Sequence alignment (English Wikipedia)

Analysis of information sources in references of the Wikipedia article "Sequence alignment" in English language version.

refsWebsite

Global rank English rank

53nih.gov

4^th place

40doi.org

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9semanticscholar.org

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8harvard.edu

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4web.archive.org

1^st place

4psu.edu

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2ebi.ac.uk

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2elsevier.com

610^th place

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2worldcat.org

5^th place

2arxiv.org

69^th place

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1samtools.github.io

low place

1la-press.com

low place

1archive.today

14^th place

1metapress.com

8,671^st place

7,934^th place

1cornell.edu

332^nd place

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1ualberta.ca

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1repec.org

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1virginia.edu

1,041^st place

733^rd place

13d-alignment.eu

low place

3d-alignment.eu

"Multiple sequence alignment: Strap". 3d-alignment.eu. Retrieved 12 June 2017.

archive.today

Agrawal A; Brendel VP; Huang X (2008). "Pairwise statistical significance and empirical determination of effective gap opening penalties for protein local sequence alignment". International Journal of Computational Biology and Drug Design. 1 (4): 347–367. doi:10.1504/IJCBDD.2008.022207. PMID 20063463. Archived from the original on 28 January 2013.

arxiv.org

Hartmann AK (2002). "Sampling rare events: statistics of local sequence alignments". Phys. Rev. E. 65 (5): 056102. arXiv:cond-mat/0108201. Bibcode:2002PhRvE..65e6102H. doi:10.1103/PhysRevE.65.056102. PMID 12059642. S2CID 193085.
Barzilay R; Lee L. (2002). "Bootstrapping lexical choice via multiple-sequence alignment" (PDF). Proceedings of the ACL-02 conference on Empirical methods in natural language processing - EMNLP '02. Vol. 10. pp. 164–171. arXiv:cs/0205065. Bibcode:2002cs........5065B. doi:10.3115/1118693.1118715. S2CID 7521453.

cornell.edu

cs.cornell.edu

Barzilay R; Lee L. (2002). "Bootstrapping lexical choice via multiple-sequence alignment" (PDF). Proceedings of the ACL-02 conference on Empirical methods in natural language processing - EMNLP '02. Vol. 10. pp. 164–171. arXiv:cs/0205065. Bibcode:2002cs........5065B. doi:10.3115/1118693.1118715. S2CID 7521453.

