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2020 – today
- 2024
[j25]Donny Chan, Graham L. Cromar, Billy Taj, John Parkinson
:
Cell4D: a general purpose spatial stochastic simulator for cellular pathways. BMC Bioinform. 25(1): 121 (2024)- [j24]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:
ToxoNet: A high confidence map of protein-protein interactions in Toxoplasma gondii. PLoS Comput. Biol. 20(6): 1012208 (2024) - 2022
- [j23]Nirvana Nursimulu, Alan M. Moses, John Parkinson:
Architect: A tool for aiding the reconstruction of high-quality metabolic models through improved enzyme annotation. PLoS Comput. Biol. 18(9): 1010452 (2022) - 2020
- [j22]Cedoljub Bundalovic-Torma, Gregory B. Whitfield, Lindsey S. Marmont, P. Lynne Howell, John Parkinson:
A systematic pipeline for classifying bacterial operons reveals the evolutionary landscape of biofilm machineries. PLoS Comput. Biol. 16(4) (2020)
2010 – 2019
- 2018
- [j21]Nirvana Nursimulu, Leon L. Xu, James D. Wasmuth, Ivan Krukov, John Parkinson:
Improved enzyme annotation with EC-specific cutoffs using DETECT v2. Bioinform. 34(19): 3393-3395 (2018) - 2016
- [j20]Graham L. Cromar, Anthony Zhao, Xuejian Xiong, Lakshmipuram S. Swapna, Noeleen Loughran, Hongyan Song, John Parkinson:
PhyloPro2.0: a database for the dynamic exploration of phylogenetically conserved proteins and their domain architectures across the Eukarya. Database J. Biol. Databases Curation 2016 (2016) - 2015
- [j19]Graham L. Cromar, Anthony Zhao, Alex Yang, John Parkinson:
Hyperscape: visualization for complex biological networks. Bioinform. 31(20): 3390-3391 (2015) - 2013
- [j18]Henry C. M. Leung, Siu-Ming Yiu, John Parkinson, Francis Y. L. Chin:
IDBA-MT: De Novo Assembler for Metatranscriptomic Data Generated from Next-Generation Sequencing Technology. J. Comput. Biol. 20(7): 540-550 (2013) - [j17]Anne L. Wheeler, Cátia M. Teixeira, Afra H. Wang, Xuejian Xiong, Natasa Kovacevic, Jason P. Lerch, Anthony Randal McIntosh, John Parkinson, Paul W. Frankland:
Identification of a Functional Connectome for Long-Term Fear Memory in Mice. PLoS Comput. Biol. 9(1) (2013) - 2012
- [j16]Hongyan Song, John Parkinson:
Modelling the Self-Assembly of Elastomeric Proteins Provides Insights into the Evolution of Their Domain Architectures. PLoS Comput. Biol. 8(3) (2012) - 2011
- [j15]Xuejian Xiong, Hongyan Song, Tuan On, Lucas Lochovsky, Nicholas J. Provart, John Parkinson:
PhyloPro: a web-based tool for the generation and visualization of phylogenetic profiles across Eukarya. Bioinform. 27(6): 877-878 (2011) - [j14]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:
DAnCER: Disease-Annotated Chromatin Epigenetics Resource. Nucleic Acids Res. 39(Database-Issue): 889-894 (2011) - 2010
- [j13]Stacy S. Hung, James Wasmuth, Christopher Sanford, John Parkinson:
DETECT - a Density Estimation Tool for Enzyme ClassificaTion and its application to Plasmodium falciparum. Bioinform. 26(14): 1690-1698 (2010)
2000 – 2009
- 2009
- [j12]José M. Peregrín-Alvarez, Xuejian Xiong, Chong Su, John Parkinson:
The Modular Organization of Protein Interactions in Escherichia coli. PLoS Comput. Biol. 5(10) (2009) - 2008
- [j11]David He, John Parkinson:
SubSeqer: a graph-based approach for the detection and identification of repetitive elements in low-complexity sequences. Bioinform. 24(7): 1016-1017 (2008) - [j10]Gary Beauchamp, John Parkinson:
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. 13(2): 103-118 (2008) - [j9]Chong Su, José M. Peregrín-Alvarez, Gareth Butland, Sadhna Phanse, Vincent Fong, Andrew Emili, John Parkinson:
Bacteriome.org - an integrated protein interaction database for E. coli. Nucleic Acids Res. 36(Database-Issue): 632-636 (2008) - 2006
- [j8]Christopher Sanford, Matthew L. K. Yip, Carl White, John Parkinson:
Cell++ - simulating biochemical pathways. Bioinform. 22(23): 2918-2925 (2006) - 2005
- [j7]James Wasmuth, Ralf Schmid, Alasdair Anthony, John Parkinson, Mark L. Blaxter:
Exploring Parasite Gene Space. BMC Bioinform. 6(S-3) (2005) - [j6]José M. Peregrín-Alvarez, Andrew Yam, Gaya Sivakumar, John Parkinson:
PartiGeneDB - collating partial genomes. Nucleic Acids Res. 33(Database-Issue): 303-307 (2005) - 2004
- [j5]John Parkinson, Alasdair Anthony, James Wasmuth, Ralf Schmid, Ann Hedley, Mark L. Blaxter:
PartiGene-constructing partial genomes. Bioinform. 20(9): 1398-1404 (2004) - [j4]John Parkinson:
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. 43(4): 407-409 (2004) - [j3]John Parkinson, Claire Whitton, Ralf Schmid, Marian Thomson, Mark L. Blaxter:
NEMBASE: a resource for parasitic nematode ESTs. Nucleic Acids Res. 32(Database-Issue): 427-430 (2004) - 2003
- [j2]John Parkinson, Mark L. Blaxter:
SimiTri-visualizing similarity relationships for groups of sequences. Bioinform. 19(3): 390-395 (2003) - 2002
- [j1]John Parkinson, David B. Guiliano, Mark L. Blaxter:
Making sense of EST sequences by CLOBBing them. BMC Bioinform. 3: 31 (2002)
1990 – 1999
- 1999
- [c2]Steve Kennewell, Howard Tanner, John Parkinson:
A model for the study and design of teaching situations with ICT. Communications and Networking in Education 1999: 129-138 - 1990
- [c1]John Parkinson:
Making CASE Work. CAiSE 1990: 21-41
Coauthor Index
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