[upstream-sync] README.md from ai-boost/awesome-ai-for-science@56d059ea [catalogue]

2026-07-06 20:12:20 +00:00
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 title: "Readme"
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-upstream_source: https://github.com/ai-boost/awesome-ai-for-science/blob/e0df96d7/README.md
-upstream_sha: e0df96d7
+upstream_source: https://github.com/ai-boost/awesome-ai-for-science/blob/56d059ea/README.md
+upstream_sha: 56d059ea
 imported_at: 2026-07-06
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 - [AlphaMissense](https://github.com/google-deepmind/alphamissense) - Google DeepMind's AlphaFold-derived classifier for proteome-wide missense variant effect prediction, providing pathogenicity scores for all ~71M possible human missense variants and classifying 89% with 90% precision; pre-computed predictions are integrated into Ensembl VEP and UCSC Genome Browser to support clinical variant interpretation (Science 2023)
 - [AlphaGenome](https://github.com/google-deepmind/alphagenome) - Google DeepMind's unified DNA sequence foundation model predicting molecular consequences of genetic variants from single-base resolution up to 1 megabase context, jointly outputting thousands of regulatory tracks (RNA expression, splicing, chromatin accessibility, TF binding, contact maps) for human and mouse genomes via a Python client and non-commercial API (2025)
 - [GPN-Star (Song Lab, UC Berkeley, bioRxiv 2025)](https://github.com/songlab-cal/gpn) - Phylogeny-aware genomic language model trained on whole-genome alignments across multiple evolutionary timescales, predicting functional constraints and variant effects for human, mouse, chicken, fly, worm, and Arabidopsis genomes (344+ stars, MIT License)
+- [GENERanno (bioRxiv 2025)](https://github.com/GenerTeam/GENERanno) - Genomic foundation model for metagenomic and genome annotation, featuring an 8k base-pair context and 500M parameters trained on 386B base pairs of eukaryotic DNA; provides expert models and a unified CLI for prokaryotic/eukaryotic coding-sequence annotation with strong performance on Genomic Benchmarks, Nucleotide Transformer tasks, and custom Gener tasks (GenerTeam, 314+ stars, MIT License)
 - [DeepVariant](https://github.com/google/deepvariant) - Google DeepMind's deep learning analysis pipeline for calling genetic variants (SNPs and indels) from next-generation DNA sequencing data, achieving human expert-level accuracy and widely adopted in clinical genomics, population genetics, and precision medicine; pre-trained models available for multiple sequencing platforms and organismal genomes (Nature Biotechnology 2018, 3.7K+ stars)
 - [Casanovo](https://github.com/Noble-Lab/casanovo) - Transformer encoder-decoder for de novo peptide sequencing from tandem mass spectrometry, translating MS/MS spectra directly to peptide sequences without reference databases, enabling identification of novel peptides for immunopeptidomics, antibody repertoires, and metaproteomes (Noble Lab UW, Nature Communications 2024)