Steve Thorn
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drthorn.bsky.social
Steve Thorn
@drthorn.bsky.social
Computational cancer biology. #bioinformatics, #CancerGenomics. Interested in subtypes of #ColorectalCancer and chromosomal instability @oncology.ox.ac.uk 🧬 Previously @uoe-igc.bsky.social @roslininstitute.bsky.social @ESA.int @CERN.bsky.social 🏴󠁧󠁢󠁳󠁣󠁴󠁿🇪🇺 he/him
Reposted by Steve Thorn
Reposted by Steve Thorn
SigRescueR: A Pan-System Framework for Noise Correction and Mutational Signature Identification Across Sequencing Platforms https://www.biorxiv.org/content/10.1101/2025.11.14.688578v1
November 16, 2025 at 4:36 AM
Reposted by Steve Thorn
Mapping chromatin structure at base-pair resolution unveils a unified model of cis-regulatory element interactions www.sciencedirect.com/science/arti... #genomics #dna #biochemistry #biophysics
Mapping chromatin structure at base-pair resolution unveils a unified model of cis-regulatory element interactions
Chromatin structure is a key determinant of gene expression in eukaryotes, but it has not been possible to define the structure of cis-regulatory elem…
www.sciencedirect.com
November 7, 2025 at 2:08 PM
Reposted by Steve Thorn
New @natgenet.nature.com paper from the brilliant @eszterlakatos.bsky.social presents evidence that chromatin alterations disrupt antigen presentation & neoantigens in colorectal cancer. Also that immune escape is part of the "Big Bang", at the outset of CRC growth. www.nature.com/articles/s41...
Epigenetically driven and early immune evasion in colorectal cancer evolution - Nature Genetics
This study nominates immune escape as an early event in colorectal cancer and shows how this can be driven through both genetic and epigenetic changes.
www.nature.com
November 5, 2025 at 4:36 PM
Reposted by Steve Thorn
New online! Decoding the regulatory genome with large-scale deep learning
Decoding the regulatory genome with large-scale deep learning
Nature Reviews Genetics, Published online: 03 November 2025; doi:10.1038/s41576-025-00914-2In this Journal Club, Peter Koo reflects on the 2021 publication of Enformer and its impact on the use of deep learning for modelling the regulatory genome.
www.nature.com
November 3, 2025 at 1:07 PM
Reposted by Steve Thorn
PhD training needs a reboot in an AI world www.nature.com/articles/d41... 🧬🖥️🧪
November 3, 2025 at 7:00 PM
Reposted by Steve Thorn
This review highlights the dual nature of R-loops in #GeneRegulation and #GenomeInstability, emphasizing their impact on #DNADamage responses and potential as #therapeutic targets. #medsky

#OpenAccess: www.sciencedirect.com/science/arti...
November 2, 2025 at 12:51 AM
Reposted by Steve Thorn
Now online in Cancer Discovery @aacrjournals.bsky.social: A Prognostic Signature for Lung Adenocarcinoma in Patients Who Have Never Smoked - by Wei Zhao, Maria Teresa Landi, and colleagues doi.org/10.1158/2159...
October 30, 2025 at 5:25 PM
Reposted by Steve Thorn
The first time I saw this approach was this post by @fabiocrameri.ch: x.com/fcrameri/sta...

