The DOI matches its Crossref record; 3 of the 3 references it cites were found in a registry or an index.
20 years of the SMART protein domain annotation resource
Open accessAbstract
SMART (Simple Modular Architecture Research Tool) is a web resource (http://smart.embl.de) for the identification and annotation of protein domains and the analysis of protein domain architectures. SMART version 8 contains manually curated models for more than 1300 protein domains, with approximately 100 new models added since our last update article (1). The underlying protein databases were synchronized with UniProt (2), Ensembl (3) and STRING (4), doubling the total number of annotated domains and other protein features to more than 200 million. In its 20th year, the SMART analysis results pages have been streamlined again and its information sources have been updated. SMART's vector based display engine has been extended to all protein schematics in SMART and rewritten to use the latest web technologies. The internal full text search engine has been redesigned and updated, resulting in greatly increased search speed.
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Szklarczyk, D., Morris, J. H., Cook, H., Kuhn, M., Wyder, S., Simonovic, M., Santos, A., Doncheva, N. T., Roth, A., Bork, P., et al. (2017) · Nucleic Acids Research · doi:10.1093/nar/gkw937 · Cited by 6,980
Accelerated Profile HMM Searches
Eddy, S. R. (2011) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1002195 · Cited by 6,975
Aken, B. L., Achuthan, P., Akanni, W., Amode, M. R., Bernsdorff, F., Bhai, J., Billis, K., Carvalho-Silva, D., Cummins, C., Clapham, P., et al. (2017) · Nucleic Acids Research · doi:10.1093/nar/gkw1104 · Cited by 512
Research works printed but not linked: 18
- 2015, SMART: recent updates, new developments and status in 2015, Nucleic Acids Res., 43, D257, 10.1093/nar/gku949 · DOI · Paper page
- The UniProt, C., 2017, UniProt: the universal protein knowledgebase, Nucleic Acids Res., 45, D158, 10.1093/nar/gkw1099 · DOI · Paper page
- 1991, PROSITE: a dictionary of sites and patterns in proteins, Nucleic Acids Res., 19, 2241, 10.1093/nar/19.suppl.2241 · DOI · Paper page
- 1987, Profile analysis: detection of distantly related proteins, Proc. Natl. Acad. Sci. U.S.A., 84, 4355, 10.1073/pnas.84.13.4355 · DOI · Paper page
- 1989, A method for property pattern searches in protein sequence databases, demonstrated by detection of GTP binding sites, Stud. Biophys., 129, 231
- 1989, Recognition of functional regions in primary structures using a set of property patterns, FEBS Lett., 257, 191, 10.1016/0014-5793(89)81818-6 · DOI
- 1991, Shuffled domains in extracellular proteins, FEBS Lett., 286, 47, 10.1016/0014-5793(91)80937-X · DOI
- 1992, Comprehensive sequence analysis of the 182 predicted open reading frames of yeast chromosome III, Protein Sci., 1, 1677, 10.1002/pro.5560011216 · DOI
- 1994, Hidden Markov models in computational biology. Applications to protein modeling, J. Mol. Biol., 235, 1501, 10.1006/jmbi.1994.1104 · DOI
- 1998, SMART, a simple modular architecture research tool: identification of signaling domains, Proc. Natl. Acad. Sci. U.S.A., 95, 5857, 10.1073/pnas.95.11.5857 · DOI
- 2016, The Pfam protein families database: towards a more sustainable future, Nucleic Acids Res., 44, D279, 10.1093/nar/gkv1344 · DOI · Paper page
- 2017, PANTHER version 11: expanded annotation data from Gene Ontology and Reactome pathways, and data analysis tool enhancements, Nucleic Acids Res., 45, D183, 10.1093/nar/gkw1138 · DOI · Paper page
- 2013, New and continuing developments at PROSITE, Nucleic Acids Res., 41, D344
- 2017, InterPro in 2017-beyond protein family and domain annotations, Nucleic Acids Res., 45, D190, 10.1093/nar/gkw1107 · DOI · Paper page
- 2009, SMART 6: recent updates and new developments, Nucleic Acids Res., 37, D229, 10.1093/nar/gkn808 · DOI · Paper page
- 2016, eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences, Nucleic Acids Res., 44, D286, 10.1093/nar/gkv1248 · DOI · Paper page
- 2015, PTMcode v2: a resource for functional associations of post-translational modifications within and between proteins, Nucleic Acids Res., 43, D494, 10.1093/nar/gku1081 · DOI
- 2016, Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees, Nucleic Acids Res., 44, W242, 10.1093/nar/gkw290 · DOI
Cited by
Szklarczyk, D., Gable, A. L., Nastou, K. C., Lyon, D., Kirsch, R., Pyysalo, S., Doncheva, N. T., Legeay, M., Fang, T., Bork, P., et al. (2021) · Nucleic Acids Research · doi:10.1093/nar/gkaa1074 · Cited by 8,056
Self-citationThe InterPro protein families and domains database: 20 years on
Blum, M., Chang, H.-Y., Chuguransky, S., Grego, T., Kandasaamy, S., Mitchell, A., Nuka, G., Paysan-Lafosse, T., Qureshi, M., Raj, S., et al. (2021) · Nucleic Acids Research · doi:10.1093/nar/gkaa977 · Cited by 2,231
Self-citationInterPro in 2019: improving coverage, classification and access to protein sequence annotations
Mitchell, A. L., Attwood, T. K., Babbitt, P. C., Blum, M., Bork, P., Bridge, A., Brown, S. D., Chang, H.-Y., El-Gebali, S., Fraser, M. I., et al. (2019) · Nucleic Acids Research · doi:10.1093/nar/gky1100 · Cited by 1,426
Self-citationThe conserved domain database in 2023
Wang, J., Chitsaz, F., Derbyshire, M. K., Gonzales, N. R., Gwadz, M., Lu, S., Marchler, G. H., Song, J. S., Thanki, N., Yamashita, R. A., et al. (2023) · Nucleic Acids Research · doi:10.1093/nar/gkac1096 · Cited by 1,277
Transcriptome-wide isoform-level dysregulation in ASD, schizophrenia, and bipolar disorder
Gandal, M. J., Zhang, P., Hadjimichael, E., Walker, R. L., Chen, C., Liu, S., Won, H., van Bakel, H., Varghese, M., Wang, Y., et al. (2018) · Science · doi:10.1126/science.aat8127 · Cited by 1,247
Metadata
- Authors
- Letunic, I., & Bork, P.
- Venue
- Nucleic Acids Research
- Publisher
- Oxford University Press (OUP)
- Published
- 2017-10-10
- Volume
- 46
- Issue
- D1
- Pages
- D493-D496
- ISSN
- 0305-1048 (ISSN-L)
- 1362-4962
- OpenAlex
- W2761688050
- Cited by
- 2,020
- References
- 3
- FWCI
- 67.46
- Type
- journal article
- Language
- en
- Open access
- gold
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