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References to scientific publications

[1] Smith T.F. and Waterman M.S. (1981) Identification of common molecular sub-sequences. Journal of Molecular Biology, 147 (1) 195-197. PubMed.

[2] Gotoh O. (1982) An improved algorithm for matching biological sequences. Journal of Molecular Biology, 162 (3) 705-708. PubMed.

[3] Rognes T. and Seeberg E. (2000) Six-fold speed-up of Smith-Waterman sequence database searches using parallel processing on common microprocessors. Bioinformatics, 16 (8), 699-706. PubMed.

[4] Rognes T. (2001) ParAlign: a parallel sequence alignment algorithm for rapid and sensitive database searches. Nucleic Acids Research, 29 (7), 1647-1652. PubMed.

[5] Pearson W.R. and Lipman D.J. (1988) Improved tools for biological sequence comparison. Proceedings of the National Academy of Sciences, USA, 85, 2444-2448. PubMed.

[6] Altschul S.F., Gish W., Miller W., Myers E.W. and Lipman D.J. (1990) Basic local alignment search tool. Journal of Molecular Biology, 215, 403-410. PubMed.

[7] Henikoff S. and Henikoff J.G. (1992) Amino acid substitution matrices from protein blocks. Proceedings of the National Academy of Sciences, USA, 89, 10915-10919. PubMed. PubMed Central.

[8] Murzin A.G., Brenner S.E., Hubbard T. and Chothia C. (1995) SCOP: a structural classification of proteins database for the investigation of sequences and structures. Journal of Molecular Biology, 247, 536-540. PubMed.

[9] Altschul S.F., Madden T.L., Schaffer A.A., Zhang J., Zhang Z., Miller W. and Lipman D.J. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Research, 25, 3389-3402. PubMed.

[10] Brenner S.E., Chothia C. and Hubbard T.J. (1998) Assessing sequence comparison methods with reliable structurally identified distant evolutionary relationships. Proceedings of the National Academy of Sciences, USA., 95, 6073-6078. PubMed. PubMed Central.

[11] Pearson W.R. (1991) Searching protein sequence libraries: comparison of the sensitivity and selectivity of the Smith-Waterman and FASTA algorithms. Genomics, 11, 635-650. PubMed.

[12] Sæbø PE, Andersen SM, Myrseth J, Laerdahl JK, Rognes T (2005)
PARALIGN: rapid and sensitive sequence similarity searches powered by parallel computing technology. Nucleic Acids Research, 33 (Suppl 2), W535-W538. Abstract | Full text | PDF