doi.org

Ng PC; Henikoff S (May 2001). "Predicting deleterious amino acid substitutions". Genome Res. 11 (5): 863–74. doi:10.1101/gr.176601. PMC 311071. PMID 11337480.
Polyanovsky, V. O.; Roytberg, M. A.; Tumanyan, V. G. (2011). "Comparative analysis of the quality of a global algorithm and a local algorithm for alignment of two sequences". Algorithms for Molecular Biology. 6 (1): 25. doi:10.1186/1748-7188-6-25. PMC 3223492. PMID 22032267. S2CID 2658261.
Schneider TD; Stephens RM (1990). "Sequence logos: a new way to display consensus sequences". Nucleic Acids Res. 18 (20): 6097–6100. doi:10.1093/nar/18.20.6097. PMC 332411. PMID 2172928.
Brudno M; Malde S; Poliakov A; Do CB; Couronne O; Dubchak I; Batzoglou S (2003). "Glocal alignment: finding rearrangements during alignment". Bioinformatics. 19. Suppl 1 (90001): i54–62. doi:10.1093/bioinformatics/btg1005. PMID 12855437.
Delcher, A. L.; Kasif, S.; Fleishmann, R.D.; Peterson, J.; White, O.; Salzberg, S.L. (1999). "Alignment of whole genomes". Nucleic Acids Research. 27 (11): 2369–2376. doi:10.1093/nar/30.11.2478. PMC 148804. PMID 10325427.
Gotoh, Osamu (15 December 1982). "An improved algorithm for matching biological sequences". Journal of Molecular Biology. 162 (3): 705–708. doi:10.1016/0022-2836(82)90398-9. ISSN 0022-2836. PMID 7166760.
Gotoh, Osamu (1 January 1999). "Multiple sequence alignment: Algorithms and applications". Advances in Biophysics. 36: 159–206. doi:10.1016/S0065-227X(99)80007-0. ISSN 0065-227X. PMID 10463075.
Wang L; Jiang T. (1994). "On the complexity of multiple sequence alignment". J Comput Biol. 1 (4): 337–48. CiteSeerX 10.1.1.408.894. doi:10.1089/cmb.1994.1.337. PMID 8790475.
Elias, Isaac (2006). "Settling the intractability of multiple alignment". J Comput Biol. 13 (7): 1323–1339. CiteSeerX 10.1.1.6.256. doi:10.1089/cmb.2006.13.1323. PMID 17037961.
Lipman DJ; Altschul SF; Kececioglu JD (1989). "A tool for multiple sequence alignment". Proc Natl Acad Sci USA. 86 (12): 4412–5. Bibcode:1989PNAS...86.4412L. doi:10.1073/pnas.86.12.4412. PMC 287279. PMID 2734293.
Higgins DG, Sharp PM (1988). "CLUSTAL: a package for performing multiple sequence alignment on a microcomputer". Gene. 73 (1): 237–44. doi:10.1016/0378-1119(88)90330-7. PMID 3243435.
Thompson JD; Higgins DG; Gibson TJ. (1994). "CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice". Nucleic Acids Res. 22 (22): 4673–80. doi:10.1093/nar/22.22.4673. PMC 308517. PMID 7984417.
Chenna R; Sugawara H; Koike T; Lopez R; Gibson TJ; Higgins DG; Thompson JD. (2003). "Multiple sequence alignment with the Clustal series of programs". Nucleic Acids Res. 31 (13): 3497–500. doi:10.1093/nar/gkg500. PMC 168907. PMID 12824352.
Notredame C; Higgins DG; Heringa J. (2000). "T-Coffee: A novel method for fast and accurate multiple sequence alignment". J Mol Biol. 302 (1): 205–17. doi:10.1006/jmbi.2000.4042. PMID 10964570. S2CID 10189971.
Hirosawa M; Totoki Y; Hoshida M; Ishikawa M. (1995). "Comprehensive study on iterative algorithms of multiple sequence alignment". Comput Appl Biosci. 11 (1): 13–8. doi:10.1093/bioinformatics/11.1.13. PMID 7796270.
Karplus K; Barrett C; Hughey R. (1998). "Hidden Markov models for detecting remote protein homologies". Bioinformatics. 14 (10): 846–856. CiteSeerX 10.1.1.57.2762. doi:10.1093/bioinformatics/14.10.846. PMID 9927713.
Chothia C; Lesk AM. (April 1986). "The relation between the divergence of sequence and structure in proteins". EMBO J. 5 (4): 823–6. doi:10.1002/j.1460-2075.1986.tb04288.x. PMC 1166865. PMID 3709526.
Zhang Y; Skolnick J. (2005). "The protein structure prediction problem could be solved using the current PDB library". Proc Natl Acad Sci USA. 102 (4): 1029–34. Bibcode:2005PNAS..102.1029Z. doi:10.1073/pnas.0407152101. PMC 545829. PMID 15653774.
Holm L; Sander C (1996). "Mapping the protein universe". Science. 273 (5275): 595–603. Bibcode:1996Sci...273..595H. doi:10.1126/science.273.5275.595. PMID 8662544. S2CID 7509134.
Taylor WR; Flores TP; Orengo CA. (1994). "Multiple protein structure alignment". Protein Sci. 3 (10): 1858–70. doi:10.1002/pro.5560031025. PMC 2142613. PMID 7849601.
Orengo CA; Michie AD; Jones S; Jones DT; Swindells MB; Thornton JM (1997). "CATH--a hierarchic classification of protein domain structures". Structure. 5 (8): 1093–108. doi:10.1016/S0969-2126(97)00260-8. PMID 9309224.
Shindyalov IN; Bourne PE. (1998). "Protein structure alignment by incremental combinatorial extension (CE) of the optimal path". Protein Eng. 11 (9): 739–47. doi:10.1093/protein/11.9.739. PMID 9796821.
