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Items: 1 to 20 of 99

1.

Sequence analysis by iterated maps, a review.

Almeida JS.

Brief Bioinform. 2014 May;15(3):369-75. doi: 10.1093/bib/bbt072. Epub 2013 Oct 25. Review.

2.

Pattern recognition and probabilistic measures in alignment-free sequence analysis.

Schwende I, Pham TD.

Brief Bioinform. 2014 May;15(3):354-68. doi: 10.1093/bib/bbt070. Epub 2013 Oct 3. Review.

PMID:
24096012
3.

Biological sequences as pictures: a generic two dimensional solution for iterated maps.

Almeida JS, Vinga S.

BMC Bioinformatics. 2009 Mar 31;10:100. doi: 10.1186/1471-2105-10-100.

4.

Information theory applications for biological sequence analysis.

Vinga S.

Brief Bioinform. 2014 May;15(3):376-89. doi: 10.1093/bib/bbt068. Epub 2013 Sep 20. Review.

PMID:
24058049
5.

New developments of alignment-free sequence comparison: measures, statistics and next-generation sequencing.

Song K, Ren J, Reinert G, Deng M, Waterman MS, Sun F.

Brief Bioinform. 2014 May;15(3):343-53. doi: 10.1093/bib/bbt067. Epub 2013 Sep 23. Review.

6.

Is multiple-sequence alignment required for accurate inference of phylogeny?

Höhl M, Ragan MA.

Syst Biol. 2007 Apr;56(2):206-21.

PMID:
17454975
7.

[Alignment-free biomolecular sequence comparison method].

Fu W, Wang Y, Lu D.

Sheng Wu Yi Xue Gong Cheng Xue Za Zhi. 2005 Jun;22(3):598-601, 605. Review. Chinese.

PMID:
16013268
8.

Universal sequence map (USM) of arbitrary discrete sequences.

Almeida JS, Vinga S.

BMC Bioinformatics. 2002;3:6. Epub 2002 Feb 5.

9.

Efficient Boolean implementation of universal sequence maps (bUSM).

Schwacke J, Almeida JS.

BMC Bioinformatics. 2002 Oct 21;3:28.

10.

Local decoding of sequences and alignment-free comparison.

Didier G, Laprevotte I, Pupin M, Hénaut A.

J Comput Biol. 2006 Oct;13(8):1465-76.

PMID:
17061922
11.

Alignment-free sequence comparison-a review.

Vinga S, Almeida J.

Bioinformatics. 2003 Mar 1;19(4):513-23. Review.

PMID:
12611807
12.

Fractal MapReduce decomposition of sequence alignment.

Almeida JS, Grüneberg A, Maass W, Vinga S.

Algorithms Mol Biol. 2012 May 2;7(1):12. doi: 10.1186/1748-7188-7-12.

13.

Analysis of genomic sequences by Chaos Game Representation.

Almeida JS, Carriço JA, Maretzek A, Noble PA, Fletcher M.

Bioinformatics. 2001 May;17(5):429-37.

PMID:
11331237
14.

Computing distribution of scale independent motifs in biological sequences.

Almeida JS, Vinga S.

Algorithms Mol Biol. 2006 Oct 18;1:18.

15.

Advances in sequence analysis.

Califano A.

Curr Opin Struct Biol. 2001 Jun;11(3):330-3. Review.

PMID:
11406383
16.

Predicting DNA binding proteins using support vector machine with hybrid fractal features.

Niu XH, Hu XH, Shi F, Xia JB.

J Theor Biol. 2014 Feb 21;343:186-92. doi: 10.1016/j.jtbi.2013.10.009. Epub 2013 Nov 1.

PMID:
24189096
17.

Chaos game representation for comparison of whole genomes.

Joseph J, Sasikumar R.

BMC Bioinformatics. 2006 May 5;7:243.

18.

Linguistic approaches to biological sequences.

Searls DB.

Comput Appl Biosci. 1997 Aug;13(4):333-44. Review.

PMID:
9283748
19.

Editorial: Alignment-free methods in computational biology.

Vinga S.

Brief Bioinform. 2014 May;15(3):341-2. doi: 10.1093/bib/bbu005. No abstract available.

PMID:
24819825
20.

DIALIGN: finding local similarities by multiple sequence alignment.

Morgenstern B, Frech K, Dress A, Werner T.

Bioinformatics. 1998;14(3):290-4.

PMID:
9614273

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