Publications by Dr Jennifer Hallinan - ePrints

Browsing publications by Dr Jennifer Hallinan.

Newcastle Authors	Title	Year
Dr Goksel Misirli Professor Anil Wipat Dr Jennifer Hallinan	Modelling the fitness landscapes of a SCRaMbLEd yeast genome	2022
Dr Jennifer Hallinan Professor Anil Wipat Emeritus Professor Simon Woods Dr Kenneth Taylor Dr Angel Goni-Moreno et al.	Future-Proofing Synthetic Biology: Educating the Next Generation	2019
Dr Katherine James Dr Simon Cockell Dr Colin Gillespie Dr Jennifer Hallinan Dr Francesca Barone et al.	B-cell activity markers are associated with different disease activity domains in primary Sjögren's syndrome	2018
James Skelton Dr Jennifer Hallinan Sunny Park Professor Anil Wipat	Computational intelligence for metabolic pathway design: Application to the pentose phosphate pathway	2016
Dr Goksel Misirli Dr Jennifer Hallinan Dr Phillip Lord James Alastair McLaughlin McLaughlin Professor Anil Wipat et al.	Data Integration and Mining for Synthetic Biology Design	2016
Professor Anil Wipat Dr Jennifer Hallinan	Engineering bacterial populations for pattern formation	2016
Dr Curtis Madsen James Alastair McLaughlin McLaughlin Dr Goksel Misirli Dr Keith Flanagan Dr Jennifer Hallinan et al.	The SBOL Stack: A Platform for Storing, Publishing, and Sharing Synthetic Biology Designs	2016
Dr Katherine James Shereen Al-Ali Dr Jessica Tarn Dr Simon Cockell Dr Colin Gillespie et al.	A Transcriptional Signature of Fatigue Derived from Patients with Primary Sjögren’s Syndrome	2015
Shereen Al-Ali Dr Jessica Tarn Dr Simon Cockell Dr Colin Gillespie Professor John Isaacs et al.	Gene Set Enrichment Analysis Across Multiple Expression Studies Reveals a Core Subset of Primary Sjögren's Syndrome-Related Genes	2015
Professor Fai Ng Professor Anil Wipat Dr Jennifer Hallinan	Integrative Network-Based Analysis of the Primary Sjogren's Syndrome Transcriptome between Human and Mouse	2015
Professor Fai Ng Dr Jennifer Hallinan	Machine Learning of Fatigue-Related Clinical Features in Primary Sjogren's Syndrome	2015
Dr Keith Flanagan Dr Simon Cockell Professor Colin Harwood Dr Jennifer Hallinan Dr Sirintra Nakjang et al.	A distributed computational search strategy for the identification of diagnostics targets: Application to finding aptamer targets for methicillin-resistant staphylococci	2014
Dr Goksel Misirli Dr Jennifer Hallinan Professor Anil Wipat	BacillusRegnet: a transcriptional regulation database and analysis platform for Bacillus species	2014
Dr Goksel Misirli Dr Jennifer Hallinan Professor Anil Wipat	Composable modular models for synthetic biology	2014
Dr Goksel Misirli Dr Jennifer Hallinan Professor Anil Wipat	Composable Modular Models for Synthetic Biology	2014
Dr Katherine James Dr Jessica Tarn Shereen Al-Ali Dr Jennifer Hallinan Professor David Young et al.	Integration of Gene Expression Data with Interaction and Annotation Data Reveals Patterns of Connection Between Primary Sjögren’s Syndrome Associated Genes and Immune Processes	2014
Julija Rusakovica Dr Jennifer Hallinan Professor Anil Wipat Dr Paolo Zuliani	Probabilistic Latent Semantic Analysis Applied to Whole Bacterial Genomes Identifies Common Genomic Features	2014
Dr Matthew Pocock Dr Jennifer Hallinan Dr Goksel Misirli Professor Anil Wipat	The Synthetic Biology Open Language (SBOL) provides a community standard for communicating designs in synthetic biology	2014
Dr Jennifer Hallinan Owen Gilfellon Dr Goksel Misirli Professor Anil Wipat	Tuning Receiver Characteristics in Bacterial Quorum Communication: An Evolutionary Approach Using Standard Virtual Biological Parts	2014
Dr Goksel Misirli Professor Anil Wipat Joseph Mullen Dr Katherine James Dr Matthew Pocock et al.	BacillOndex: An Integrated Data Resource for Systems and Synthetic Biology	2013
Dr Jennifer Hallinan	Computational Intelligence in the Design of Synthetic Microbial Genetic Systems	2013
Jochen Weile Dr Katherine James Dr Jennifer Hallinan Dr Simon Cockell Dr Phillip Lord et al.	Bayesian integration of networks without gold standards	2012
Dr Jennifer Hallinan Sungshic Park Professor Anil Wipat	Bridging the Gap Between Design and Reality: A Dual Evolutionary Strategy for the Design of Synthetic Genetic Circuits	2012
Dr Jennifer Hallinan	Data mining for microbiologists	2012
Dr Katherine James Professor Anil Wipat Dr Jennifer Hallinan	Is newer better?-evaluating the effects of data curation on integrated analyses in Saccharomyces cerevisiae	2012
Dr Keith Flanagan Dr Sirintra Nakjang Dr Jennifer Hallinan Professor Colin Harwood Professor Robert Hirt et al.	Microbase2.0: a generic framework for computationally intensive bioinformatics workflows in the cloud	2012
Dr Sophie Weatherhead Professor Peter Farr Dr David Jamieson Dr Jennifer Hallinan Dr James Lloyd et al.	Apoptosis of keratinocytes is a key mechanism in UVB-induced clearance of psoriasis	2011
Dr Goksel Misirli Dr Jennifer Hallinan Dr Matthew Pocock Dr Simon Cockell Jochen Weile et al.	BacillOndex: An Integrated Data Resource for Systems and Synthetic Biology	2011