Ortet P; Bastien O (2010). "Where Does the Alignment Score Distribution Shape Come from?". Evolutionary Bioinformatics. 6: 159–187. doi:10.4137/EBO.S5875. PMC 3023300. PMID 21258650.
Altschul SF; Gish W (1996). "Local alignment statistics". Computer Methods for Macromolecular Sequence Analysis. Methods in Enzymology. Vol. 266. pp. 460–480. doi:10.1016/S0076-6879(96)66029-7. ISBN 9780121821678. PMID 8743700.
Hartmann AK (2002). "Sampling rare events: statistics of local sequence alignments". Phys. Rev. E. 65 (5): 056102. arXiv:cond-mat/0108201. Bibcode:2002PhRvE..65e6102H. doi:10.1103/PhysRevE.65.056102. PMID 12059642. S2CID 193085.
Newberg LA (2008). "Significance of gapped sequence alignments". J Comput Biol. 15 (9): 1187–1194. doi:10.1089/cmb.2008.0125. PMC 2737730. PMID 18973434.
Eddy SR; Rost, Burkhard (2008). Rost, Burkhard (ed.). "A probabilistic model of local sequence alignment that simplifies statistical significance estimation". PLOS Comput Biol. 4 (5): e1000069. Bibcode:2008PLSCB...4E0069E. doi:10.1371/journal.pcbi.1000069. PMC 2396288. PMID 18516236. S2CID 15640896.
Bastien O; Aude JC; Roy S; Marechal E (2004). "Fundamentals of massive automatic pairwise alignments of protein sequences: theoretical significance of Z-value statistics". Bioinformatics. 20 (4): 534–537. CiteSeerX 10.1.1.602.6979. doi:10.1093/bioinformatics/btg440. PMID 14990449.
Agrawal A; Huang X (2011). "Pairwise Statistical Significance of Local Sequence Alignment Using Sequence-Specific and Position-Specific Substitution Matrices". IEEE/ACM Transactions on Computational Biology and Bioinformatics. 8 (1): 194–205. doi:10.1109/TCBB.2009.69. PMID 21071807. S2CID 6559731.
Agrawal A; Brendel VP; Huang X (2008). "Pairwise statistical significance and empirical determination of effective gap opening penalties for protein local sequence alignment". International Journal of Computational Biology and Drug Design. 1 (4): 347–367. doi:10.1504/IJCBDD.2008.022207. PMID 20063463. Archived from the original on 28 January 2013.
Newberg LA; Lawrence CE (2009). "Exact Calculation of Distributions on Integers, with Application to Sequence Alignment". J Comput Biol. 16 (1): 1–18. doi:10.1089/cmb.2008.0137. PMC 2858568. PMID 19119992.
Kim N; Lee C (2008). "Bioinformatics Detection of Alternative Splicing". Bioinformatics. Methods in Molecular Biology. Vol. 452. pp. 179–97. doi:10.1007/978-1-60327-159-2_9. ISBN 978-1-58829-707-5. PMID 18566765.
Li JB, Levanon EY, Yoon JK, et al. (May 2009). "Genome-wide identification of human RNA editing sites by parallel DNA capturing and sequencing". Science. 324 (5931): 1210–3. Bibcode:2009Sci...324.1210L. doi:10.1126/science.1170995. PMID 19478186. S2CID 31148824.
Blazewicz J, Bryja M, Figlerowicz M, et al. (June 2009). "Whole genome assembly from 454 sequencing output via modified DNA graph concept". Comput Biol Chem. 33 (3): 224–30. doi:10.1016/j.compbiolchem.2009.04.005. PMID 19477687.
Duran C; Appleby N; Vardy M; Imelfort M; Edwards D; Batley J (May 2009). "Single nucleotide polymorphism discovery in barley using autoSNPdb". Plant Biotechnol. J. 7 (4): 326–33. Bibcode:2009PBioJ...7..326D. doi:10.1111/j.1467-7652.2009.00407.x. PMID 19386041.
Abbott A.; Tsay A. (2000). "Sequence Analysis and Optimal Matching Methods in Sociology, Review and Prospect". Sociological Methods and Research. 29 (1): 3–33. doi:10.1177/0049124100029001001. S2CID 121097811.
Barzilay R; Lee L. (2002). "Bootstrapping lexical choice via multiple-sequence alignment" (PDF). Proceedings of the ACL-02 conference on Empirical methods in natural language processing - EMNLP '02. Vol. 10. pp. 164–171. arXiv:cs/0205065. Bibcode:2002cs........5065B. doi:10.3115/1118693.1118715. S2CID 7521453.
Prinzie A.; D. Van den Poel (2006). "Incorporating sequential information into traditional classification models by using an element/position-sensitive SAM". Decision Support Systems. 42 (2): 508–526. doi:10.1016/j.dss.2005.02.004. See also Prinzie and Van den Poel's paper Prinzie, A; Vandenpoel, D (2007). "Predicting home-appliance acquisition sequences: Markov/Markov for Discrimination and survival analysis for modeling sequential information in NPTB models". Decision Support Systems. 44 (1): 28–45. doi:10.1016/j.dss.2007.02.008.
Thompson JD; Plewniak F; Poch O (1999). "BAliBASE: a benchmark alignment database for the evaluation of multiple alignment programs". Bioinformatics. 15 (1): 87–8. doi:10.1093/bioinformatics/15.1.87. PMID 10068696.
Thompson JD; Plewniak F; Poch O. (1999). "A comprehensive comparison of multiple sequence alignment programs". Nucleic Acids Res. 27 (13): 2682–90. doi:10.1093/nar/27.13.2682. PMC 148477. PMID 10373585.

