Jeff Nivala

This paper develops a computational strategy for analyzing nanopore ionic current signals from synthetic proteins, achieving high accuracy in charge-based classification of amino acids.

This study investigates gene-length DNA monolayers on gold electrodes for cell-free protein expression, showing tunable surface density and partial functional retention under certain conditions.

DNAS-Bench evaluates Biosecurity Screening Software by testing its ability to detect malicious sequences in synthetic DNA, finding that simple sequence manipulations can bypass many systems.

This paper demonstrates a method to sequence long protein strands with single-amino-acid sensitivity using nanopore sensors and ClpX unfoldase, enabling accurate protein barcode sequencing and analysis of folded protein domains.

This paper introduces a method to record transcriptional event timing in living genomes using CRISPR-integrated retron barcodes.

This study demonstrates how synthetic DNA can be added to saliva samples to manipulate genetic test results from DTC companies, enabling customized genetic profiles.

This paper introduces a new class of reporter proteins that can be directly detected using nanopore sensors for multiplexed, real-time gene expression tracking.

The paper demonstrates a single-molecule method to screen polymerase variants using nanopore sequencing and barcoding, enabling multiplexed analysis of kinetic properties.

Porcupine enables rapid, reliable, and lab-free molecular tagging of physical objects using nanopore-orthogonal DNA strands for custom labels.