List of works by Anil Wipat

A Computational Workflow for the Automated Generation of Models of Genetic Designs

scientific article published on 05 June 2018

A Genetic Circuit Compiler: Generating Combinatorial Genetic Circuits with Web Semantics and Inference

scientific article published on 20 November 2018

A Transcriptional Signature of Fatigue Derived from Patients with Primary Sjögren's Syndrome

scientific article published on 22 December 2015

A Visual Language for Protein Design.

scientific article published on 7 February 2017

A distributed computational search strategy for the identification of diagnostics targets: application to finding aptamer targets for methicillin-resistant staphylococci

scientific article published on 30 June 2014

A genome wide analysis of the response to uncapped telomeres in budding yeast reveals a novel role for the NAD+ biosynthetic gene BNA2 in chromosome end protection ⬇️

scientific article published on October 2008

A genomewide suppressor and enhancer analysis of cdc13-1 reveals varied cellular processes influencing telomere capping in Saccharomyces cerevisiae.

scientific article published on 9 October 2008

A novel extracellular metallopeptidase domain shared by animal host-associated mutualistic and pathogenic microbes

scientific article

A standard-enabled workflow for synthetic biology

scientific article published on June 2017

An Integrated Data Driven Approach to Drug Repositioning Using Gene-Disease Associations

scientific article

An integrated dataset for in silico drug discovery

scientific article

An internal FK506-binding domain is the catalytic core of the prolyl isomerase activity associated with the Bacillus subtilis trigger factor

scientific article published in February 1997

Annotation of SBML models through rule-based semantic integration

scientific article

Annotation of rule-based models with formal semantics to enable creation, analysis, reuse and visualization

scientific article

Automatic extraction of microorganisms and their habitats from free text using text mining workflows

scientific article published on 10 October 2011

BacillOndex: an integrated data resource for systems and synthetic biology

scientific article

BacilloFlex: A modular DNA assembly toolkit for Bacillus subtilis synthetic biology

article

BacillusRegNet: a transcriptional regulation database and analysis platform for Bacillus species

scientific article published on 8 July 2014

Bayesian integration of networks without gold standards

scientific article published on 6 April 2012

Bioinformatics in aging research: a workshop report.

scientific article published in December 2010

CSBB: synthetic biology research at Newcastle University

scientific article published on June 2017

Cellular senescence: unravelling complexity

scientific article published on December 2009

Communicating Structure and Function in Synthetic Biology Diagrams

scientific article published on 05 August 2019

Comparison of sulfide-oxidizing Sulfurimonas strains reveals a new mode of thiosulfate formation in subsurface environments

scientific article published on 15 December 2019

Customizable views on semantically integrated networks for systems biology.

scientific article published on 16 March 2011

Data Integration and Mining for Synthetic Biology Design

scientific article

Data Resource Profile: Accessible Resource for Integrated Epigenomic Studies (ARIES).

scientific article published on 19 May 2015

Data mining the human gut microbiota for therapeutic targets

scientific article

Design and modelling of an engineered bacteria-based, pressure-sensitive soil.

scientific article published on 13 April 2018

Essential Bacillus subtilis genes

scientific article

Evolutionary computation for the design of a stochastic switch for synthetic genetic circuits.

scientific article published in January 2010

Exploring Microbial Genome Sequences to Identify Protein Families on the Grid

scientific article published on 01 July 2007

Feedback between p21 and reactive oxygen production is necessary for cell senescence

scientific article

From genome to function: systematic analysis of the soil bacterium bacillus subtilis

scientific article

Genome-wide analysis to identify pathways affecting telomere-initiated senescence in budding yeast.

scientific article published on August 2011

Genome-wide transcriptional analysis of the phosphate starvation stimulon of Bacillus subtilis

scientific article

Guidelines for reporting the use of gel electrophoresis in proteomics.

scientific article

Harmonizing semantic annotations for computational models in biology

Harmonizing semantic annotations for computational models in biology

scientific article published on 01 March 2019

Heterogeneity in Pure Microbial Systems: Experimental Measurements and Modeling

scientific article published on 20 September 2017

Human Tra2 proteins jointly control a CHEK1 splicing switch among alternative and constitutive target exons

scientific article published on 11 September 2014

Impact of age-related mitochondrial dysfunction and exercise on intestinal microbiota composition

scientific article

Keratinocyte apoptosis in epidermal remodeling and clearance of psoriasis induced by UV radiation.

scientific article

Microbase2.0: a generic framework for computationally intensive bioinformatics workflows in the cloud

scientific article published on 24 September 2012

Mild hydrostatic pressure triggers oxidative responses in Escherichia coli

scientific article published in PLoS ONE

Mining integrated semantic networks for drug repositioning opportunities

scientific article published on 19 January 2016

Mining integrated semantic networks for drug repositioning opportunities

Model annotation for synthetic biology: automating model to nucleotide sequence conversion

scientific article

Modeling and managing experimental data using FuGE.

scientific article

Modelling the fitness landscapes of a SCRaMbLEd yeast genome

scientific article published in 2022

Monoclonal antibodies for Streptomyces lividans and their use for immunomagnetic capture of spores from soil.

