H. Shim

NAD: Noise-augmented direct sequencing of target nucleic acids by augmenting with noise and selective sampling

This paper introduces NAD sequencing, a method that enhances direct sequencing of low-input DNA by adding noise DNA and using adaptive sampling, achieving high accuracy in genome assembly.

Sequencing, fast and slow: profiling microbiomes in human samples with nanopore sequencing

This study uses nanopore sequencing to rapidly and accurately profile human microbiomes in saliva and stool samples, revealing insights into microbiome composition and host-microbe interactions.

Topology of gene regulatory compartments relative to the nuclear matrix

The paper visualizes the nuclear matrix and intranuclear compartments using super-resolution microscopy, revealing their layered distribution and role in transcriptional regulation.

Genomics-informed insights into microbial degradation of N,N-dimethylformamide

This study identifies genomic diversity and degradation pathways for N,N-dimethylformamide (DMF) by analyzing 20,762 genomes, revealing plasmid-mediated degradation and anaerobic potential for methane production.

Diverse ATPase proteins in mobilomes constitute a large potential sink for prokaryotic host ATP

The paper identifies ATPase proteins in mobilome genomes as potential energy sinks that may suppress host energy consumption during replication.

Mechanistic insights into the success of xenobiotic degraders resolved from metagenomes of microbial enrichment cultures

The paper analyzes metagenomic data from microbial communities to identify strategies underlying xenobiotic degradation and their ecological interactions.

A scalable method for identifying recombinants from unaligned sequences

This paper introduces a scalable method to identify recombinant sequences from unaligned data, demonstrating its effectiveness on malaria parasite var genes.

Targeting the PI5P4K lipid kinase family in cancer using novel covalent inhibitors

This study identifies THZ-P1-2, a covalent pan-PI5P4K inhibitor, showing efficacy in AML/ALL cell lines and autophagy disruption, supporting PI5P4Ks as therapeutic targets in cancer.