Automated Design of Oligopools and Rapid Analysis of Massively Parallel Barcoded Measurements
Ayaan Hossain, Daniel P Cetnar, Travis L LaFleur, James R McLellan, Howard M Salis · 2024
Read Automated Design of Oligopools and Rapid Analysis of Massively Parallel Barcoded Measurements by Ayaan Hossain, Daniel P Cetnar, Travis L LaFleur, James R McLellan, Howard M Salis (2024) in the Tower of Babel, a free online library of public-domain works preserved in clean, searchable text. No sign-up. The full text is served as a plain-text file at a predictable URL, where text is present: https://antarctic-labs.com/tower-of-babel/pmc-11669329.txt.
Description
Hossain and co-authors present the Oligopool Calculator for large genetic library work. Oligopools let labs build and test huge part libraries at once. Design of primers, barcodes, and overlaps gets hard at scale. Their suite designs many thousands of oligos end to end. It also parses billions of barcoded reads fast.
New tricks include symmetric barcode design and adaptive primer trees. The tool designed over four million barcodes in 1.2 hours. Primer sites for one million oligos took fifteen minutes. Read analysis ran near 500 million reads per hour. All tests ran on an eight-core desktop machine.
Catalog record
| CREATOR | Ayaan Hossain, Daniel P Cetnar, Travis L LaFleur, James R McLellan, Howard M Salis |
|---|---|
| YEAR | 2024 |
| COLLECTION | PAPERS |
| FORMAT | TXT |
| FILE SIZE | 73 KB |
| VERSION | 1.0 |
| LICENSE | CC BY 4.0 |
| RIGHTS | CC BY |
| SOURCE | Europe PMC |