The repostiory contains materials to support the online version of a biosecurity sequence screening training course for bioengineers, which was partially funded by BioMADE and developed by Signature Science, Aclid, and the Treangen Lab at Rice University. The views and conclusions contained herein are those of the authors and should not be interpreted as endorsements by the U.S. Government.
Course participants are encouraged to work through the following online course materials at their own pace:
-
Video Lecture #1: Course Introduction by Dr. Krista Ternus, Signature Science
- Please fill out the pre-course survey before beginning the course.
-
Video Lecture #2: Relevance of Sequence Screening to the BioMADE Community by Dr. Beth Vitalis, 4S Director at BioMADE
- More information about BioMADE is available on their website.
-
Video Lecture #3: Screening Framework Guidance by Dr. Matthew Sharkey of the U.S. Department of Health and Human Services (HHS) Administration for Strategic Preparedness and Response (ASPR)
- Updated Reference Document (October 2023): Screening Framework Guidance for Providers and Users of Synthetic Nucleic Acids
-
Video Lecture #4: DNA Screening Basics by Mr. Kevin Flyangolts, Founder of Aclid
- Video Lecture #4a: DNA Screening Concepts
- Video Lecture #4b: Effects of Sensitivity and Specificity on False Positives and Negatives
- Video Lecture #4c: False Positives
- Video Lecture #4d: False Negatives
-
Video Lecture #5: Alignment to Biothreats by Dr. Krista Ternus, Signature Science
- Video Lecture #5a: Alignment to Biothreats - Presentation
- Video Lecture #5b: Alignment to Biothreats - SeqScreen "SeqMapper Workflow" Results
-
Video Lecture #6: What Are “Bad” Sequences? by Dr. Gene Godbold, Signature Science
-
Video Lecture #7: SeqScreen Software Overview by Dr. Todd Treangen, Rice University
-
Video Lecture #8: Known Test Sequences by Dr. Krista Ternus, Signature Science
-
Video Lecture #9: Case Studies by Dr. Krista Ternus, Signature Science
- Case Study #1: Chimeric sequence
- Case Study #2: Cloning vector
- Case Study #3: iGEM standard biological parts
- Case Study #4: Bioprospecting
- Please download the fasta file from this location (too large for GitHub): https://osf.io/v24fr
- Case Study #5: GFP cassette sequences
-
Video Lecture #10: Future Directions by Dr. Beth Vitalis, 4S Director at BioMADE
-
Video Lecture #11: Course Conclusion by Dr. Krista Ternus, Signature Science
- Please fill out the post-course survey after completing the course. Thank you!
Please email Dr. Krista Ternus with any questions or concerns: [email protected]