iiinova — where your digital self keeps evolving

Reposted by Long Pan

Theo Hirsch @tz-hirsch.bsky.social · 06/07/2026

Most chromosomal mosaicisms arise after fertilization. We report a child with hepatoblastoma carrying a chromosome 18 rearrangement that instead originated before fertilization. Multi-omics analyses revealed its evolution from gametogenesis to cancer. doi.org/10.1016/j.jh...

Natural history of the patient, from gametogenesis to tumorigenesis

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Long Pan @longpan.bsky.social · 23/05/2026

Huge thanks to my exceptional and inspiring mentor @zucmanrossi.bsky.social. Deeply grateful to @Stefano Caruso @tz-hirsch.bsky.social @Sandrine Imbeaud, and our collabrators @Chantal Desdouets @Séverine Morizur @Jing Fang @Darjus Tschaharganeh @Agnieszka Seretny, as well as all collabrators.

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Long Pan @longpan.bsky.social · 23/05/2026

Overall, our study provides a robust molecular classification for HCC and supports the development of genome-based precision medicine in HCC.

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Long Pan @longpan.bsky.social · 23/05/2026

Integrateing clinical data with clonal evolution analysis, we proposed an evolutionary model for the rare TP53+CTNNB1ex3 subtype, highlighting stepwise selection (TP53 --> CTNNB1), transcriptomic state swiching and its link to poor prognosis.

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Long Pan @longpan.bsky.social · 23/05/2026

Using developed p53 and β-catenin activity scores, we uncovered functional TP53 inactivation BAP1-mutated HCC, validated in mouse models. We also found both AXIN1 and TP53 mutations were associated with increased β-catenin activity and decreased p53 activity.

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Long Pan @longpan.bsky.social · 23/05/2026

Comprehensive annotation of mutations, CNAs, SVs, gene fusions and viral insertion, together with transcriptome identify 9 robust subtypes. 7 out of 9 subtypes were driven by driver gene alterations, suggesting the strong heritability in controlling phenotypic plasticity in HCC.

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Long Pan @longpan.bsky.social · 23/05/2026

Delighted to share my PhD work is now published in Nat Commun! 💯 We established a large HCC dataset including 529 tumors from 461 patients treated in Western countries, integrating WGS/WES, RNA-seq, DNA methylation and proteomics data. www.nature.com/articles/s41...

nature.com

Integrated genomic analyses identify oncogenic pathway interplay in hepatocarcinogenesis defining specific molecular subtypes - Nature Communications

Precision oncology for hepatocellular carcinoma (HCC) remains challenging due to the high diversity of HCC at the clinical and molecular levels. Here, the authors employ an integrative multi-omics app...

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Long Pan @longpan.bsky.social · 23/05/2026

Overall, our study provides a robust molecular classification for HCC and supports the development of genome-based precision medicine in HCC.

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Long Pan @longpan.bsky.social · 23/05/2026

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Long Pan @longpan.bsky.social · 23/05/2026

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Long Pan @longpan.bsky.social · 23/05/2026

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Reposted by Long Pan

Quaid Morris @quaidmorris.bsky.social · 29/01/2026

In a new paper, we introduce Metient, a new method to reconstruct the migration history of metastatic clones, and learn cancer-type specific patterns of metastatic spread, from bulk or single-cell sequencing data. www.nature.com/articles/s41...

nature.com

Inferring cancer type-specific patterns of metastatic spread using Metient - Nature Methods

Metient is a statistical framework that infers patterns of metastatic spread and reconstructs cancer migration histories.

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Reposted by Long Pan

Trevor Graham @trevorgraham.bsky.social · 13/11/2025

Calling cancer data scientists! 📊 💽 🧮 We have a number of open positions in our core facility @icr.ac.uk These are bioinformatician staff scientist like roles to work on exciting single cell, spatial & other genomics data from across our Institute. A PhD is required. jobs.icr.ac.uk/vacancies/13...

jobs.icr.ac.uk

Data Scientist in Sutton | The Institute of Cancer Research

View details and apply for this Data Scientist vacancy in Sutton. Salary : Salary range £39,805 to £53,500 (Dependent on experience ) Reporting to: Professor Trevor Gra...

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Reposted by Long Pan

Calum Gabbutt @calumgabbutt.bsky.social · 10/09/2025

Cancer is an evolutionary disease, but does knowing a cancer’s evolutionary past help predict its future? Out today in @nature, we learnt the evolution of 2000 lymphoid cancers and found it was highly correlated with clinical outcomes! (1/7) rdcu.be/eFrrc

rdcu.be

Fluctuating DNA methylation tracks cancer evolution at clinical scale

Nature - Cancer evolutionary dynamics are quantitatively inferred using a method, EVOFLUx, applied to fluctuating DNA methylation.

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Reposted by Long Pan

Trevor Graham @trevorgraham.bsky.social · 10/09/2025

Studying cancer evolution needs multi-region or single cell seq for phylogenetics, right? Amazingly (I think!) we found single-sample bulk methylation suffices, via analysis of "fluctuating methylation". In @nature.com today led by brilliant @calumgabbutt.bsky.social www.nature.com/articles/s41...

nature.com

Fluctuating DNA methylation tracks cancer evolution at clinical scale - Nature

Cancer evolutionary dynamics are quantitatively inferred using a method, EVOFLUx, applied to fluctuating DNA methylation.

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