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Daniel Anderson

@danderson123.bsky.social

Bioinformatician @ Basecamp Research

5 Posts44 Follower137 Folgt
Ming Tommy Tang@tommytang.bsky.social · 4d ago

Genome Biology: DeMixNB: deconvolution of sparse-count RNA sequencing data for tumor cells using embedded negative binomial distributions link.springer.com/article/10....

DeMixNB: deconvolution of sparse-count RNA sequencing data for tumor cells using embedded negative binomial distributions

Genome Biology - Estimating tumor-specific transcript proportions from mixed bulk samples has potential to inform novel biology. However, estimation accuracy using existing methods in sparse-count...

link.springer.com

Floris Barthel@florisbarthel.bsky.social · 3w ago

The improved HKS index was developed by @jnalanko.bsky.social, @camillemrcht.bsky.social and Simon Puglisi. KaryoScope and its original KMC-derived data structure were developed by @trhyker.bsky.social, with our co-authors and @humanpangenome.bsky.social HKS: www.biorxiv.org/content/10.6...

Hierarchical genomic feature annotation with variable-length queries

K -mer-based methods are widely used for sequence classification in metagenomics, pangenomics, and RNA-seq analysis, but existing tools face important limitations: they typically require a fixed k -me...

biorxiv.org

Nature Computational Science@natcomputsci.nature.com · last mo.

📢In a new study, Yatish Turakhia and colleagues introduce DIPPER, a GPU-accelerated tool for efficiently reconstructing evolutionary trees from tens of millions of genome sequences. www.nature.com/articles/s43... 🖥️ 🧬 #evosky 🔓 rdcu.be/fsPLo

Ultrafast and ultralarge distance-based phylogenetics using DIPPER - Nature Computational Science

This study introduces DIPPER, a GPU-accelerated tool that efficiently reconstructs evolutionary trees from tens of millions of genome sequences, extending scalability by one to two orders of magnitude...

nature.com

Daniel Anderson@danderson123.bsky.social · 5mo ago

As a bioinformatician, it doesn’t get more exciting than this! Scaling to 1T+ genes isn’t just collecting more data. It demands new algorithms, infrastructure, and abstractions for complex biology. Excited to be working with an incredible team to push the boundaries of sequence informatics.

Basecamp Research@basecamp-research.bsky.social · 5mo ago

We’re launching the Trillion Gene Atlas with Anthropic, NVIDIA, PacBio, and UltimaGenomics. 🌍 The Goal: To expand known genomes 100×, sequencing 100M+ species to build foundation models grounded in evolution itself. 🔗 Read more: www.prnewswire.com/news-release...