Author

Archa H. Fox

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Aug 2026

TagGen: High-Performance Barcode Generator and Demultiplexer for High-Throughput and Long-Read Sequencing Applications

Background Long-read sequencing platforms, particularly Oxford Nanopore Technologies (ONT), have transformed transcriptomics through direct RNA sequencing. However, their higher error rates – dominated by insertions and deletions – demand longer, more robust sequence barcodes. Existing barcode generation tools suffer...

F. Chowdhury, Tessa Swain, Roderik Shirokikh et al. · F1000Research · 0 citations

Open access Sep 2026

Make it so: Rapid and affordable plasmid sequencing on ONT platforms with PICARD-seq

Plasmid construction underpins molecular biology and synthetic biology, yet validation is often limited to the inserted fragment rather than the whole plasmid, and around a third of laboratory-made plasmids carry sequence errors that can affect function. Sanger sequencing scales poorly across whole plasmids, while shor...

Rebecca Wolters, J. Debler, Gabriella Go et al. · bioRxiv · 0 citations

#protein folding Preprint Sep 2026

Pathways of early evolution from the perspectives of a riboreplisome -- the ultimate RNA machine of life

It is proposed that early replication and protein biosynthesis were inseparable functions performed by a single ancient RNA molecule: the riboreplisome, and this hypothesis addresses fundamental challenges facing RNA world, protein world, and RNA-protein co-evolution theories.

Alice Cleynen, Archa H. Fox, Nikolay E. Shirokikh · 0 citations