Jochen Weile Dr Matthew Pocock Dr Simon Cockell Dr Phillip Lord James Dewar et al.	Customizable views on semantically integrated networks for systems biology	2011
Dr Sophie Weatherhead Professor Peter Farr Dr David Jamieson Dr Jennifer Hallinan Dr James Lloyd et al.	Keratinocyte Apoptosis in Epidermal Remodeling and Clearance of Psoriasis Induced by UV Radiation	2011
Dr Goksel Misirli Dr Jennifer Hallinan Professor Anil Wipat	Model annotation for synthetic biology: automating model to nucleotide sequence conversion	2011
Dr Katherine James Professor Anil Wipat Dr Jennifer Hallinan	Multiple Gold Standards Address Bias in Functional Network Integration	2011
Dr Jennifer Hallinan Dr Katherine James Professor Anil Wipat	Network Approaches to the Functional Analysis of Microbial Proteins	2011
Dr Sophie Weatherhead Professor Peter Farr Dr Jennifer Hallinan Professor Anil Wipat Professor Nick Reynolds et al.	Development of a dynamic mathematical model of epidermis reveals critical importance of increasing the proportion of both cycling stem and transient amplifying cells, in the development of psoriatic plaques	2010
Dr Jennifer Hallinan Dr Goksel Misirli Professor Anil Wipat	Evolutionary computation for the design of a stochastic switch for synthetic genetic circuits	2010
Dr Joao Passos Dr Glyn Nelson Dr Cedric Simillion Dr Carole Proctor Dr Satomi Miwa et al.	Feedback between p21 and reactive oxygen production is necessary for cell senescence	2010
Dr Goksel Misirli Dr Jennifer Hallinan Professor Anil Wipat	Standard virtual biological parts: a repository of modular modeling components for synthetic biology	2010
Dr Joao Passos Dr Cedric Simillion Dr Jennifer Hallinan Professor Anil Wipat Professor Thomas von Zglinicki et al.	Cellular senescence: Unravelling complexity	2009
Dr Jennifer Hallinan Dr Matthew Pocock Dr Stephen Addinall Professor David Lydall Professor Anil Wipat et al.	Clustering incorporating shortest paths identifies relevant modules in functional interaction networks	2009
Dr Jennifer Hallinan	Evolving gene regulatory networks	2009
Dr Katherine James Professor Anil Wipat Dr Jennifer Hallinan	Integration of full-coverage probabilistic functional networks with relevance to specific biological processes	2009
Dr Katherine James Professor Anil Wipat Dr Jennifer Hallinan	Integration of full-coverage probabilistic functional networks with relevance to specific biological processes	2009
Dr Stephen Addinall Dawn Downey Dr Min Yu Dr Mikhajlo Zubko James Dewar et al.	A Genome-wide Suppressor and Enhancer Analysis of cdc13-1 Reveals Varied Cellular Processes Influencing Telomere Capping in Saccharomyces cerevisiae	2008
Tracy Craddock Professor Colin Harwood Dr Jennifer Hallinan Professor Anil Wipat	e-Science: relieving bottlenecks in large-scale genome analyses	2008
Dr Jennifer Hallinan Professor Anil Wipat	Network Motifs in Context: An Exploration of the Evolution of Oscillatory Dynamics in Transcriptional Networks	2008
Dr Jennifer Hallinan Professor Anil Wipat	Motifs and modules in fractured functional yeast networks	2007
Dr Jennifer Hallinan Professor Anil Wipat	Clustering and cross-talk in a yeast functional interaction network	2006
Dr Jennifer Hallinan	Effects of an RNA control layer on the state space of Boolean models of genetic regulatory networks	2006
Dr Jennifer Hallinan	Effects of constitutive gene expression on the dynamics of random Boolean netorks	2006
Dr Jennifer Hallinan	Antisense Transcription in the Mammalian Transcriptome	2005
Dr Jennifer Hallinan	Evolving neural networks for the classification of Malignancy Associated Changes	2005
Dr Jennifer Hallinan	Game of Life	2005
Dr Jennifer Hallinan	Game Theory	2005
Dr Jennifer Hallinan	Network motifs, feedback loops and the dynamics of genetic regulatory networks	2005
Dr Jennifer Hallinan	Asynchronous dynamics of an artificial genetic regulatory network	2004
Dr Jennifer Hallinan	Cluster analysis of the p53 genetic regulatory network: Topology and biology	2004
Dr Jennifer Hallinan	Evolving genetic regulatory networks using an artificial genome	2004
Dr Jennifer Hallinan	Gene duplication and hierarchical modularity in intracellular interaction networks	2004
Dr Jennifer Hallinan	Evolutionary computation and cognitive science	2003
Dr Jennifer Hallinan	Self-organization leads to hierarchical modularity in an internet community	2003
Dr Jennifer Hallinan	A comparison of neutral landscapes - NK, NKp and NKq	2002
Dr Jennifer Hallinan	Evolutionary Algorithms	2002
Dr Jennifer Hallinan	Probing the persistent question marks	2001
Dr Jennifer Hallinan	Selection procedures for module discovery: Exploring evolutionary algorithms for cognitive science	2001
Dr Jennifer Hallinan	Effects of damage to the CDM Stroop model	2000
Dr Jennifer Hallinan	Feature selection and classification in the diagnosis of cervical cancer	2000
Dr Jennifer Hallinan	Modelling the spread of antibiotic resistance	2000
Dr Jennifer Hallinan	Stroop performance in Alzheimer's disease: A preliminary test of theories of damage using a connectionist simulation	2000