Darach Miller

High-throughput DNA engineering by mating bacteria

This paper introduces SCRIVENER, a bacterial mating-based DNA assembly platform that enables high-throughput, low-error DNA construction of up to 23 kb constructs.

Pooled PPIseq: screening the SARS-CoV-2 and human interface with a scalable multiplexed protein-protein interaction assay platform

This paper introduces a scalable PPI screening method to identify interactions between SARS-CoV-2 and human proteins, identifying 74 putative interactions.

Genome-scale analysis of interactions between genetic perturbations and natural variation

The paper identifies gene-perturbation interactions across genetic backgrounds in yeast using CRISPRi and combinatorial DNA barcode sequencing, revealing 460 genes with variable effects and 234 interacting loci.

Arrayed in vivo barcoding for multiplexed sequence verification of plasmid DNA and demultiplexing of pooled libraries

This paper introduces an in vivo plasmid barcoding method for high-throughput sequence verification and demultiplexing of pooled libraries, demonstrating high accuracy and cost-effectiveness.

A large accessory protein interactome is rewired across environments

The paper quantifies PPI abundance across 9 yeast growth conditions, revealing a 3-fold increase in PPIs and identifying dynamic rewiring in accessory modules.

Global analysis of gene expression dynamics identifies factors required for accelerated mRNA degradation

The paper identifies factors involved in accelerated mRNA degradation in yeast during a nitrogen upshift by combining genetic screening and molecular analysis.

Growth Rate-Dependent Global Amplification of Gene Expression

The paper measures absolute transcript abundances in yeast under different growth rates and finds that growth rate increases mRNA abundance across the transcriptome.