The DOI matches its Crossref record; 76 of the 76 references it cites were found in a registry or an index.
Origins and challenges of viral dark matter
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Citations
Cites
Basic local alignment search tool
Altschul, S. F., Gish, W., Miller, W., Myers, E. W., & Lipman, D. J. (1990) · Journal of Molecular Biology · doi:10.1006/jmbi.1990.9999 · Cited by 98,669
Fast and accurate short read alignment with Burrows-Wheeler transform
Li, H., & Durbin, R. (2009) · Bioinformatics · doi:10.1093/bioinformatics/btp324 · Cited by 58,607
Fast gapped-read alignment with Bowtie 2
Langmead, B., & Salzberg, S. L. (2012) · Nature Methods · doi:10.1038/nmeth.1923 · Cited by 56,400
Fast and sensitive protein alignment using DIAMOND
Buchfink, B., Xie, C., & Huson, D. H. (2015) · Nature Methods · doi:10.1038/nmeth.3176 · Cited by 14,201
The Pfam Protein Families Database
Bateman, A. (2002) · Nucleic Acids Research · doi:10.1093/nar/30.1.276 · Cited by 14,000
The Phyre2 web portal for protein modeling, prediction and analysis
Kelley, L. A., Mezulis, S., Yates, C. M., Wass, M. N., & Sternberg, M. J. E. (2015) · Nature Protocols · doi:10.1038/nprot.2015.053 · Cited by 9,652
HMMER web server: interactive sequence similarity searching
Finn, R. D., Clements, J., & Eddy, S. R. (2011) · Nucleic Acids Research · doi:10.1093/nar/gkr367 · Cited by 5,952
SOAP2: an improved ultrafast tool for short read alignment
Li, R., Yu, C., Li, Y., Lam, T.-W., Yiu, S.-M., Kristiansen, K., & Wang, J. (2009) · Bioinformatics · doi:10.1093/bioinformatics/btp336 · Cited by 3,760
The Pfam protein families database
Finn, R. D., Mistry, J., Tate, J., Coggill, P., Heger, A., Pollington, J. E., Gavin, O. L., Gunasekaran, P., Ceric, G., Forslund, K., et al. (2010) · Nucleic Acids Research · doi:10.1093/nar/gkp985 · Cited by 2,694
Identification of protein coding regions by database similarity search
Gish, W., & States, D. J. (1993) · Nature Genetics · doi:10.1038/ng0393-266 · Cited by 1,664
Cited by
Whole-Virome Analysis Sheds Light on Viral Dark Matter in Inflammatory Bowel Disease
Clooney, A. G., Sutton, T. D. S., Shkoporov, A. N., Holohan, R. K., Daly, K. M., O’Regan, O., Ryan, F. J., Draper, L. A., Plevy, S. E., Ross, R. P., et al. (2019) · Cell Host & Microbe · doi:10.1016/j.chom.2019.10.009 · Cited by 452
Gut Microbiota beyond Bacteria—Mycobiome, Virome, Archaeome, and Eukaryotic Parasites in IBD
Matijašić, M., Meštrović, T., Čipčić Paljetak, H., Perić, M., Barešić, A., & Verbanac, D. (2020) · International Journal of Molecular Sciences · doi:10.3390/ijms21082668 · Cited by 284
Using artificial intelligence to document the hidden RNA virosphere
Hou, X., He, Y., Fang, P., Mei, S.-Q., Xu, Z., Wu, W.-C., Tian, J.-H., Zhang, S., Zeng, Z.-Y., Gou, Q.-Y., et al. (2024) · Cell · doi:10.1016/j.cell.2024.09.027 · Cited by 162
Viromes of one year old infants reveal the impact of birth mode on microbiome diversity
McCann, A., Ryan, F. J., Stockdale, S. R., Dalmasso, M., Blake, T., Ryan, C. A., Stanton, C., Mills, S., Ross, P. R., & Hill, C. (2018) · PeerJ · doi:10.7717/peerj.4694 · Cited by 129
(2022) · doi:10.1093/ve/veac082 · Cited by 108
Metadata
- Authors
- Krishnamurthy, S. R., & Wang, D.
- Venue
- Virus Research
- Publisher
- Elsevier BV
- Published
- 2017-07
- Volume
- 239
- Pages
- 136-142
- ISSN
- 0168-1702 (ISSN-L)
- OpenAlex
- W2587382807
- Cited by
- 257
- References
- 76
- FWCI
- 17.84
- Type
- journal article
- Language
- en
- Open access
- closed
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- CoChat. (2026). Citation check: Origins and challenges of viral dark matter. https://app.cochat.ai/papers/10.1016/j.virusres.2017.02.002
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- Krishnamurthy, S. R., & Wang, D. (2017). Origins and challenges of viral dark matter. Virus Research. https://doi.org/10.1016/j.virusres.2017.02.002
Data sources
Bibliographic data: Semantic Scholar, OpenAlex, Crossref.
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.
