--- id: "/science-medicine/biology-protein/" title: "biology & protein: 30 curated resources" url: "https://skillissue.dev/science-medicine/biology-protein/" --- # biology & protein: 30 curated resources biology & protein [Beginner](/science-medicine/beginner/index.md) [Intermediate](/science-medicine/intermediate/index.md) [Advanced](/science-medicine/advanced/index.md) [Expert](/science-medicine/expert/index.md) 30 resources · page 1 of 1 - ### [AlphaFold 2](/frontier/research-feeds/alphafold-2/index.md) by [Google DeepMind](https://www.deepmind.com/) DeepMind AlphaFold GitHub repo: open-source code for AlphaFold 2 protein structure prediction. entity repo West en - ### [AlphaGenome](/frontier/research-feeds/alphagenome/index.md) by [Google DeepMind](https://www.deepmind.com/) DeepMind AlphaGenome GitHub repo: API client for the AlphaGenome regulatory variant model. entity repo West en - ### [Boltz](/frontier/research-feeds/boltz/index.md) by [Jeremy Wohlwend](https://jeremywohlwend.com) Boltz GitHub repo: open biomolecular interaction models, with Boltz-2 adding binding affinity prediction. entity repo US en - ### [Chai Discovery](/frontier/research-feeds/chai-discovery/index.md) by [Chai Discovery](https://github.com/chaidiscovery) Chai Discovery chai-lab GitHub repo: Chai-1 biomolecular structure prediction model. entity repo US en - ### [CZ CELLxGENE](/frontier/research-feeds/cz-cellxgene/index.md) by [Chan Zuckerberg Initiative (CZ CELLxGENE)](https://chanzuckerberg.com/) CZ CELLxGENE Discover: curated, standardised single-cell datasets to find, download and explore, used to train cell models. entity dataset US en - ### [DeepVariant](/frontier/research-feeds/deepvariant/index.md) by [Google](https://opensource.google/) Google DeepVariant GitHub repo: deep learning pipeline for calling genetic variants from sequencing data. entity repo US en - ### [ESM (EvolutionaryScale)](/frontier/research-feeds/esm-evolutionaryscale/index.md) by [Biohub](https://biohub.ai) EvolutionaryScale ESM GitHub repo, now under Biohub: ESM protein language models with tutorials. entity repo US en - ### [ESM (Meta, ESM-2/ESMFold)](/frontier/research-feeds/esm-meta-esm-2-esmfold/index.md) by [Meta Research](https://opensource.fb.com) Meta ESM GitHub repo: pretrained protein language models ESM-2 and ESMFold. entity repo West en - ### [ESM protein models](/frontier/research-feeds/esm-protein-models/index.md) by [Biohub](https://biohub.ai) Biohub ESM GitHub repo: ESM protein language models including ESMC and ESMFold2, with tutorials. entity repo US en - ### [evo2 (Arc Institute)](/frontier/research-feeds/genomics-evo-2/index.md) by [Arc Research Institute](https://arcinstitute.org/) Arc Institute Evo 2 GitHub repo: genome modelling and design model across all domains of life. entity repo US en - ### [Inceptive](/frontier/research-feeds/inceptive/index.md) by [Inceptive](https://inceptive.com/) Inceptive: company building biological foundation models to design RNA and medicines. entity lab UK en - ### [InstaDeep Nucleotide Transformer](/frontier/research-feeds/instadeep-nucleotide-transformer/index.md) by [InstaDeep Ltd](https://instadeep.com) InstaDeep Nucleotide Transformer GitHub repo: foundation models for genomics and transcriptomics. entity model UK/Africa (Tunisia origins) en - ### [Isomorphic Labs](/frontier/research-feeds/isomorphic-labs/index.md) by [Isomorphic Labs](https://isomorphiclabs.com/) Isomorphic Labs: DeepMind spin-out applying AlphaFold-line models to drug discovery. entity lab UK en - ### [MICrONS Explorer](/frontier/research-feeds/microns-explorer/index.md) by [MICrONS consortium](https://www.microns-explorer.org/) MICrONS Explorer: data portal for a cubic-millimetre mouse cortex connectome reconstructed with machine learning. entity dataset US en - ### [OpenCRISPR](/frontier/research-feeds/opencrispr-research-repository/index.md) by [Profluent](https://profluent.bio) Profluent OpenCRISPR GitHub repo: AI-generated gene editing systems such as