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Evolution made easy

Directed evolution is a powerful tool for the development of improved enzyme catalysts. Now, a method that enables an enzyme, its encoding DNA and a fluorescent reaction product to be encapsulated in a gel bead enables the application of directed evolution in an ultra-high-throughput format.

Eugene J. H. Wee
Matt Trau
News & Views21 Aug 2014
Nature Chemistry

Volume: 6, P: 756-757
Post-acute sequelae of SARS-CoV-2 cardiovascular symptoms are associated with trace-level cytokines that affect cardiomyocyte function

Sinclair et al. explore the contribution of chronic inflammation to cardiovascular symptoms associated with post-acute sequelae of SARS-CoV-2 infection (PASC-CVS). The authors identify trace levels of inflammatory cytokines in individuals with PASC-CVS that impair the function of cardiomyocytes derived from induced pluripotent stem cells.

Jane E. Sinclair
Courtney Vedelago
Kirsty R. Short
ResearchOpen Access30 Oct 2024
Nature Microbiology

Volume: 9, P: 3135-3147
A universal reagent for detection of emerging diseases using bioengineered multifunctional yeast nanofragments

Yeast cells are engineered to prepare multifunctional synthetic biofragments as nanoprobes, which allow multivalent interactions and optimal molecular orientation on material surfaces for the detection of emerging biomarkers in a range of sensor platforms.

Junrong Li
Christopher B. Howard
Matt Trau
Research08 Jun 2023
Nature Nanotechnology

Volume: 18, P: 1222-1229
A digital single-molecule nanopillar SERS platform for predicting and monitoring immune toxicities in immunotherapy

There is a clinical need to monitor immune-related toxicities of immune checkpoint blockade therapy. Here, the authors develop a digital SERS platform for multiplexed single cytokine counting to track immune-toxicities and demonstrate the ability to use pre-screening to identify patients at higher risk.

Junrong Li
Alain Wuethrich
Matt Trau
ResearchOpen Access17 Feb 2021
Nature Communications

Volume: 12, P: 1-12
Epigenetically reprogrammed methylation landscape drives the DNA self-assembly and serves as a universal cancer biomarker

DNA methylation is an epigenetic modification that control genetic programs. Here, the authors found that the methylation landscape influences the physicochemical properties of DNA and that it can serve as a universal cancer biomarker, and developed a one-step assay for the detection of cancer DNA.

Abu Ali Ibn Sina
Laura G. Carrascosa
Matt Trau
ResearchOpen Access04 Dec 2018
Nature Communications

Volume: 9, P: 1-13
Characterising the phenotypic evolution of circulating tumour cells during treatment

Monitoring the heterogeneity of circulating tumour cells (CTCs) and their phenotypic changes during treatment is a challenge. This study describes and tests a method for detection and quantitative heterogeneity analysis of melanoma CTCs in 10 stage-IV melanoma patients.

Simon Chang-Hao Tsao
Jing Wang
Matt Trau
ResearchOpen Access16 Apr 2018
Nature Communications

Volume: 9, P: 1-10
An in vivo gene amplification system for high level expression in Saccharomyces cerevisiae

Gene dosage-based expression upregulation suffers from instability and random gene integration. Here, the authors report HapAmp, a method that uses haploinsufficiency as evolutionary force to drive in vivo gene amplification, and demonstrate its applications in protein and biochemical production in yeast.

Bingyin Peng
Lygie Esquirol
Claudia E. Vickers
ResearchOpen Access24 May 2022
Nature Communications

Volume: 13, P: 1-12
DNA methylation of oestrogen-regulated enhancers defines endocrine sensitivity in breast cancer

The molecular factors influencing patient response to endocrine therapy are poorly understood. Here Stone et al.characterize the DNA methylome of endocrine response and show that methylation of oestrogen receptor-associated enhancers underpins endocrine sensitivity in human breast cancer.

