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Updated: Jun 18, 2026

High Throughput Yeast Strain Phenotyping with Droplet-Based RNA Sequencing
Published on: May 21, 2020
StrainCascade: An automated, modular workflow for high-throughput long-read bacterial genome reconstruction and
Sebastian B U Jordi1,2, Isabel Baertschi1,2, Jiaqi Li1,2
1Department of Visceral Surgery and Medicine, Bern University Hospital, University of Bern, 3010 Bern, Switzerland.
None:
Long-read sequencing offers unprecedented opportunities for high-resolution bacterial genome reconstruction, yet fragmented bioinformatics workflows hinder biological insights. StrainCascade addresses this gap by providing a fully automated, modular pipeline that integrates genome assembly, accurate annotation, and comprehensive functional profiling into a single, reproducible framework. By integrating deterministic execution strategies with a systematic resolution of strain-level structural and functional variability, StrainCascade provides high-resolution comparative genomics of strain diversity, host-microbe interactions, antimicrobial resistance, and mobile genetic element dynamics.
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