We will have our next community meeting on Tue, Feb 3, 2026, 11AM CST/ 9AM PST !
Philipp A will be presenting on HoloViz: High-level tools to simplify visualization in Python.
Details in 🧵
Pikku Joulu in the lab 🎄
Promotional banner for the Leena Peltonen School of Human Genomics (LPSHG) Summer School 2026. The event takes place July 26–30, 2026 at the Wellcome Genome Campus in Hinxton, UK. The banner invites PhD students nearing completion to showcase their work and learn from 20 leading experts in human genomics through discussions and debates. Application deadline is March 6, 2026, with a website link for more information. Logos of Wellcome Sanger Institute, ESHG, and FIMM appear at the bottom, over a background image of the Wellcome Genome Campus building.
Applications for the 2026 Leena Peltonen School of Human Genetics are open!📢
The school brings together ~20 global leaders and ~20 advanced PhD students for an intensive, discussion-driven week shaping the future of genomics.
📅 July 26–30
📍 Wellcome Genome Campus, UK
📝 Apply by March 6: lpshg.com
Had a great time at the DYNAMITE 🧨 meeting in Copenhagen this week. Huge thanks to Tuula Kallunki and the whole team for hosting us so warmly!
#DYNAMITE #ovariancancer #research
I am grateful to @syopasaatio.bsky.social for awarding ma a dissertation grant 🌸
Huge congrats also to @anna-vaharautio.bsky.social!!!
Such a great panel discussion from the leading minds of the innovative cancer care today at #Slush in Helsinki 🧫🔬
🎉 Huge congrats to Oskari on the acceptance of his final PhD paper! He built Histolytics - a Python package for spatial analysis of whole-slide images 🌠🔬
Try it: github.com/HautaniemiLa...
Are you using any of our factor models, such as MOFA? 🛵
You might’ve found it challenging to tailor them to your specific use cases - not anymore!
Introducing MOFA-FLEX: a flexible, modular factor analysis framework designed for customizable modeling across diverse multi-omics data scenarios. 1/n
🥁 Check out our new preprint on OmniPath, the prior knowledge resource for #SystemsBiology, and its brand-new OmniPath Explorer web app! 🥳
📖 Preprint: www.biorxiv.org/content/10.1...
🔍 Explorer: explore.omnipathdb.org
OmniPath integrates 160+ resources for multi-omics analysis & modeling.
🧶⬇️
Online now: Multi-omics analysis reveals the attenuation of the interferon pathway as a driver of chemo-refractory ovarian cancer
🙏 Warm thanks to our collaborators across University of Helsinki, Karolinska Institutet, Turku University Hospital, and many others. Above all, to DECIDER patients and their families.
🏫 Special thanks to my supervisor Sampsa Hautaniemi and @tarumuranen.bsky.social for your mentorship!
🧵 3/3
🧠 We find that type-I interferon response in cancer cells is diminished at diagnosis in HGSC tumours that are intrinsically resistant to first-line chemotherapy, suggesting a biomarker-guided interferon-platinum combination. Exogenous interferon alpha sensitised cancer cells to platinum.
🧵 2/3
🎉 After almost 3y in making, my first first-author PhD paper is out in Cell Reports Medicine!
🔗 Link: www.cell.com/cell-reports...
🧵 1/3
Our Systema framework for evaluating genetic perturbation response prediction methods is now out in @natbiotech.nature.com ✨
Systema helps to evaluate perturbation response prediction methods by focusing on perturbation-specific effects rather than systematic variation 🎯
Thanks Kari!
🎉This is the energy every PhD paper celebration should have.
Just saying 🥂😁
@gik70.bsky.social
Comparative proteomic analysis of the ECM composition of the human omentum and mesentery, the main sites of ovarian cancer metastasis https://www.biorxiv.org/content/10.1101/2025.07.28.667199v1
🎉 The revised version of CORNETO, our unified Python framework for knowledge-driven network inference from omics data, is published in peer reviewed form
🔗 Paper: www.nature.com/articles/s42...
📖 News & Views: www.nature.com/articles/s42...
💻 Code: corneto.org
🧵 Thread 👇
Tumor Cells Enriched for Interferon and Inflammatory Programs Pre-Exist in High Grade Serous Ovarian Cancer and are Proportionately Significantly Increased Post Chemotherapy https://www.biorxiv.org/content/10.1101/2025.06.24.661404v1
📢ONLINE @naturegenet.bsky.social
📰Longitudinal single-cell multiomic atlas of high-risk neuroblastoma reveals chemotherapy-induced tumor microenvironment rewiring.
By Wenbao Yu, Kai Tan and colleagues.
⬇️
www.nature.com/articles/s41...
📢ONLINE @natgenet.nature.com
📰Deciphering the longitudinal trajectories of glioblastoma ecosystems by integrative single-cell genomics.
By Avishay Spitzer, Mario L. Suvà and colleagues.
⬇️
www.nature.com/articles/s41...
📢OUT TODAY @natgenet.nature.com
📰Predicting resistance to chemotherapy using chromosomal instability signatures.
By @jsneaththompson.bsky.social, @gmaci.bsky.social and colleagues.
⬇️
www.nature.com/articles/s41...
Epigenetic Subtypes of High-Grade T1 Bladder Cancer Reveal Intra-Tumor Heterogeneity and Distinct Interactions with Tumor Microenvironment. https://www.biorxiv.org/content/10.1101/2025.06.20.659124v1
Online now: Cell states and neighborhoods in distinct clinical stages of primary and metastatic esophageal adenocarcinoma
Early birds today the “Meet the expert” interactive session at the #EACR2025 in Lisbon, discussing KRAS modulators.
Glad to have presented our work on the longitudinal dynamics of transcriptome and chromatin accessibility in HGSC at the #EACR2025 in Lisbon 🇵🇹
Glad to share that the Ida Montinin Fund has awarded me a personal grant to support my doctoral studies at the @helsinki.fi 🤍
Learn about Ida Montini’s legacy (in Finnish): idamontininsaatio.fi
Thanks to my supervisor, Sampsa Hautaniemi, and colleagues for their support! 🙌
Online now: Spatial and genomic profiling of residual breast cancer after neoadjuvant chemotherapy unveil divergent fates for each breast cancer subtype Online now:
Improving Differential Expression and Survival Analyses with Sample Specific Compartment Deconvolution. https://www.biorxiv.org/content/10.1101/2025.06.04.657908v1
Optimising Chemotherapy for Locally Advanced High-Grade Serous Ovarian Cancer via Delay-Differential Equations https://www.biorxiv.org/content/10.1101/2025.06.05.658173v1
