Yee Hwee Lim

Unified Genomic and Chemical Representations Enable Bidirectional Bio-synthetic Gene Cluster and Natural Product Retrieval

This paper introduces a multimodal framework that links biosynthetic gene clusters and natural products by integrating genomic and chemical data through shared embeddings, enabling bidirectional retrieval and strain selection.

Accelerating Natural Product Discovery with Linked MS-Genomics and Language/Transformer-Based Models

The paper integrates mass spectrometry and genomics data with language models to accelerate natural product discovery in microbial strains.

Genomic Insights into Enhanced Medium-Chain Fatty Acid Production in Megasphaera elsdenii

This paper compares two Megasphaera elsdenii strains, finding that JCM 35779 produces 5.8 times more hexanoic acid than JCM 1772 due to genomic differences affecting carbon flux.

A Singapore-centric Fungal Dataset of 518 Cultivated Strains with Visual Phenotypes and Taxonomic Identity

The paper creates a fungal dataset of 518 strains from Singapore with taxonomic and visual phenotype data to aid in fungal classification and biodiversity studies.

Hyperporous encapsulation of microbes for whole cell biocatalysis and biomanufacturing

This paper develops a hyper-porous hydrogel encapsulation method for microbial cells, demonstrating improved biocatalytic efficiency in co-culture fermentation.

An Experimental and Multiphysics Simulations Study of Clostridium carboxidivorans sp. 624 for Acid and Alcohol Production in CO2/H2

This study optimizes CO2/H2 fermentation by Clostridium carboxidivorans sp. 624 using experimental and computational methods to enhance acid production.

Production of Glycolic acid through Whole-Cell Bioconversion from PET Monomer Ethylene Glycol Using Engineered Corynebacterium glutamicum

This paper engineers Corynebacterium glutamicum to produce glycolic acid from ethylene glycol, achieving high titers through promoter engineering and a two-stage biotransformation strategy.

Cost-effective hybrid long-short read assembly delineates alternative GC-rich Streptomyces chassis for natural product discovery

This paper presents a cost-effective hybrid sequencing approach for assembling GC-rich Streptomyces genomes, enabling accurate biosynthetic gene cluster identification and revealing a new species.

Characterization of Cas proteins for CRISPR-Cas editing in streptomycetes

The paper evaluates alternative CRISPR-Cas systems for genome editing in streptomycetes, showing that sth1Cas9, saCas9, and fnCpf1 enable efficient genomic modifications where SpCas9 fails.