Andrew Stone
Elena Zotenko
Susan J. Clark
ResearchOpen Access14 Jul 2015
Nature Communications

Volume: 6, P: 1-9
Rapid DNA detection of Mycobacterium tuberculosis-towards single cell sensitivity in point-of-care diagnosis

Benjamin Y.C. Ng
Eugene J.H. Wee
Matt Trau
ResearchOpen Access13 Oct 2015
Scientific Reports

Volume: 5, P: 1-7
Specific and Sensitive Isothermal Electrochemical Biosensor for Plant Pathogen DNA Detection with Colloidal Gold Nanoparticles as Probes

Han Yih Lau
Haoqi Wu
Jose R. Botella
ResearchOpen Access17 Jan 2017
Scientific Reports

Volume: 7, P: 1-7
Molecular Nanoshearing: An Innovative Approach to Shear off Molecules with AC-Induced Nanoscopic Fluid Flow

Muhammad J. A. Shiddiky
Ramanathan Vaidyanathan
Matt Trau
ResearchOpen Access16 Jan 2014
Scientific Reports

Volume: 4, P: 1-7
A simple, rapid, low-cost technique for naked-eye detection of urine-isolated TMPRSS2:ERG gene fusion RNA

Kevin M. Koo
Eugene J. H. Wee
Matt Trau
ResearchOpen Access29 Jul 2016
Scientific Reports

Volume: 6, P: 1-6
A simple bridging flocculation assay for rapid, sensitive and stringent detection of gene specific DNA methylation

Eugene J. H. Wee
Thu Ha Ngo
Matt Trau
ResearchOpen Access13 Oct 2015
Scientific Reports

Volume: 5, P: 1-7
Comprehensive evaluation of molecular enhancers of the isothermal exponential amplification reaction

Ellie Mok
Eugene Wee
Matt Trau
ResearchOpen Access02 Dec 2016
Scientific Reports

Volume: 6, P: 1-10
Methylome sequencing in triple-negative breast cancer reveals distinct methylation clusters with prognostic value

Triple-negative breast cancers (TNBCs) are a heterogeneous group of cancers with varying prognoses. Here, the authors carry out whole-genome methylation capture sequencing from TNBC samples and matched normal samples, and identify differentially methylated regions that define a potentially novel TNBC signature.

Clare Stirzaker
Elena Zotenko
Susan J. Clark
Research02 Feb 2015
Nature Communications

Volume: 6, P: 1-11
Rapid DNA detection by beacon-assisted detection amplification

Ashley R Connolly
Matt Trau
Protocols12 May 2011
Nature Protocols

Volume: 6, P: 772-778
Merging new-age biomarkers and nanodiagnostics for precision prostate cancer management

In this Review, the authors discuss biomarker-driven prostate cancer molecular subtyping and the development of nanodiagnostic strategies to refine biomarker detection. They also describe the challenges of merging both aspects for precision prostate cancer management.

Kevin M. Koo
Paul N. Mainwaring
Matt Trau
Reviews08 Apr 2019
Nature Reviews Urology

Volume: 16, P: 302-317
Modelling clinical DNA fragmentation in the development of universal PCR-based assays for bisulfite-converted, formalin-fixed and cell-free DNA sample analysis

Andrew D. Johnston
Jennifer Lu
Matt Trau
ResearchOpen Access26 Sept 2022
Scientific Reports

Volume: 12, P: 1-18
PrimerROC: accurate condition-independent dimer prediction using ROC analysis

Andrew D. Johnston
Jennifer Lu
Matt Trau
ResearchOpen Access18 Jan 2019
Scientific Reports

Volume: 9, P: 1-14
Capture and On-chip analysis of Melanoma Cells Using Tunable Surface Shear forces

Simon Chang-Hao Tsao
Ramanathan Vaidyanathan
Matt Trau
ResearchOpen Access27 Jan 2016
Scientific Reports

Volume: 6, P: 1-10
PrimerSuite: A High-Throughput Web-Based Primer Design Program for Multiplex Bisulfite PCR

Jennifer Lu
Andrew Johnston
Matt Trau
ResearchOpen Access24 Jan 2017
Scientific Reports

Volume: 7, P: 1-12
Analysis of exosome purification methods using a model liposome system and tunable-resistive pulse sensing

Rebecca E. Lane
Darren Korbie
Matt Trau
ResearchOpen Access06 Jan 2015
Scientific Reports

Volume: 5, P: 1-7
Real time and label free profiling of clinically relevant exosomes

Abu Ali Ibn Sina
Ramanathan Vaidyanathan
Matt Trau
ResearchOpen Access28 Jul 2016
Scientific Reports

