We infer metabolic activity from single-cell & spatial transcriptomics 🧬
Read the pre-print here👇
📄 doi.org/10.1101/2025...
15.05.2025 08:21 — 👍 6 🔁 1 💬 1 📌 1
Our review "Predicting gene expression from DNA sequence using deep learning models" is finally out! 🤗
14.05.2025 15:43 — 👍 44 🔁 11 💬 4 📌 2
Thrilled to share our new @naturecomms.bsky.social study with @sam-n-barnett.bsky.social on early vs late #COVID19 lung damage 🫁.
Using single-cell & histopathology-informed #SpatialTranscriptomics, we uncovered key biomarkers & immune patterns. Thanks to collaborators, UKCIC & @humancellatlas.org
12.03.2025 06:35 — 👍 5 🔁 1 💬 0 📌 1
Another great computational method out of the Bayraktar lab!
Alexander Aivazidis has been a great colleague in our lab and it's amazing to see the capstone of his PhD is now published.
03.03.2025 13:16 — 👍 2 🔁 0 💬 0 📌 0
Feri's fundraiser for Refuge
Help Feri Torabi raise money to support Refuge
And the talented PhD student Feri from @mhaniffa.bsky.social’s
lab is running for Refuge:
supporting women and their children to overcome the impact of domestic abuse.
www.justgiving.com/page/feri-to...
01.03.2025 14:00 — 👍 2 🔁 0 💬 0 📌 0
Next weekend I will run the Cambridge half marathon with @sangerinstitute.bsky.social colleagues 🏃♂️
Two amazing people are running for charities, please support them!
01.03.2025 14:00 — 👍 2 🔁 1 💬 1 📌 1
This is really horrific. These single cell reference atlases are widely used as is to train all kinds of models! This is one of the reasons I've constantly harping about uniform reprocessing & extremely careful QC of large atlases. 1/
04.12.2024 07:06 — 👍 144 🔁 41 💬 9 📌 4
Journalist. #VPRO. #Volkskrant. #Frontlinie. Podcast: Achter de Frontlinie.
PhD Student, MRC Biostatistics Unit
University of Cambridge
Gates Cambridge Scholar
Bioinformatics, genetics, single-cell, statistics
Australian 🇦🇺
Professor in Systems Biology & Genetics @EPFL, opinions my own; Single Cell Omics / Gene Regulation / Transcription Factor / Stem Cells / Regulatory Variation / ML / Imaging / Adipose Biology / Microfluidics
https://www.epfl.ch/labs/deplanckelab
We are the Winkler Laboratory at the UKHD and DKFZ Heidelberg
Our focus: #cancerneuroscience of #braintumors ( #glioblastoma #brainmetastases), and beyond.
We use #intravitalimaging , #calciumimaging, #preclinicalmodels and more, to tackle these diseases
Research group leader @German Cancer Research Center, reconstructing human development and disease using cell fate engineering
The Refugee Council is the nation’s refugee charity. We support refugees to rebuild their lives, integrate into communities and play a part in Britain.
Group Leader in Human Genetics, Wellcome Sanger Institute
Curiosity. Human Model Systems. Single-Cell Genomics. EvoDevo…and more!
(machine) learning to turn one genome into 959 different cells 🪱 | bioinfo phd 🧬🖥️ in Leuven (Aerts lab @ vib.ai 🇧🇪) & Utrecht (AvO lab @ hubrecht.eu 🇳🇱)
also urbanism & (cross-border) transport, occasionally | prev 🇳🇱/🇭🇰/🇩🇰 | he/him | ook in het nederlands
Researcher in bioinformatics working on single-cell data visualization
https://markk.co
EMBO/MSCA postdoctoral fellow at Francis Crick Institute in the Briscoe lab. 🇬🇧
Previously PhD Stainier Lab (heart dev 💓) @MPI-HLR 🇩🇪
Developmental biologist, lineage trajectories, cell fate decisions, cellular interactions, organ formation.
PhD candidate at Max Planck School of Cognition. Centre for Language Evolution graduate in Edinburgh. Interested in evolutionary genetics, aDNA and the neurobiological bases for linguistic cognition.
🔎 🌎 ✊
Exposing human rights abuses around the world.
Research Group Leader at EMBL-EBI | Former postdoc
at Broad Institute | Former PhD student at Sanger Institute | Lineage tracing, cancer genomics, human development
PhDing at the Sanger Institute, i'm evolving every day
🌼 isabellezane.bio
PhD student at the Sanger Institute / University of Cambridge
Prev. Associate Computational Biologist at the Broad Institute
UWaterloo CS
anant-maheshwari.owlstown.net
PhD student in the Saez-Rodriguez group (@saezlab.bsky.social) @ebi.embl.org. Member of Gonville & Caius College (@caiuscollege.bsky.social).
Computational biology | Omics | Microbiome | IBD & CRC | Open science