scientific article published on August 1994

NOX5-induced uncoupling of endothelial NO synthase is a causal mechanism and theragnostic target of an age-related hypertension endotype

scientific article published on 10 November 2020

Network approaches to the functional analysis of microbial proteins

scientific article published on January 2011

Ontology for genome comparison and genomic rearrangements

scientific article published on January 2004

Phosphate starvation induces the sporulation killing factor of Bacillus subtilis

scientific article published on July 2006

Post-transcriptional regulation of the Bacillus subtilis pst operon encoding a phosphate-specific ABC transporter

scientific article

Probabilistic latent semantic analysis applied to whole bacterial genomes identifies common genomic features

scientific article published on 30 June 2014

Proposed data model for the next version of the synthetic biology open language

scientific article

Proteomic analysis of Bacillus subtilis strains engineered for improved production of heterologous proteins

scientific article published on 27 October 2013

Qualitatively modelling and analysing genetic regulatory networks: a Petri net approach

scientific article published on 22 November 2006

Quantitative fitness analysis shows that NMD proteins and many other protein complexes suppress or enhance distinct telomere cap defects.

scientific article

Regulating, Measuring, and Modeling the Viscoelasticity of Bacterial Biofilms

scientific article published on 22 August 2019

SARGE: a tool for creation of putative genetic networks.

scientific article published on 9 July 2004

SBOL Visual 2 Ontology

scientific article published on 08 April 2020

SBOL Visual: A Graphical Language for Genetic Designs

scientific article published on 3 December 2015

SBOL on the Web: Bringing the Synthetic Biology Open Language to the Web browser

scientific article published on 08 January 2019

SBOL-OWL: An Ontological Approach for Formal and Semantic Representation of Synthetic Biology Information

scientific article published on 14 May 2019

SBOLDesigner 2: An Intuitive Tool for Structural Genetic Design.

scientific article published on 25 April 2017

Saint: a lightweight integration environment for model annotation

scientific article

Sequence and transcriptional analysis of clpX, a class-III heat-shock gene of Bacillus subtilis

scientific article published in November 1996

Sequencing and functional analysis of the genome of Bacillus subtilis strain 168.

scientific article published on June 1996

Sharing Structure and Function in Biological Design with SBOL 2.0.

scientific article published on 25 April 2016

ShortBOL: A Language for Scripting Designs for Engineered Biological Systems Using Synthetic Biology Open Language (SBOL)

scientific article published on 23 March 2020

Species-Specific Detection of C. difficile Using Targeted Antibody Design

scientific article published on 31 October 2018

Standard virtual biological parts: a repository of modular modeling components for synthetic biology

scientific article

Streptomyces marker plasmids for monitoring survival and spread of streptomycetes in soil ⬇️

scientific article published on November 1, 1991

Structure-function studies of an engineered scaffold protein derived from Stefin A. II: Development and applications of the SQT variant

scientific article

SynBioHub: A Standards-Enabled Design Repository for Synthetic Biology

scientific article published on 9 January 2018

Synthetic Biology Open Language (SBOL) Version 2.0.0.

scientific article published on 04 September 2015

Synthetic Biology Open Language (SBOL) Version 2.1.0.

scientific article published on 18 December 2016

Synthetic Biology Open Language (SBOL) Version 2.2.0.

scientific article published on 2 April 2018

Synthetic Biology Open Language (SBOL) Version 2.3.

scientific article published on 13 June 2019

Synthetic Biology Open Language Visual (SBOL Visual) Version 2.0.

scientific article published on 17 March 2018

Synthetic Biology Open Language Visual (SBOL Visual) Version 2.1.

scientific article published on 13 June 2019

Synthetic biology open language (SBOL) version 3.0.0.

scientific article published on 25 June 2020

Synthetic biology open language visual (SBOL visual) version 2.2.

scientific article published on 10 June 2020

Taverna: a tool for the composition and enactment of bioinformatics workflows

scientific article

The SBOL Stack: A Platform for Storing, Publishing, and Sharing Synthetic Biology Designs

scientific article

The Synthetic Biology Open Language (SBOL) provides a community standard for communicating designs in synthetic biology.

scientific article

The complete genome sequence of the gram-positive bacterium Bacillus subtilis

scientific article

The dnaB-pheA (256 degrees-240 degrees) region of the Bacillus subtilis chromosome containing genes responsible for stress responses, the utilization of plant cell walls and primary metabolism.

scientific article

The extracellular and cytoplasmic proteomes of the non-virulent Bacillus anthracis strain UM23C1-2.

scientific article

The gel electrophoresis markup language (GelML) from the Proteomics Standards Initiative

scientific article (publication date: September 2010)

The minimum information about a genome sequence (MIGS) specification

scientific article

The quantification of antibody elements and receptors subunit expression using qPCR: The design of VH, VL, CH, CL, FcR subunits primers for a more holistic view of the immune system

scientific article published on 01 November 2019

VisBOL: Web-Based Tools for Synthetic Biology Design Visualization

scientific article published on 25 January 2016

e-Science: relieving bottlenecks in large-scale genome analyses

scientific article published on December 2008

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