Lawrence Berkeley National Laboratory

Ordered-water prediction for protein structures by flow matching, adding the crystal symmetry mates that coordinate waters at lattice contacts.

Activation domain predictor scoring transcriptional activator strength from protein sequence, with a 20-model ensemble that reports uncertainty.

Machine-learned interatomic potential supplying quantum-quality geometric restraints for refining cryo-EM and X-ray protein structures in Phenix.

Autoregressive transformer pretrained on 2,000 hours of intracortical spiking activity, decoding motor intent across subjects, species, and tasks.

Protein language model fine-tuned on yeast-display directed evolution data to score rice immune receptor variants for fungal effector binding.

Base-resolution chromatin accessibility model that factors out enzyme sequence bias to score regulatory variants and transcription factor footprints.

Graph neural network that predicts magnesium ion binding sites on RNA structures, powering SAXS-based validation of RNA solution conformations.

RNA language model pretrained on 231 bacterial and archaeal RNA families that generates full-length rRNA and scores mutations for thermostability.

Protein structure and complex prediction from sequence, in a three-track network that reasons over alignments, distances, and 3D coordinates at once.