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Weekly Recap (Aug 2025, Part 1)
Rewriting regulatory DNA, zero-shot evaluation of scRNAseq foundation models, predicting gene function with coevolutionary signals, errors in long-read…
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Stephen Turner
Weekly Recap (July 2025, part 3)
Long-read consensus assembly with Autocycler, Progen3 for generation and functional understanding of proteins, CarpeDeam for ancient metagenome…
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Genome engineering in biodiversity conservation and restoration
Our new perspective paper in Nature Reviews Biodiversity describes how modern gene editing technology can serve as a crucial "second aid" approach to…
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Stephen Turner
Weekly Recap (July 2025, part 2)
Deep ancestral structure shared by humans, a genomic language model for enhancer prediction, enzyme active site scaffolding using RFdiffusion2…
Weekly Recap (July 2025, part 1)
Rust-based wgatools for alignment manipulation & analysis, Nextflow nf-core/scnanoseq for ONT scRNA-seq, Sawfish for long-read SV analysis, BINSEQ…
Weekly Recap (June 2025, part 2)
Interactive visualization of tabular data, shared foundations of gene expression and chromatin structure, fast protein structure searching with graph…
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Stephen Turner
Weekly Recap (June 2025, part 1)
PhyloSketch for drawing phylogenies, Uncalled4 for DNA/RNA modification detection, Severus for long read SV calling, CREsted for synthetic enhancer…
Weekly Recap (May 2025, part 3)
Polars-bio, LiftOn, feature selection for scRNA-seq, STRkit for genotyping STRs with long reads, nf-core/detaxizer, Uncalled4, RegionScan, CREsted…
Weekly Recap (May 2025, part 2)
Comprehensive evolutionary modeling of human gene function, an AI reasoning model for rare disease diagnosis, an AI agent for scRNA-seq data…
Weekly Recap (May 2025, part 1)
Methods in genetic epidemiology, privacy-preserving methods for QTL and GWAS analysis, family-based GWAS, lots of Nextflow for PGS construction…
Weekly Recap (April 2025, part 2)
Effector genes at GWAS hits, protein evolution, regulatory variant prediction, gene/genome duplication analysis, genomic foundation models, Nextflow…
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Stephen Turner
Weekly Recap (April 2025, part 1)
Evo2, genomic foundationless models, the ggalign R package, ancestral reconstruction for ancient DNA, biodiversity genomics reviews, structural…
© 2025 Stephen Turner
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