New York Structural Biology Center

Ne47 Bio, Inc.

Tristan Bepler

Bonnie Berger Leighton

Paul T Kim

A method of automated control of a microscope in cryogenic electron microscopy (cryo-EM), wherein the microscope is configured to collect high-magnification micrographs of particles suspended in vitreous ice. Such particles are found in grid squares, and a square contains holes from which high-magnification micrographs are imaged. The method is carried out during an active data collection session, leveraging a pipeline that comprises a set of models. The pipeline evaluates a set of collection locations to determine whether to continue collection at a current grid/square or instead at a new grid/square. The evaluation is based on a set of one or more quality scores derived from one or more pretrained models and machine learning-based active learning. Based on the determination, control information is provided to automatically control the microscope to move to a next target for data collection.

Automating cryo-electron microscopy data collection

A method for efficient search of protein sequence databases for proteins that have sequence, structural, and/or functional homology with respect to information derived from a search query. The method involves transforming the protein sequences into vector representations and searching in a vector space. Given a database of protein sequences and a learned embedding model, the embedding model is applied to each amino acid sequence to transform it into a sequence of vector representations. A query sequence is also transformed into a sequence of vector representations, preferably using the same learned embedding model. Once the query has been embedded in this manner, proteins are retrieved from the database based on distance between the query embedding and the protein embeddings contained within the database. Rapid and accurate search of the vector space is carried out using exact search using metric data structures, or approximate search using locality sensitive hashing.

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Hillsborough, NC, United States of America

Tristan Bepler