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ORCIDJonathan P. Arnold
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2020 – today
- 2022
[j25]Ahmad Al-Omari
, James Griffith, Ashley Scruse, Robert W. Robinson, Heinz-Bernd Schüttler, Jonathan P. Arnold:
Ensemble Methods for Identifying RNA Operons and Regulons in the Clock Network of Neurospora Crassa. IEEE Access 10: 32510-32524 (2022)- 2020
- [j24]Yue Wu, Michael T. Judge, Jonathan P. Arnold, Suchendra M. Bhandarkar, Arthur Edison:
RTExtract: time-series NMR spectra quantification based on 3D surface ridge tracking. Bioinform. 36(20): 5068-5075 (2020)
2010 – 2019
- 2019
- [j23]Zhaojie Deng, Jia Hwei-Cheong, Cristian Caranica, Lingyun Wu, Xiao Qiu, Michael T. Judge, Brooke Hull, Carmen Rodriguez, James Griffith, Ahmad Al-Omari, Sam Arsenault, Heinz-Bernd Schüttler, Leidong Mao, Jonathan P. Arnold:
Single Cells of Neurospora Crassa Show Circadian Oscillations, Light Entrainment, Temperature Compensation, and Phase Synchronization. IEEE Access 7: 49403-49417 (2019) - [d1]Zhaojie Deng, Jia Hwei-Cheong, Cristian Caranica, Lingyun Wu, Michael T. Judge, Brooke Hull, Carmen Rodriguez, James Griffith, Ahmad Al-Omari, Sam Arsenault, Heinz-Bernd Schüttler, Leidong Mao, Jonathan P. Arnold:
Single cells of Neurospora crassa show circadian oscillations, light entrainment, temperature compensation, and phase synchronization. IEEE DataPort, 2019
- 2018
- [j22]Ahmad Al-Omari, James Griffith, Cristian Caranica, Thiab R. Taha, Heinz-Bernd Schüttler, Jonathan P. Arnold:
Discovering Regulators in Post-Transcriptional Control of the Biological Clock of $Neurospora~crassa$ Using Variable Topology Ensemble Methods on GPUs. IEEE Access 6: 54582-54594 (2018) - 2015
- [j21]Ahmad Al-Omari, James Griffith, Michael T. Judge, Thiab R. Taha, Jonathan P. Arnold, Heinz-Bernd Schüttler:
Discovering Regulatory Network Topologies Using Ensemble Methods on GPGPUs With Special Reference to the Biological Clock of Neurospora crassa. IEEE Access 3: 27-42 (2015) - [j20]Amirhossein Manzourolajdad, Jonathan P. Arnold:
Secondary structural entropy in RNA switch (Riboswitch) identification. BMC Bioinform. 16: 133:1-133:77 (2015) - 2013
- [j19]Ahmad Al-Omari, Heinz-Bernd Schüttler, Jonathan P. Arnold, Thiab R. Taha:
Solving Nonlinear Systems of First Order Ordinary Differential Equations Using a Galerkin Finite Element Method. IEEE Access 1: 408-417 (2013) - [j18]Ahmad Al-Omari, Jonathan P. Arnold, Thiab R. Taha, Heinz-Bernd Schüttler:
Solving Large Nonlinear Systems of First-Order Ordinary Differential Equations With Hierarchical Structure Using Multi-GPGPUs and an Adaptive Runge Kutta ODE Solver. IEEE Access 1: 770-777 (2013)
2000 – 2009
- 2009
- [j17]Boanerges Aleman-Meza, Yihai Yu, Heinz-Bernd Schüttler, Jonathan P. Arnold, Thiab R. Taha:
KINSOLVER: A simulator for computing large ensembles of biochemical and gene regulatory networks. Comput. Math. Appl. 57(3): 420-435 (2009) - 2008
- [j16]Susanta Tewari, Jonathan P. Arnold, Suchendra M. Bhandarkar:
Likelihood of a Particular Order of Genetic Markers and the Construction of Genetic Maps. J. Bioinform. Comput. Biol. 6(1): 125-162 (2008) - 2007
- [j15]Susanta Tewari, Suchendra M. Bhandarkar, Jonathan P. Arnold:
Design and Analysis of an Efficient Recursive Linking Algorithm for Constructing Likelihood Based Genetic Maps for a Large Number of Markers. J. Bioinform. Comput. Biol. 5(2a): 201-250 (2007) - 2004
- [j14]Jorge Cardoso, Amit P. Sheth, John A. Miller, Jonathan P. Arnold, Krys J. Kochut:
Quality of service for workflows and web service processes. J. Web Semant. 1(3): 281-308 (2004) - 2003
