https://www.europesays.com/uk/29907/ Vascular Ehlers Danlos Syndrome and Chromosome 2q32 Microdeletion Syndrome #Bioinformatics #Biomedicine #ChromosomeAbnormality #Cytogenetics #GeneExpression #general #GeneticTesting #Genetics #HumanGenetics #Science #UK #UnitedKingdom
Ahhh all I want for my team is MacBooks for local bioinformatics dev and some local Linux server compute power. Seems to be a never ending back and forth with IT… The challenge is bioinformatics is very different to the often assumed traditional data science or software dev… 
#bioinformatics
Abstract submitted with hours to spare - fingers crossed for #BOSC2025 / #ISMB2025 / #ECCB2025 and plenty of interesting #OpenSource #Bioinformatics presentations! 
Anyone have any experience using #AWS workspaces or VNC as a #rstats or #bioinformatics dev environment. I much prefer the idea of keeping dev on a local laptop and avoiding potential latency issues, keeping a single file system, and the ability to work on the go even without internet, but would be interested to hear others experiences.
Can sugar fuel cancer?
A new bioinformatics study shows that high blood sugar triggers specific genes that make breast cancer more aggressive and harder to treat.
Genes like CCNB2, XRCC2, and CENPI respond directly to glucose—supercharging tumor growth, DNA repair, and mutation.
It’s not just a diet issue—it’s molecular.
Should we be treating metabolism as a cancer risk factor?
Read more: https://blueheadline.com/tech-breakthroughs/high-blood-sugar-breast-cancer/
Some time ago @devTLB and I announced that we work on a review about #rstats packages for #bioimage informatics. We think it is fairly complete now.
We would be happy to get some feedback before we submit it.
Here is the link to the draft:
[Update: Copy on Codeberg]
https://codeberg.org/devSJR/Bioimage/src/branch/main/RImageReview.pdf
The #BOSC2025 abstract deadline has crept up on me - now urgent as 17 April. Time to talk about some #OpenSource #bioinformatics work I’ve been doing with @widdowquinn et al
Pipeline release! nf-core/hlatyping v2.1.0 - 2.1.0 - Chewbacca!
Please see the changelog: https://github.com/nf-core/hlatyping/releases/tag/2.1.0
Finished sequencing & assembling new strain of a Haloarchea - here's ANI comparison plot to another genome ostensibly belonging to the same species. Difference between the two is about 10%. This pattern repeats through the genus.
Upcoming poster & preprint might be a bit spicy.
Question for #nanopore folks. I'm comparing collaborator's BAM vs mine, generated from same pod5. It looks like the collaborator's BAM has an extra qs: tag missing in mine.
Why would there be a difference? One would think default pod5 commands would record same tags for all output BAM?
Ready for AI to crack the RNA-disease code?
GL4SDA: Predicting snoRNA-disease associations using GNNs and LLM embeddings. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2025.03.014
CSBJ: https://www.csbj.org/
Pipeline release! nf-core/fastquorum v1.2.0 - 1.2.0!
Please see the changelog: https://github.com/nf-core/fastquorum/releases/tag/1.2.0
https://www.europesays.com/uk/10917/ Quantitative characterization of cell niches in spatially resolved omics data #Agriculture #AnimalGeneticsAndGenomics #Bioinformatics #Biomedicine #CancerResearch #DataMining #GeneExpressionAnalysis #GeneFunction #general #Genetics #HumanGenetics #Science #software #Transcriptomics #UK #UnitedKingdom
Anyone else finding the sequencing costs appear to be getting more expensive rather then continuing to decline. I'm thinking its likely related to inflation, wages and current US uncertainty...? oh and Illumina and alike only delivering true reduced cost/GB on large scale flowcells, which aren't suitable for many small to medium size projects...
#genomics #bioinformatics
:mega: April 2025 WikiPathways release: 454 edits by 10 contributors and 9 new pathways.
Accessible via #webservices, #rstats, Pathvisio, and Cytoscape. Supported by AWSOpen https://www.wikipathways.org/download.html
New graph-based tool ska lo enables reference-free detection of SNPs, indels, and variant groups from pathogen WGS data. Benchmarking shows high sensitivity, including in regions with dense mutations.
Pipeline release! nf-core/oncoanalyser v2.0.0 - 2.0.0 - Flame Robin!
Please see the changelog: https://github.com/nf-core/oncoanalyser/releases/tag/2.0.0