Volume: 6, P: 1-9
A Multiplexed Device Based on Tunable Nanoshearing for Specific Detection of Multiple Protein Biomarkers in Serum

Ramanathan Vaidyanathan
Lara Michelle van Leeuwen
Matt Trau
ResearchOpen Access15 May 2015
Scientific Reports

Volume: 5, P: 1-7
Evaluation of Different Oligonucleotide Base Substitutions at CpG Binding sites in Multiplex Bisulfite-PCR sequencing

Jennifer Lu
Kelin Ru
Matt Trau
ResearchOpen Access22 Mar 2017
Scientific Reports

Volume: 7, P: 1-10
Engineering eukaryote-like regulatory circuits to expand artificial control mechanisms for metabolic engineering in Saccharomyces cerevisiae

Eukaryotic trans-regulatory mechanisms are exploited to synthesize a stringent tetracycline-repressible circuit and a heat-inducible circuit for negative/positive metabolic controls using the GAL system in Saccharomyces cerevisiae.

Bingyin Peng
Naga Chandra Bandari
Claudia E. Vickers
ResearchOpen Access16 Feb 2022
Communications Biology

Volume: 5, P: 1-13
PARTICLE triplexes cluster in the tumor suppressor WWOX and may extend throughout the human genome

Valerie Bríd O’Leary
Jan Smida
Michael John Atkinson
ResearchOpen Access02 Aug 2017
Scientific Reports

Volume: 7, P: 1-13

Search

Evolution made easy

Post-acute sequelae of SARS-CoV-2 cardiovascular symptoms are associated with trace-level cytokines that affect cardiomyocyte function

A universal reagent for detection of emerging diseases using bioengineered multifunctional yeast nanofragments

A digital single-molecule nanopillar SERS platform for predicting and monitoring immune toxicities in immunotherapy

Epigenetically reprogrammed methylation landscape drives the DNA self-assembly and serves as a universal cancer biomarker

Characterising the phenotypic evolution of circulating tumour cells during treatment

An in vivo gene amplification system for high level expression in Saccharomyces cerevisiae

DNA methylation of oestrogen-regulated enhancers defines endocrine sensitivity in breast cancer

Rapid DNA detection of Mycobacterium tuberculosis-towards single cell sensitivity in point-of-care diagnosis

Specific and Sensitive Isothermal Electrochemical Biosensor for Plant Pathogen DNA Detection with Colloidal Gold Nanoparticles as Probes

Molecular Nanoshearing: An Innovative Approach to Shear off Molecules with AC-Induced Nanoscopic Fluid Flow

A simple, rapid, low-cost technique for naked-eye detection of urine-isolated TMPRSS2:ERG gene fusion RNA

A simple bridging flocculation assay for rapid, sensitive and stringent detection of gene specific DNA methylation

Comprehensive evaluation of molecular enhancers of the isothermal exponential amplification reaction

Methylome sequencing in triple-negative breast cancer reveals distinct methylation clusters with prognostic value

Rapid DNA detection by beacon-assisted detection amplification

Merging new-age biomarkers and nanodiagnostics for precision prostate cancer management

Modelling clinical DNA fragmentation in the development of universal PCR-based assays for bisulfite-converted, formalin-fixed and cell-free DNA sample analysis

PrimerROC: accurate condition-independent dimer prediction using ROC analysis

Capture and On-chip analysis of Melanoma Cells Using Tunable Surface Shear forces

PrimerSuite: A High-Throughput Web-Based Primer Design Program for Multiplex Bisulfite PCR

Analysis of exosome purification methods using a model liposome system and tunable-resistive pulse sensing

Real time and label free profiling of clinically relevant exosomes

A Multiplexed Device Based on Tunable Nanoshearing for Specific Detection of Multiple Protein Biomarkers in Serum

Evaluation of Different Oligonucleotide Base Substitutions at CpG Binding sites in Multiplex Bisulfite-PCR sequencing

Engineering eukaryote-like regulatory circuits to expand artificial control mechanisms for metabolic engineering in Saccharomyces cerevisiae

PARTICLE triplexes cluster in the tumor suppressor WWOX and may extend throughout the human genome

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