- [j13]Krys J. Kochut, Jonathan P. Arnold, Amit P. Sheth, John A. Miller, Eileen T. Kraemer, Ismailcem Budak Arpinar, Jorge Cardoso:
IntelliGEN: A Distributed Workflow System for Discovering Protein-Protein Interactions. Distributed Parallel Databases 13(1): 43-72 (2003) - [c6]Suchendra M. Bhandarkar, Jinling Huang, Jonathan P. Arnold:
A Parallel Genetic Algorithm for Physical Mapping of Chromosomes. CSB 2003: 567-572 - 2002
- [j12]Xiang Fang, John A. Miller, Jonathan P. Arnold:
J3DV: A Java-based 3D database visualization tool. Softw. Pract. Exp. 32(5): 443-463 (2002) - [c5]Suchendra M. Bhandarkar, Jonathan P. Arnold:
Parallel Monte Carlo Methods for Physical Mapping of Chromosones. CSB 2002: 64- - 2001
- [j11]David Hall, Suchendra M. Bhandarkar, Jonathan P. Arnold, Tongzhang Jiang:
Physical mapping with automatic capture of hybridization data. Bioinform. 17(3): 205-213 (2001) - [j10]Eileen T. Kraemer, Jian Wang, Jinhua Guo, Samuel Hopkins, Jonathan P. Arnold:
An analysis of gene-finding programs for Neurospora crassa. Bioinform. 17(10): 901-912 (2001) - 2000
- [c4]Suchendra M. Bhandarkar, Salem Machaka, Sanjay Shete, Jonathan P. Arnold:
Parallel Computation for Chromosome Reconstruction on a Cluster of Workstations. IPDPS 2000: 63-70 - [c3]John D. Kececioglu, Sanjay Shete, Jonathan P. Arnold:
Reconstructing distances in physical maps of chromosomes with nonoverlapping probes. RECOMB 2000: 183-192
1990 – 1999
- 1998
- [j9]Suchendra M. Bhandarkar, Salem Machaka, Sridhar Chirravuri, Jonathan P. Arnold:
Parallel Computing for Chromosome Reconstruction via Ordering of DNA Sequences. Parallel Comput. 24(8): 1177-1204 (1998) - 1996
- [j8]Suchendra M. Bhandarkar, Sridhar Chirravuri, Jonathan P. Arnold:
PARODS - a study of parallel algorithms for ordering DNA sequences. Comput. Appl. Biosci. 12(4): 269-280 (1996) - [j7]Suchendra M. Bhandarkar, Sridhar Chirravuri, Jonathan P. Arnold:
Parallel Computing of Physical Maps--A Comparative Study in SIMD and MIMD Parallelism. J. Comput. Biol. 3(4): 503-528 (1996) - 1994
- [j6]Yuhong Wang, Rolf A. Prade, James Griffith, William E. Timberlake, Jonathan P. Arnold:
ODS_BOOTSTRAP: assessing the statistical reliability of physical maps by bootstrap resampling. Comput. Appl. Biosci. 10(6): 625-634 (1994) - 1993
- [j5]A. Jamie Cuticchia, Jonathan P. Arnold, William E. Timberlake:
PCAP: probe choice and analysis package - a set of programs to aid in choosing synthetic oligomers for contig mapping. Comput. Appl. Biosci. 9(2): 201-203 (1993) - [j4]A. Jamie Cuticchia, Jonathan P. Arnold, William E. Timberlake:
ODS: ordering DNA sequences - a physical mapping algorithm based on simulated annealing. Comput. Appl. Biosci. 9(2): 215-219 (1993) - [c2]Momiao Xiong, Jonathan P. Arnold, Hubert J. Chen:
A neural network model based on differential-algebraic equations for nonlinear programming. ICNN 1993: 923-928 - [c1]Krys J. Kochut, Jonathan P. Arnold, John A. Miller, Walter D. Potter:
Design of an Object-Oriented Database for Reverse Genetics. ISMB 1993: 234-242 - 1992
- [j3]A. Jamie Cuticchia, Jonathan P. Arnold, H. Brody, William E. Timberlake:
CMAP: contig mapping and analysis package, a relational database for chromosome reconstruction. Comput. Appl. Biosci. 8(5): 467-474 (1992)
1980 – 1989
- 1988
- [j2]Jonathan P. Arnold:
Herbert O. Yardley, Gangbuster. Cryptologia 12(1): 62-64 (1988) - 1986
- [j1]Jonathan P. Arnold, Virginia K. Eckenrode, Klaus Lemke, Gregory J. Phillips, Stephen W. Schaeffer:
A comprehensive package for DNA sequence analysis in FORTRAN IV for the PDP-11. Nucleic Acids Res. 14(1): 239-254 (1986)
Coauthor Index
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