John Parkinson

28 papers A 1Journal 26Unranked 1
YearRankTypeTitle / Venue / Authors
2026 J jnl
Correction: ToxoNet: A high confidence map of protein-protein interactions in Toxoplasma gondii.
PLoS Comput. Biol.
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
2024 J jnl
Cell4D: a general purpose spatial stochastic simulator for cellular pathways.
BMC Bioinform.
Donny Chan, Graham L. Cromar, Billy Taj, John Parkinson
2024 J jnl
ToxoNet: A high confidence map of protein-protein interactions in Toxoplasma gondii.
PLoS Comput. Biol.
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
2022 J jnl
Architect: A tool for aiding the reconstruction of high-quality metabolic models through improved enzyme annotation.
PLoS Comput. Biol.
Nirvana Nursimulu, Alan M. Moses, John Parkinson
2020 J jnl
A systematic pipeline for classifying bacterial operons reveals the evolutionary landscape of biofilm machineries.
PLoS Comput. Biol.
Cedoljub Bundalovic-Torma, Gregory B. Whitfield, Lindsey S. Marmont, P. Lynne Howell, John Parkinson
2018 J jnl
Improved enzyme annotation with EC-specific cutoffs using DETECT v2.
Bioinform.
Nirvana Nursimulu, Leon L. Xu, James D. Wasmuth, Ivan Krukov, John Parkinson
2016 J jnl
PhyloPro2.0: a database for the dynamic exploration of phylogenetically conserved proteins and their domain architectures across the Eukarya.
Database J. Biol. Databases Curation
Graham L. Cromar, Anthony Zhao, Xuejian Xiong, Lakshmipuram S. Swapna, Noeleen Loughran, Hongyan Song, John Parkinson
2015 J jnl
Hyperscape: visualization for complex biological networks.
Bioinform.
Graham L. Cromar, Anthony Zhao, Alex Yang, John Parkinson
2013 J jnl
IDBA-MT:
J. Comput. Biol.
Henry C. M. Leung, Siu-Ming Yiu, John Parkinson, Francis Y. L. Chin
2013 J jnl
Identification of a Functional Connectome for Long-Term Fear Memory in Mice.
PLoS Comput. Biol.
Anne L. Wheeler, Cátia M. Teixeira, Afra H. Wang, Xuejian Xiong, Natasa Kovacevic, Jason P. Lerch, Anthony Randal McIntosh, John Parkinson, Paul W. Frankland
2012 J jnl
Modelling the Self-Assembly of Elastomeric Proteins Provides Insights into the Evolution of Their Domain Architectures.
PLoS Comput. Biol.
Hongyan Song, John Parkinson
2011 J jnl
DAnCER: Disease-Annotated Chromatin Epigenetics Resource.
Nucleic Acids Res.
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
2011 J jnl
PhyloPro: a web-based tool for the generation and visualization of phylogenetic profiles across Eukarya.
Bioinform.
Xuejian Xiong, Hongyan Song, Tuan On, Lucas Lochovsky, Nicholas J. Provart, John Parkinson
2010 J jnl
DETECT - a Density Estimation Tool for Enzyme ClassificaTion and its application to
Bioinform.
Stacy S. Hung, James Wasmuth, Christopher Sanford, John Parkinson
2009 J jnl
The Modular Organization of Protein Interactions in
PLoS Comput. Biol.
José M. Peregrín-Alvarez, Xuejian Xiong, Chong Su, John Parkinson
2008 J jnl
Bacteriome.org - an integrated protein interaction database for
Nucleic Acids Res.
Chong Su, José M. Peregrín-Alvarez, Gareth Butland, Sadhna Phanse, Vincent Fong, Andrew Emili, John Parkinson
2008 J jnl
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?
Educ. Inf. Technol.
Gary Beauchamp, John Parkinson
2008 J jnl
SubSeqer: a graph-based approach for the detection and identification of repetitive elements in low-complexity sequences.
Bioinform.
David He, John Parkinson
2006 J jnl
Cell++ - simulating biochemical pathways.
Bioinform.
Christopher Sanford, Matthew L. K. Yip, Carl White, John Parkinson
2005 J jnl
Exploring Parasite Gene Space.
BMC Bioinform.
James Wasmuth, Ralf Schmid, Alasdair Anthony, John Parkinson, Mark L. Blaxter
2005 J jnl
PartiGeneDB - collating partial genomes.
Nucleic Acids Res.
José M. Peregrín-Alvarez, Andrew Yam, Gaya Sivakumar, John Parkinson
2004 J jnl
Mediating Science Learning Through Information and Communications Technology: Holliman, Richard and Scanlon, Eileen (Eds.) (2004) London: RoutledgeFalmer, 211pp, ISBN 0-415-32832-2.
Comput. Educ.
John Parkinson
2004 J jnl
NEMBASE: a resource for parasitic nematode ESTs.
Nucleic Acids Res.
John Parkinson, Claire Whitton, Ralf Schmid, Marian Thomson, Mark L. Blaxter
2004 J jnl
PartiGene-constructing partial genomes.
Bioinform.
John Parkinson, Alasdair Anthony, James Wasmuth, Ralf Schmid, Ann Hedley, Mark L. Blaxter
2003 J jnl
SimiTri-visualizing similarity relationships for groups of sequences.
Bioinform.
John Parkinson, Mark L. Blaxter
2002 J jnl
Making sense of EST sequences by CLOBBing them.
BMC Bioinform.
John Parkinson, David B. Guiliano, Mark L. Blaxter
1999 — conf
A model for the study and design of teaching situations with ICT.
Communications and Networking in Education
Steve Kennewell, Howard Tanner, John Parkinson
1990 A conf
Making CASE Work.
CAiSE
John Parkinson