Add consensus sequence figure
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@@ -517,3 +517,48 @@
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url = {https://doi.org/10.1093/bioinformatics/btg109},
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eprint = {https://academic.oup.com/bioinformatics/article-pdf/19/8/999/642375/btg109.pdf},
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}
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@Article{Nagar2013,
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author = {Nagar, Anurag and Hahsler, Michael},
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title = {Fast discovery and visualization of conserved regions in
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DNA sequences using quasi-alignment},
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journal = {BMC Bioinformatics},
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year = 2013,
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month = {Sep},
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day = 13,
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volume = 14,
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number = 11,
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pages = {S2},
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abstract = {Next Generation Sequencing techniques are producing
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enormous amounts of biological sequence data and analysis
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becomes a major computational problem. Currently, most
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analysis, especially the identification of conserved regions,
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relies heavily on Multiple Sequence Alignment and its various
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heuristics such as progressive alignment, whose run time grows
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with the square of the number and the length of the aligned
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sequences and requires significant computational resources. In
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this work, we present a method to efficiently discover regions
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of high similarity across multiple sequences without
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performing expensive sequence alignment. The method is based
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on approximating edit distance between segments of sequences
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using p-mer frequency counts. Then, efficient high-throughput
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data stream clustering is used to group highly similar
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segments into so called quasi-alignments. Quasi-alignments
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have numerous applications such as identifying species and
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their taxonomic class from sequences, comparing sequences for
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similarities, and, as in this paper, discovering conserved
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regions across related sequences.},
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issn = {1471-2105},
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doi = {10.1186/1471-2105-14-S11-S2},
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url = {https://doi.org/10.1186/1471-2105-14-S11-S2}
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}
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@book{book:771224,
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title = {Artificial Intelligence: A Modern Approach},
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author = {Stuart Russell, Peter Norvig},
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publisher = {Prentice Hall},
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isbn = {0136042597, 9780136042594},
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year = 2010,
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series = {Prentice Hall Series in Artificial Intelligence},
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edition = {3rd}
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}
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assets/figures/consensus-sequence.png
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assets/figures/consensus-sequence.png
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