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List of works by Neil Swainston

A 'rule of 0.5' for the metabolite-likeness of approved pharmaceutical drugs

scientific article published on 19 September 2014

A Metabolic Reaction Balancing Web Service for Computational Systems Biology

A QconCAT informatics pipeline for the analysis, visualization and sharing of absolute quantitative proteomics data.

scientific article

A community effort towards a knowledge-base and mathematical model of the human pathogen Salmonella Typhimurium LT2

scientific article

A community-driven global reconstruction of human metabolism. ⬇️

scientific article

A consensus yeast metabolic network reconstruction obtained from a community approach to systems biology

scientific article

A model of yeast glycolysis based on a consistent kinetic characterisation of all its enzymes

scientific article published on 04 July 2013

A repository for quality-assured data on enzyme activity

scientific article published in Nature

An analysis of a 'community-driven' reconstruction of the human metabolic network

scientific article

An automated Design-Build-Test-Learn pipeline for enhanced microbial production of fine chemicals

scientific article published on 08 June 2018

An automated pipeline for the screening of diverse monoterpene synthase libraries

An informatic pipeline for the data capture and submission of quantitative proteomic data using iTRAQ

scientific article (publication date: February 2007)

Bioinformatics for the synthetic biology of natural products: integrating across the Design-Build-Test cycle

scientific article published on 17 May 2016

Capture and analysis of quantitative proteomic data

scientific article

ChEBI in 2016: Improved services and an expanding collection of metabolites

scientific article (publication date: 4 January 2016)

CodonGenie: optimised ambiguous codon design tools

article by Neil Swainston et al published 10 July 2017 in PeerJ Computer Science

CodonGenie: optimised ambiguous codon design tools

scholarly article published 9 February 2017

CodonGenie: optimised ambiguous codon design tools

scholarly article published 9 February 2017

Engineering the "Missing Link" in Biosynthetic (-)-Menthol Production: Bacterial Isopulegone Isomerase.

scientific article

Enzyme kinetics informatics: from instrument to browser

scientific article

Fast and Flexible Synthesis of Combinatorial Libraries for Directed Evolution

Further developments towards a genome-scale metabolic model of yeast

scientific article (publication date: 28 October 2010)

GeneGenie: optimized oligomer design for directed evolution

scientific article

GeneORator: An Effective Strategy for Navigating Protein Sequence Space More Efficiently through Boolean OR-Type DNA Libraries

scientific article published on 07 June 2019

Growth control of the eukaryote cell: a systems biology study in yeast ⬇️

scientific article (publication date: 2007)

Highly multiplexed, fast and accurate nanopore sequencing for verification of synthetic DNA constructs and sequence libraries

scientific article published on 29 October 2019

Identifiers for the 21st century: How to design, provision, and reuse persistent identifiers to maximize utility and impact of life science data

scientific article (publication date: 20 March 2017)

Identifiers for the 21st century: How to design, provision, and reuse persistent identifiers to maximize utility and impact of life science data

scientific article

Improving metabolic flux predictions using absolute gene expression data

scientific article

Information management for high content live cell imaging

scientific article

Integration of metabolic databases for the reconstruction of genome-scale metabolic networks

scientific article

Integrative Information Management for Systems Biology

article

Machine Learning of Designed Translational Control Allows Predictive Pathway Optimization in Escherichia coli

scientific article published on 07 January 2019

Membrane transporter engineering in industrial biotechnology and whole cell biocatalysis

scientific article

Model-driven user interfaces for bioinformatics data resources: regenerating the wheel as an alternative to reinventing it

scientific article

PartsGenie: an integrated tool for optimising and sharing synthetic biology parts

scholarly article published 15 September 2017

PartsGenie: an integrated tool for optimizing and sharing synthetic biology parts

scholarly article by Neil Swainston published in February 2018

Path2Models: large-scale generation of computational models from biochemical pathway maps

scientific article

Rationalizing Context-Dependent Performance of Dynamic RNA Regulatory Devices

RobOKoD: microbial strain design for (over)production of target compounds

scientific article

SBML Level 3 Package Proposal: Annotation

SBML Level 3: an extensible format for the exchange and reuse of biological models

scientific article published on 01 August 2020

SBOL Visual: A Graphical Language for Genetic Designs

scientific article published on 3 December 2015

STRENDA DB: enabling the validation and sharing of enzyme kinetics data

scholarly article by Neil Swainston published in June 2018

SYNBIOCHEM-a SynBio foundry for the biosynthesis and sustainable production of fine and speciality chemicals

scientific article

Selenzyme: Enzyme selection tool for pathway design

scientific article published on 7 February 2018

Selenzyme: Enzyme selection tool for pathway design

SpeedyGenes: Exploiting an Improved Gene Synthesis Method for the Efficient Production of Synthetic Protein Libraries for Directed Evolution

scientific article

SpeedyGenes: an improved gene synthesis method for the efficient production of error-corrected, synthetic protein libraries for directed evolution

scientific article

Sustainable model building the role of standards and biological semantics

scientific article published on January 2011

Synthetic biology for the directed evolution of protein biocatalysts: navigating sequence space intelligently

scientific article

Systematic integration of experimental data and models in systems biology ⬇️

scientific article (publication date: 29 November 2010)

The SuBliMinaL Toolbox: automating steps in the reconstruction of metabolic networks

scientific article

Towards a genome-scale kinetic model of cellular metabolism

scientific article

VAE-Sim: A Novel Molecular Similarity Measure Based on a Variational Autoencoder

scientific article published on 29 July 2020

biochem4j: Integrated and extensible biochemical knowledge through graph databases.

scientific article published on 14 July 2017

libAnnotationSBML: a library for exploiting SBML annotations

scientific article

libChEBI: an API for accessing the ChEBI database

scientific article (publication date: March 2016)

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