The DOI matches its Crossref record; 3 of the 3 references it cites were found in a registry or an index.
Conservation of gene order: a fingerprint of proteins that physically interact
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Cites
The genetical theory of natural selection
Fisher, R. A. (1930) · doi:10.5962/bhl.title.27468 · Cited by 17,617
The complete genome sequence of the gram-positive bacterium Bacillus subtilis.
Kunst, F., Ogasawara, N., Moszer, I., Albertini, A. M., Alloni, G., Azevedo, V., Bertero, M. G., Bessières, P., Bolotin, A., Borchert, S., et al. (1997) · Nature · doi:10.1038/36786 · Cited by 3,679
The complete genome sequence of the gastric pathogen Helicobacter pylori
Tomb, J.-F., White, O., Kerlavage, A. R., Clayton, R. A., Sutton, G. G., Fleischmann, R. D., Ketchum, K. A., Klenk, H. P., Gill, S., Dougherty, B. A., et al. (1997) · Nature · doi:10.1038/41483 · Cited by 3,529
Cited by
Artificial intelligence to deep learning: machine intelligence approach for drug discovery
Gupta, R., Srivastava, D., Sahu, M., Tiwari, S., Ambasta, R. K., & Kumar, P. (2021) · Molecular Diversity · doi:10.1007/s11030-021-10217-3 · Cited by 1,473
“If two proteins’ genes are not close by in the genome, then this method cannot reliably predict an interaction between these two genes [156, 157].”
Orthologs, Paralogs, and Evolutionary Genomics
Koonin, E. V. (2005) · Annual Review of Genetics · doi:10.1146/annurev.genet.39.073003.114725 · Cited by 1,323
Horizontal gene transfer in prokaryotes: Quantification and classification
Koonin, E. V., Makarova, K. S., & Aravind, L. (2001) · Annual Review of Microbiology · doi:10.1146/annurev.micro.55.1.709 · Cited by 1,126
Protein interaction maps for complete genomes based on gene fusion events
Enright, A. J., Iliopoulos, I., Kyrpides, N. C., & Ouzounis, C. A. (1999) · Nature · doi:10.1038/47056 · Cited by 818
A combined algorithm for genome-wide prediction of protein function
Marcotte, E. M., Pellegrini, M., Thompson, M. J., Yeates, T. O., & Eisenberg, D. (1999) · Nature · doi:10.1038/47048 · Cited by 682
Molecular Evidence for the Early Evolution of Photosynthesis
Xiong, J., Fischer, W. M., Inoue, K., Nakahara, M., & Bauer, C. E. (2000) · Science · doi:10.1126/science.289.5485.1724 · Cited by 513
Global Functional Atlas of Escherichia coli Encompassing Previously Uncharacterized Proteins
Hu, P., Janga, S. C., Babu, M., Díaz-Mejía, J. J., Butland, G., Yang, W., Pogoutse, O., Guo, X., Phanse, S., Wong, P., et al. (2009) · PLoS Biology · doi:10.1371/journal.pbio.1000096 · Cited by 387
Predicting Protein–Protein Interactions from the Molecular to the Proteome Level
Keskin, O., Tuncbag, N., & Gursoy, A. (2016) · Chemical Reviews · doi:10.1021/acs.chemrev.5b00683 · Cited by 369
Mirkin, B. G., Fenner, T. I., Galperin, M. Y., & Koonin, E. V. (2003) · BMC Evolutionary Biology · doi:10.1186/1471-2148-3-2 · Cited by 368
Did DNA replication evolve twice independently?