Some more serious examples are featured in his paper "The misuse of colour in science communication"
👉 www.nature.com/articles/s41...
The misuse of colour in science communication - Nature Communications
The accurate representation of data is essential in science communication, however, colour maps that visually distort data through uneven colour gradients or are unreadable to those with colour vision...
www.nature.com
October 28, 2025 at 4:46 PM
Reposted by Steve Thorn
Reproducible processing of TCGA regulatory networks academic.oup.com/gigascience/... 🧬🖥️🧪
Reproducible processing of TCGA regulatory networks
AbstractBackground. Technological advances in sequencing and computation have allowed deep exploration of the molecular basis of diseases. Biological netwo
academic.oup.com
October 27, 2025 at 5:55 PM
Reposted by Steve Thorn
What makes PhD students happy? Good supervision - Supervisors who invest in positive mentoring relationships with their PhD candidates also reap the benefits for their own research www.nature.com/articles/d41... #mentoring #phd #gradschool #commonsense #true #education #meded
What makes PhD students happy? Good supervision
Supervisors who invest in positive mentoring relationships with their PhD candidates also reap the benefits for their own research.
www.nature.com
October 24, 2025 at 3:36 PM
Reposted by Steve Thorn
GraphComm predicts cell cell communication using a graph based deep learning method in single cell RNA sequencing data www.nature.com/articles/s41... 🧬🖥️🧪 github.com/bhklab/Graph...
October 24, 2025 at 3:55 PM
Reposted by Steve Thorn
A telomere-to-telomere map of somatic mutation burden and functional impact in cancer. #T2T #SomaticMutations #CancerGenetics #Genomics @biorxiv-genomic.bsky.social
www.biorxiv.org/content/10.1...
October 22, 2025 at 11:15 AM
Reposted by Steve Thorn
APOBEC3A-Induced DNA Damage Drives Polymerase Theta Dependency and Synthetic Lethality in Cancer https://www.biorxiv.org/content/10.1101/2025.10.21.682588v1
October 22, 2025 at 5:48 PM
Reposted by Steve Thorn
Beyond Cox models: Assessing the performance of machine-learning methods in non-proportional hazards and non-linear survival analysis 🧬🖥️ www.sciencedirect.com/science/arti...
Beyond Cox models: Assessing the performance of machine-learning methods in non-proportional hazards and non-linear survival analysis
Survival analysis often relies on Cox models, assuming both linearity and proportional hazards (PH). This study evaluates machine and deep learning me…
www.sciencedirect.com
October 20, 2025 at 6:23 PM
Reposted by Steve Thorn
Meta-analysis reveals differences in somatic alterations by genetic ancestry across common cancers. #SomaticAlterations #PopulationDiversity #Genomics @natgenet.nature.com 🧬
www.nature.com/articles/s41...
October 17, 2025 at 11:15 AM
Reposted by Steve Thorn
October 14, 2025 at 3:13 PM
Reposted by Steve Thorn
Proud to share our latest work in Science Advances!!! p21 rules 😎!

Endogenous p21 levels protect genomic stability by suppressing both excess and restrained nascent DNA syntheses | Science Advances www.science.org/doi/10.1126/...
Endogenous p21 levels protect genomic stability by suppressing both excess and restrained nascent DNA syntheses
p21 acts as a rheostat of DNA replication speed controlling PrimPol- and Pol kappa–dependent nascent DNA synthesis.
www.science.org
October 9, 2025 at 1:06 AM
Reposted by Steve Thorn
Your ggplot2 charts work fine, but are they memorable? Real color engineering: brightness first (strongest differentiator), then hue, finally saturation. Most people get this backwards and wonder why their viz falls flat. www.chartography.net/p/color-engi...
Color Engineering
The tool that snaps mercurial design into mechanical focus.
www.chartography.net
October 8, 2025 at 5:49 PM
Reposted by Steve Thorn
An improved epigenetic age estimation with TFMethyl Clock reveals DNA methylation changes during aging in transcription factor binding sites https://www.biorxiv.org/content/10.1101/2025.10.07.680024v1
October 8, 2025 at 12:47 AM
Reposted by Steve Thorn
Transcription Factor-Dependent Cancers: Targeting chromatin remodelling complexes to treat uveal melanoma.
buff.ly/ALwM42Y
October 5, 2025 at 8:21 AM
Reposted by Steve Thorn
Now online in Cancer Discovery @aacrjournals.bsky.social: Epigenetic and Transcriptional Programs Define #Osteosarcoma Subtypes and Establish Targetable Vulnerabilities - by Eunice López-Fuentes, Alejandro Sweet-Cordero, and colleagues doi.org/10.1158/2159... @ucsfchildrens.bsky.social
October 3, 2025 at 4:48 PM