Biological and Physical Sciences (BPS) Microscopy Benchmark Training Dataset

RNA sequencing data from spaceflown and control mouse liver samples, sourced from NASA GeneLab and augmented with generative adversarial network.

This data ecosystem, Brain Observatory Storage Service & Database (BossDB), contains several neuro-imaging datasets across multiple modalities and scales, ranging from nanoscale (electron microscopy), to microscale (cleared lightsheet microscopy and array tomography), and mesoscale (structural and functional magnetic resonance imaging). Additionally, many of the datasets include dense segmentation and meshes.

This dataset includes data and models relevant to benchmarking multimodal biological models. The data has been sourced and curated by a team of experts at Biohub and is provided as part of these datasets only when it is not publicly available or requires transformation to support effective model benchmarking.

The “Cryo-EM SPA Workflow Records” contains all outputs of all processing steps involved in cryogenic electron microscopy (cryo-EM) single particle analysis (SPA), including both intermediate and final output data. The primary focus will be on data generated by RELION and CryoSPARC, two widely used software packages for :Cryo-EM SPA. These records will be archived systematically. To ensure the data remains reproducible while minimizing storage demands, large-sized files that can be regenerated will be excluded prior to registration. The aim is to retain only the essential metadata, processing parameters, and representative outputs that allow for full reconstruction of the analysis pipeline. This approach balances the need for long-term data preservation with practical considerations for storage capacity. Through this effort, we seek to enhance transparency and reproducibility in cryo-EM research by providing a structured and accessible record of the analysis process. Importantly, [...]