Leipe, D. D., Aravind, L., & Koonin, E. V. (1999) · Nucleic Acids Research · doi:10.1093/nar/27.17.3389 · Cited by 351
Evolution of gene order conservation in prokaryotes
Tamames, J. (2001) · Genome Biology · doi:10.1186/gb-2001-2-6-research0020 · Cited by 213
Variation and Evolution of the Citric-Acid Cycle: A Genomic Perspective
Huynen, M. A., Dandekar, T., & Bork, P. (1999) · Trends in Microbiology · doi:10.1016/s0966-842x(99)01539-5 · Cited by 188
Self-citationEvolution of prokaryotic gene order: genome rearrangements in closely related species
Suyama, M., & Bork, P. (2001) · Trends in Genetics · doi:10.1016/s0168-9525(00)02159-4 · Cited by 169
An Essential Poison: Synthesis and Degradation of Cyclic Di-AMP in Bacillus subtilis
Gundlach, J., Mehne, F. M. P., Herzberg, C., Kampf, J., Valerius, O., Kaever, V., & Stülke, J. (2015) · Journal of Bacteriology · doi:10.1128/jb.00564-15 · Cited by 146
Andrade, M. A., Ciccarelli, F. D., Perez-Iratxeta, C., & Bork, P. (2002) · Genome Biology · doi:10.1186/gb-2002-3-9-research0047 · Cited by 135
Persistence drives gene clustering in bacterial genomes
Fang, G., Rocha, E. P., & Danchin, A. (2008) · BMC Genomics · doi:10.1186/1471-2164-9-4 · Cited by 112
“…many genes correspond to complex functions requiring the simultaneous presence of several components, the need for protein complexes cooperating in a given cellular function was therefore suggested as a selective driving force for gene clustering and formation and/or maintenance of operons [23,27].”
Prism: Protein-Protein Interaction Prediction by Structural Matching
Keskin, O., Nussinov, R., & Gursoy, A. (2008) · Methods in Molecular Biology · doi:10.1007/978-1-59745-398-1_30 · Cited by 80
Exploiting Bacterial Operons To Illuminate Human Iron–Sulfur Proteins
Andreini, C., Banci, L., & Rosato, A. (2016) · Journal of Proteome Research · doi:10.1021/acs.jproteome.6b00045 · Cited by 48
A new framework for Subti Wiki, the database for the model organism Bacillus subtilis
Elfmann, C., Dumann, V., van den Berg, T., & Stülke, J. (2025) · Nucleic Acids Research · doi:10.1093/nar/gkae957 · Cited by 47
de Been, M., Bart, M. J., Abee, T., Siezen, R. J., & Francke, C. (2008) · Environmental Microbiology · doi:10.1111/j.1462-2920.2008.01700.x · Cited by 42
Tödter, D., Gunka, K., & Stülke, J. (2017) · Frontiers in Microbiology · doi:10.3389/fmicb.2017.00883 · Cited by 22
Deep learning reveals many more inter-protein residue-residue contacts than direct coupling analysis
Zhou, T.-M., Wang, S., & Xu, J. (2017) · doi:10.1101/240754 · Cited by 25
Pozdeev, G., Beckett, M. C., Mogre, A., Thomson, N. R., & Dorman, C. J. (2022) · Microbial Genomics · doi:10.1099/mgen.0.000768 · Cited by 11
Sun, G., DeFelice, M. M., Gillies, T. E., Ahn-Horst, T. A., Andrews, C. J., Krummenacker, M., Karp, P. D., Morrison, J. H., & Covert, M. W. (2024) · Cell Systems · doi:10.1016/j.cels.2024.02.002 · Cited by 9
Co-regulation of translation in protein complexes
Siwiak, M., & Zielenkiewicz, P. (2015) · Biology Direct · doi:10.1186/s13062-015-0048-7 · Cited by 8
Metadata
- Authors
- Dandekar, T.
- Venue
- Trends in Biochemical Sciences
- Publisher
- Elsevier BV
- Published
- 1998-09-01
- Volume
- 23
- Issue
- 9
- Pages
- 324-328
- ISSN
- 0968-0004 (ISSN-L)
- OpenAlex
- W2107424557
- Cited by
- 1,041
- References
- 3
- FWCI
- 10.24
- Type
- journal article
- Language
- en
- Open access
- closed
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
