The DOI matches its Crossref record; 18 of the 18 references it cites were found in a registry or an index.
The CIPRES science gateway: a community resource for phylogenetic analyses
Abstract
The CIPRES Science Gateway (CSG) provides researchers and educators with browser-based access to community codes for inference of phylogenetic relationships from DNA and protein sequence data. The CSG allows users to deploy jobs on the high-performance computers of the TeraGrid without requiring detailed knowledge of their complexities. Use of the CSG has grown rapidly; through March 2011 it had more than 2,200 users and enabled more than 180 peer-reviewed publications. The rapid growth in resource consumption was accommodated by deploying codes on Trestles, a new TeraGrid computer. Tools and policies were developed to insure efficient and effective resource use. This paper describes progress in managing the growth of this public cyberinfrastructure resource and reviews the domain science that it has enabled.
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Cites
BEAST: Bayesian evolutionary analysis by sampling trees
Drummond, A. J., & Rambaut, A. (2007) · BMC Evolutionary Biology · doi:10.1186/1471-2148-7-214 · Cited by 12,919
Creating the CIPRES Science Gateway for inference of large phylogenetic trees
Miller, M. A., Pfeiffer, W., & Schwartz, T. (2010) · 2010 Gateway Computing Environments Workshop (GCE) · doi:10.1109/gce.2010.5676129 · Cited by 11,228
Self-citationOn the Complexity of Multiple Sequence Alignment
WANG, L., & JIANG, T. (1994) · Journal of Computational Biology · doi:10.1089/cmb.1994.1.337 · Cited by 934
Parallelization of the MAFFT multiple sequence alignment program
Katoh, K., & Toh, H. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btq224 · Cited by 928
The iPlant Collaborative: Cyberinfrastructure for Plant Biology
Goff, S. A., Vaughn, M., McKay, S., Lyons, E., Stapleton, A. E., Gessler, D., Matasci, N., Wang, L., Hanlon, M., Lenards, A., et al. (2011) · Frontiers in Plant Science · doi:10.3389/fpls.2011.00034 · Cited by 442
Many-core algorithms for statistical phylogenetics
Suchard, M. A., & Rambaut, A. (2009) · Bioinformatics · doi:10.1093/bioinformatics/btp244 · Cited by 421
Wang, B., Yeun, L. H., Xue, J., Liu, Y., Ané, J., & Qiu, Y. (2010) · New Phytologist · doi:10.1111/j.1469-8137.2009.03137.x · Cited by 277
Filoviruses are ancient and integrated into mammalian genomes
Taylor, D. J., Leach, R. W., & Bruenn, J. (2010) · BMC Evolutionary Biology · doi:10.1186/1471-2148-10-193 · Cited by 190
Maximum likelihood of evolutionary trees: hardness and approximation
Chor, B., & Tuller, T. (2005) · Bioinformatics · doi:10.1093/bioinformatics/bti1027 · Cited by 101
A Web interface generator for molecular biology programs in Unix
Letondal, C. (2001) · Bioinformatics · doi:10.1093/bioinformatics/17.1.73 · Cited by 100
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Major transitions in dinoflagellate evolution unveiled by phylotranscriptomics
Janouškovec, J., Gavelis, G. S., Burki, F., Dinh, D., Bachvaroff, T. R., Gornik, S. G., Bright, K. J., Imanian, B., Strom, S. L., Delwiche, C. F., et al. (2017) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1614842114 · Cited by 286
Madduri, R. K., Sulakhe, D., Lacinski, L., Liu, B., Rodriguez, A., Chard, K., Dave, U. J., & Foster, I. T. (2014) · Concurrency and Computation: Practice and Experience · doi:10.1002/cpe.3274 · Cited by 73
The rise and fall of TRP-N, an ancient family of mechanogated ion channels, in Metazoa
Schüler, A., Schmitz, G., Reft, A., Özbek, S., Thurm, U., & Bornberg-Bauer, E. (2015) · Genome Biology and Evolution · doi:10.1093/gbe/evv091 · Cited by 51
Islam, M. I., Ridone, P., Lin, A., Michie, K. A., Matzke, N. J., Hochberg, G., & Baker, M. A. B. (2023) · microLife · doi:10.1093/femsml/uqad011 · Cited by 9
Metadata
- Authors
- Miller, M. A., Pfeiffer, W., & Schwartz, T.
- Venue
- Proceedings of the 2011 TeraGrid Conference: Extreme Digital Discovery
- Publisher
- ACM
- Published
- 2011-07-18
- Pages
- 1-8
- OpenAlex
- W2146429980
- Cited by
- 466
- References
- 18
- FWCI
- 5.14
- Type
- conference paper
- Language
- en
- Open access
- closed
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- Miller, M. A., Pfeiffer, W., & Schwartz, T. (2011). The CIPRES science gateway: a community resource for phylogenetic analyses. Proceedings of the 2011 TeraGrid Conference: Extreme Digital Discovery. https://doi.org/10.1145/2016741.2016785
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
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