OpenCRISPR-1. entity repo US en - ### [OpenFold](/frontier/research-feeds/openfold/index.md) by [AQ Laboratory](https://aqlab.io) AQ Laboratory OpenFold GitHub repo: trainable PyTorch reproduction of AlphaFold 2. entity repo US en - ### [Profluent](/frontier/research-feeds/profluent/index.md) by [Profluent](https://profluent.bio/) Profluent: company using protein language models to design new proteins and gene editors. entity lab US en - ### [AlphaFold 3](/frontier/research-feeds/protein-design-folding/index.md) by [Google DeepMind](https://www.deepmind.com/) DeepMind AlphaFold 3 GitHub repo: AlphaFold 3 inference pipeline. entity repo UK; US en - ### [ProteinMPNN](/frontier/research-feeds/proteinmpnn/index.md) by [Justas Dauparas](https://dauparas.github.io/) ProteinMPNN GitHub repo: code for the ProteinMPNN protein sequence design model. entity repo West en - ### [Protenix (ByteDance)](/frontier/research-feeds/protenix-bytedance/index.md) by [ByteDance](https://opensource.bytedance.com) ByteDance Protenix GitHub repo: open-source biomolecular structure prediction reproducing and extending AlphaFold 3. entity repo CN en - ### [RCSB Protein Data Bank](/frontier/research-feeds/rcsb-protein-data-bank/index.md) by [RCSB Protein Data Bank](https://www.rcsb.org/) RCSB Protein Data Bank: curated archive of experimentally determined 3D protein structures with search and analysis tools. entity dataset US en - ### [Recursion](/frontier/research-feeds/recursion/index.md) by [Recursion](https://recursion.com/) Recursion: company using AI and automated biology for drug discovery. entity lab US en - ### [RoseTTAFold](/frontier/research-feeds/rosettafold/index.md) by [RosettaCommons](https://www.rosettacommons.org) RosettaCommons RoseTTAFold GitHub repo: deep learning protein structure prediction models. entity repo US en - ### [snnTorch](/frontier/research-feeds/snntorch/index.md) by [Jason Eshraghian (snnTorch)](https://github.com/jeshraghian/snntorch) snnTorch documentation: tutorials for training spiking neural networks in PyTorch. entity org West en - ### [SpyTorch](/frontier/research-feeds/spytorch-spiking-nns-tutorial/index.md) by [Friedemann Zenke](https://fzenke.net) SpyTorch GitHub repo: tutorial on surrogate gradient learning in spiking neural networks. entity repo West en - ### [BirdNET](/frontier/research-feeds/birdnet/index.md) by [K. Lisa Yang Center for Conservation Bioacoustics (Cornell Lab of Ornithology)](https://birdnet.cornell.edu/) BirdNET site from Cornell: AI tool for identifying bird species from sound recordings. Intermediate learning_resource guide US/Germany en - ### [AlphaFold 2 Nature paper](/frontier/research-feeds/alphafold-2-nature-paper/index.md) by [John Jumper et al. (DeepMind)](https://deepmind.google/) Nature paper (2021) on AlphaFold 2, highly accurate protein structure prediction. Advanced learning_resource paper West en - ### [Baidu PaddleHelix](/frontier/research-feeds/baidu-paddlehelix/index.md) by [PaddlePaddle](https://www.paddlepaddle.org.cn/) Baidu PaddleHelix GitHub repo: bio-computing platform on PaddlePaddle for drug discovery and protein models. Advanced learning_resource guide China en|zh - ### [KAN: Kolmogorov-Arnold Networks](/frontier/research-feeds/kan-kolmogorov-arnold-networks/index.md) by [Ziming Liu et al. (MIT)](https://www.mit.edu/) arXiv paper (2024) introducing Kolmogorov-Arnold Networks (KAN) with learnable activation functions on edges. Advanced–Expert learning_resource paper West en - ### [Still Waters, Rapid Currents: Early Labor Market Transformation under Generative AI (NBER w33777)](/frontier/research-feeds/humlum-vestergaard-large-language-models-small-labor-market-effects-nber-w33777/index.md) by [National Bureau of Economic Research (NBER)](https://www.nber.org/) NBER working paper w33777 by Humlum and Vestergaard on early labour-market effects of AI chatbots, using Danish data. Expert learning_resource paper Denmark en [Plain-text Markdown copy](/science-medicine/biology-protein/index.md)