Kez Cleal
@kezc.bsky.social
Lecturer in cancer bioinformatics at Cardiff University. https://github.com/kcleal
Reposted by Kez Cleal
We are happy to present a new paper on gastric tumour evolution in response to peri-operative chemotherapy. www.biorxiv.org/content/10.1... 🧵 1/6
Tumor clone dynamics in gastro-esophageal cancer organoids reveal a non-genetic memory of neoadjuvant chemotherapy via downregulation of NFκB signaling
Adenocarcinomas of the gastroesophageal junction exhibit genetic and non-genetic heterogeneity that impact clinical outcomes, though the underlying mechanisms behind drug resistance remain poorly unde...
www.biorxiv.org
July 31, 2025 at 6:28 AM
We are happy to present a new paper on gastric tumour evolution in response to peri-operative chemotherapy. www.biorxiv.org/content/10.1... 🧵 1/6
Reposted by Kez Cleal
New work from the lab trying to wrap our heads around the massive complexity of the human transcriptome revealed by long-read RNA-seq! Fun collab with Gloria Sheynkman. www.biorxiv.org/content/10.1...
Perplexity as a Metric for Isoform Diversity in the Human Transcriptome
Long-read sequencing (LRS) has revealed a far greater diversity of RNA isoforms than earlier technologies, increasing the critical need to determine which, and how many, isoforms per gene are biologic...
www.biorxiv.org
July 2, 2025 at 11:46 PM
New work from the lab trying to wrap our heads around the massive complexity of the human transcriptome revealed by long-read RNA-seq! Fun collab with Gloria Sheynkman. www.biorxiv.org/content/10.1...
🚨 Our GW paper is out in Nature Methods!🥲
GW is a fast genomics browser (up to 100x faster!)
github.com/kcleal/gw
Also, just released a Python interface for GW
github.com/kcleal/gwplot
📝 nature.com/articles/s4159…#Genomicsc#Bioinformaticscs
GW is a fast genomics browser (up to 100x faster!)
github.com/kcleal/gw
Also, just released a Python interface for GW
github.com/kcleal/gwplot
📝 nature.com/articles/s4159…#Genomicsc#Bioinformaticscs
GitHub - kcleal/gw: Genome browser and variant annotation
Genome browser and variant annotation. Contribute to kcleal/gw development by creating an account on GitHub.
github.com
June 26, 2025 at 2:47 PM
🚨 Our GW paper is out in Nature Methods!🥲
GW is a fast genomics browser (up to 100x faster!)
github.com/kcleal/gw
Also, just released a Python interface for GW
github.com/kcleal/gwplot
📝 nature.com/articles/s4159…#Genomicsc#Bioinformaticscs
GW is a fast genomics browser (up to 100x faster!)
github.com/kcleal/gw
Also, just released a Python interface for GW
github.com/kcleal/gwplot
📝 nature.com/articles/s4159…#Genomicsc#Bioinformaticscs
A really useful resource
Happened upon this interesting website 42basepairs.com/browse. Came across it today when looking at some publicly available whole-genome sequencing data. #genetics #genomics
Browse - 42basepairs
42basepairs.com
April 8, 2025 at 7:49 AM
A really useful resource
@adbeggs.bsky.social Hi Andrew. Fantastic talk today at the WCRC conference! It was very inspiring 👏
March 3, 2025 at 7:12 PM
@adbeggs.bsky.social Hi Andrew. Fantastic talk today at the WCRC conference! It was very inspiring 👏
🧬🖥️ Just released Dysgu v1.8 which now supports phasing of structural variants when using long reads. Makes SV calling much more sensitive - see PacBio benchmark 👉 github.com/kcleal/SV_Be... dysgu repo github.com/kcleal/dysgu...
February 26, 2025 at 11:37 AM
🧬🖥️ Just released Dysgu v1.8 which now supports phasing of structural variants when using long reads. Makes SV calling much more sensitive - see PacBio benchmark 👉 github.com/kcleal/SV_Be... dysgu repo github.com/kcleal/dysgu...
🧬🖥️ Sharing an update to my SV benchmark repo. More callers have been added for the CMRG/GIAB benchmarks. github.com/kcleal/SV_Be.... Also now uses #Nextflow and tests the newest #PacBio Vega data, along with #ONT kit14. Results are on the GitHub page 👉
GitHub - kcleal/SV_Benchmark_CMRG_GIAB: Structural variant benchmark of challenging medically relevant genes
Structural variant benchmark of challenging medically relevant genes - kcleal/SV_Benchmark_CMRG_GIAB
github.com
November 29, 2024 at 1:40 PM
🧬🖥️ Sharing an update to my SV benchmark repo. More callers have been added for the CMRG/GIAB benchmarks. github.com/kcleal/SV_Be.... Also now uses #Nextflow and tests the newest #PacBio Vega data, along with #ONT kit14. Results are on the GitHub page 👉
Hi all. Just released a fast library (C++/Rust/Python) for performing interval intersections. Uses a novel superset-index that tends to be faster than current libs, and also has a SIMD accelerated counting algorithm 👇 github.com/kcleal/super...
GitHub - kcleal/superintervals: Fast interval intersection library
Fast interval intersection library. Contribute to kcleal/superintervals development by creating an account on GitHub.
github.com
November 18, 2024 at 3:44 PM
Hi all. Just released a fast library (C++/Rust/Python) for performing interval intersections. Uses a novel superset-index that tends to be faster than current libs, and also has a SIMD accelerated counting algorithm 👇 github.com/kcleal/super...
Reposted by Kez Cleal
I made a starter pack for algorithmic genomics. It's certainly incomplete, but already has a ton of awesome peeps. Let me know if you know people I should add (with a focus on algorithms and data structures in genomics)
go.bsky.app/TRWCnZs
go.bsky.app/TRWCnZs
November 12, 2024 at 2:03 PM
I made a starter pack for algorithmic genomics. It's certainly incomplete, but already has a ton of awesome peeps. Let me know if you know people I should add (with a focus on algorithms and data structures in genomics)
go.bsky.app/TRWCnZs
go.bsky.app/TRWCnZs
BioNumpy looks really good, looking forward to giving this a try www.nature.com/articles/s41...
November 11, 2024 at 7:05 PM
BioNumpy looks really good, looking forward to giving this a try www.nature.com/articles/s41...
Reposted by Kez Cleal
I created a genomics+bioinformatics starter pack. If I left you off, *please* reply and I'll add you! go.bsky.app/B5YYBfq
Genomics+Bioinformatics Starter Pack 🧬🖥️
Join the conversation
go.bsky.app
October 22, 2024 at 12:34 PM
I created a genomics+bioinformatics starter pack. If I left you off, *please* reply and I'll add you! go.bsky.app/B5YYBfq
Hello world! This looks promising
September 13, 2023 at 10:44 PM
Hello world! This looks promising