Single Molecule Sequencing: Predicting Reads Aligned to the RNA Calibration Strand (RCS) скачать в хорошем качестве

Single Molecule Sequencing: Predicting Reads Aligned to the RNA Calibration Strand (RCS)

Instructors: Nicholas Bartelo Lecture Summary: In this lecture, Nicholas Bartelo, a student in Single Molecule Sequencing: Methods, Training, and Applications, presents his final class model developing a machine learning algorithm to specifically separate the RNA calibration strand in Nanopore signals from other signals. He demonstrates high accuracy regardless of hyperparameter tuning and discusses imputation strategies to handle 5' end truncation. Course Summary: Sequencing-based research has become the dominant investigative practice within the biological sciences. Single-molecule sequencing: training, methods, and applications, responds to this development by providing a hands-on and in-depth introduction to sequencing for students, from Sanger to third-generation technologies. Utilizing an alternating lecture-lab schedule, students are introduced to fundamental basic principles of DNA & RNA science, progressing to cutting-edge library preparation and sequencing analysis techniques with Illumina and Nanopore technologies. Students will have the opportunity to perform direct-RNA sequencing samples on research samples, and experience first-hand the ethical implications of this data. Relevant concepts in biology and computer science will be addressed. Relevant Papers: Depledge, D.P., Srinivas, K.P., Sadaoka, T. et al. Direct RNA sequencing on nanopore arrays redefines the transcriptional complexity of a viral pathogen. Nat Commun 10, 754 (2019). https://doi.org/10.1038/s41467-019-08... Maier, K.C.; Gressel, S.; Cramer, P.; Schwalb, B. Native Molecule Sequencing by Nano-ID Reveals Synthesis and Stability of RNA Isoforms. Genome Res. 2020, 30, 1332–1344, doi:10.1101/gr.257857.119. https://help.nanoporetech.com/en/arti... Course website: https://physiology.med.cornell.edu/fa... X:   / mason_lab