John Parkinson

According to our database, John Parkinson authored at least 27 papers between 1990 and 2024.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2024

Cell4D: a general purpose spatial stochastic simulator for cellular pathways.

Donny Chan, Graham L. Cromar, Billy Taj, John Parkinson

BMC Bioinform., December, 2024

ToxoNet: A high confidence map of protein-protein interactions in Toxoplasma gondii.

Lakshmipuram S. Swapna, Grant C. Stevens, Aline Sardinha-Silva, Lucas Zhongming Hu, Verena Brand, Daniel D. Fusca, Cuihong Wan, Xuejian Xiong, Jon P. Boyle, Michael E. Grigg, Andrew Emili, John Parkinson

PLoS Comput. Biol., 2024

2022

Architect: A tool for aiding the reconstruction of high-quality metabolic models through improved enzyme annotation.

Nirvana Nursimulu, Alan M. Moses, John Parkinson

PLoS Comput. Biol., September, 2022

2020

A systematic pipeline for classifying bacterial operons reveals the evolutionary landscape of biofilm machineries.

Cedoljub Bundalovic-Torma, Gregory B. Whitfield, Lindsey S. Marmont, P. Lynne Howell, John Parkinson

PLoS Comput. Biol., 2020

2018

Improved enzyme annotation with EC-specific cutoffs using DETECT v2.

Nirvana Nursimulu, Leon L. Xu, James D. Wasmuth, Ivan Krukov, John Parkinson

Bioinform., 2018

2016

PhyloPro2.0: a database for the dynamic exploration of phylogenetically conserved proteins and their domain architectures across the Eukarya.

Graham L. Cromar, Anthony Zhao, Xuejian Xiong, Lakshmipuram S. Swapna, Noeleen Loughran, Hongyan Song, John Parkinson

Database J. Biol. Databases Curation, 2016

2015

Hyperscape: visualization for complex biological networks.

Graham L. Cromar, Anthony Zhao, Alex Yang, John Parkinson

Bioinform., 2015

2013

Identification of a Functional Connectome for Long-Term Fear Memory in Mice.

Anne L. Wheeler, Cátia M. Teixeira, Afra H. Wang, Xuejian Xiong, Natasa Kovacevic, Jason P. Lerch, Anthony Randal McIntosh, John Parkinson, Paul W. Frankland

PLoS Comput. Biol., 2013

IDBA-MT: <i>De Novo</i> Assembler for Metatranscriptomic Data Generated from Next-Generation Sequencing Technology.

Henry C. M. Leung, Siu-Ming Yiu, John Parkinson, Francis Y. L. Chin

J. Comput. Biol., 2013

2012

Modelling the Self-Assembly of Elastomeric Proteins Provides Insights into the Evolution of Their Domain Architectures.

Hongyan Song, John Parkinson

PLoS Comput. Biol., 2012

2011

DAnCER: Disease-Annotated Chromatin Epigenetics Resource.

Andrei L. Turinsky, Brian Turner, Rosanne C. Borja, James A. Gleeson, Michael Heath, Shuye Pu, Thomas Switzer, Dong Dong, Yunchen Gong, Tuan On, Xuejian Xiong, Andrew Emili, Jack Greenblatt, John Parkinson, Zhaolei Zhang, Shoshana J. Wodak

Nucleic Acids Res., 2011

PhyloPro: a web-based tool for the generation and visualization of phylogenetic profiles across Eukarya.

Xuejian Xiong, Hongyan Song, Tuan On, Lucas Lochovsky, Nicholas J. Provart, John Parkinson

Bioinform., 2011

2010

DETECT - a Density Estimation Tool for Enzyme ClassificaTion and its application to <i>Plasmodium falciparum</i>.

Stacy S. Hung, James Wasmuth, Christopher Sanford, John Parkinson

Bioinform., 2010

2009

The Modular Organization of Protein Interactions in <i>Escherichia coli</i>.

José M. Peregrín-Alvarez, Xuejian Xiong, Chong Su, John Parkinson

PLoS Comput. Biol., 2009

2008

Bacteriome.org - an integrated protein interaction database for <i>E. coli</i>.

Chong Su, José M. Peregrín-Alvarez, Gareth Butland, Sadhna Phanse, Vincent Fong, Andrew Emili, John Parkinson

Nucleic Acids Res., 2008

Pupils' attitudes towards school science as they transfer from an ICT-rich primary school to a secondary school with fewer ICT resources: Does ICT matter?

Gary Beauchamp, John Parkinson

Educ. Inf. Technol., 2008

SubSeqer: a graph-based approach for the detection and identification of repetitive elements in low-complexity sequences.

David He, John Parkinson

Bioinform., 2008

2006

Cell++ - simulating biochemical pathways.

Christopher Sanford, Matthew L. K. Yip, Carl White, John Parkinson

Bioinform., 2006

2005

PartiGeneDB - collating partial genomes.

José M. Peregrín-Alvarez, Andrew Yam, Gaya Sivakumar, John Parkinson

Nucleic Acids Res., 2005

Exploring Parasite Gene Space.

James Wasmuth, Ralf Schmid, Alasdair Anthony, John Parkinson, Mark L. Blaxter

BMC Bioinform., 2005

2004

NEMBASE: a resource for parasitic nematode ESTs.

John Parkinson, Claire Whitton, Ralf Schmid, Marian Thomson, Mark L. Blaxter

Nucleic Acids Res., 2004

Mediating Science Learning Through Information and Communications Technology: Holliman, Richard and Scanlon, Eileen (Eds.) (2004) London: RoutledgeFalmer, 211pp, ISBN 0-415-32832-2.

John Parkinson

Comput. Educ., 2004

PartiGene-constructing partial genomes.

John Parkinson, Alasdair Anthony, James Wasmuth, Ralf Schmid, Ann Hedley, Mark L. Blaxter

Bioinform., 2004

2003

SimiTri-visualizing similarity relationships for groups of sequences.

John Parkinson, Mark L. Blaxter

Bioinform., 2003

2002

Making sense of EST sequences by CLOBBing them.

John Parkinson, David B. Guiliano, Mark L. Blaxter

BMC Bioinform., 2002

1999

A model for the study and design of teaching situations with ICT.

Steve Kennewell, Howard Tanner, John Parkinson

Proceedings of the Communications and Networking in Education: Learning in a Networked Society, 1999

1990

Making CASE Work.

John Parkinson

Proceedings of the Advanced Information Systems Engineering, 1990