preclinical-research

Automated cyst segmentation and counting pipeline for polycystic kidney disease µCT scans, using nnUNet and distance-transform peak detection with genetic algorithm parameter optimization.

This repository houses the analysis codes from the Bayesian preclinical tutorial paper led by the DIA/ASA-BIOP Nonclinical Bayesian Working Group members.

Reproduces the results of "Cecal microbiome transplantation without antibiotic preconditioning standardizes murine microbiomes"

Deep learning pipeline for automated semantic segmentation and endotheliosis quantification in glomeruli histology images using transfer learning from mitochondria electron microscopy images

BenchSci — independent third-party profile of a public API surface, by API Evangelist. BenchSci is an AI-powered biopharma R&D platform offering EMET, an integrated biology workbench for autonomous preclinical drug discovery. The platform provides access to 85M+ reagent and model system records (including 16M antibodies, 22M RNAi entries, and 18M C

A 3D printable design for Bruker preclinical MRI using the 2x2 mouse or rat surface array coil for any abdominal imaging instead of brain.

pose-estimation for pre-clinical drug validation

A modification on a published 3D printing design for mouse or rat brain MRI imaging.

Miscellaneous 3D printing designs related to preclinical imaging.

A 3D printable design to scan on the Inveon PET/CT with 4 mice simultaneously, dynamically.

Vium — independent third-party profile of a public API surface, by API Evangelist. Vium was a preclinical biotechnology company that operated a "digital vivarium" — a cloud-connected laboratory platform that continuously monitored laboratory animals with sensors and computer vision to generate high-resolution physiological and behavioral data for p

Data Sciences International — independent third-party profile of a public API surface, by API Evangelist. Data Sciences International (DSI) is a preclinical research instrumentation and services company for in vivo physiology and translational research, operating as part of Harvard Bioscience.

Emulate — independent third-party profile of a public API surface, by API Evangelist. Emulate, Inc. is a Boston, Massachusetts biotechnology company, spun out of Harvard's Wyss Institute in 2014, that commercialized Organ-on-a-Chip technology for human-relevant preclinical research.