ebi.ac.uk

"Clustal FAQ #Symbols". Clustal. Archived from the original on 24 October 2016. Retrieved 8 December 2014.
EMBL-EBI. "ClustalW2 < Multiple Sequence Alignment < EMBL-EBI". www.EBI.ac.uk. Retrieved 12 June 2017.

elsevier.com

linkinghub.elsevier.com

Gotoh, Osamu (15 December 1982). "An improved algorithm for matching biological sequences". Journal of Molecular Biology. 162 (3): 705–708. doi:10.1016/0022-2836(82)90398-9. ISSN 0022-2836. PMID 7166760.
Gotoh, Osamu (1 January 1999). "Multiple sequence alignment: Algorithms and applications". Advances in Biophysics. 36: 159–206. doi:10.1016/S0065-227X(99)80007-0. ISSN 0065-227X. PMID 10463075.

harvard.edu

ui.adsabs.harvard.edu

Lipman DJ; Altschul SF; Kececioglu JD (1989). "A tool for multiple sequence alignment". Proc Natl Acad Sci USA. 86 (12): 4412–5. Bibcode:1989PNAS...86.4412L. doi:10.1073/pnas.86.12.4412. PMC 287279. PMID 2734293.
Zhang Y; Skolnick J. (2005). "The protein structure prediction problem could be solved using the current PDB library". Proc Natl Acad Sci USA. 102 (4): 1029–34. Bibcode:2005PNAS..102.1029Z. doi:10.1073/pnas.0407152101. PMC 545829. PMID 15653774.
Holm L; Sander C (1996). "Mapping the protein universe". Science. 273 (5275): 595–603. Bibcode:1996Sci...273..595H. doi:10.1126/science.273.5275.595. PMID 8662544. S2CID 7509134.
Hartmann AK (2002). "Sampling rare events: statistics of local sequence alignments". Phys. Rev. E. 65 (5): 056102. arXiv:cond-mat/0108201. Bibcode:2002PhRvE..65e6102H. doi:10.1103/PhysRevE.65.056102. PMID 12059642. S2CID 193085.
Eddy SR; Rost, Burkhard (2008). Rost, Burkhard (ed.). "A probabilistic model of local sequence alignment that simplifies statistical significance estimation". PLOS Comput Biol. 4 (5): e1000069. Bibcode:2008PLSCB...4E0069E. doi:10.1371/journal.pcbi.1000069. PMC 2396288. PMID 18516236. S2CID 15640896.
Li JB, Levanon EY, Yoon JK, et al. (May 2009). "Genome-wide identification of human RNA editing sites by parallel DNA capturing and sequencing". Science. 324 (5931): 1210–3. Bibcode:2009Sci...324.1210L. doi:10.1126/science.1170995. PMID 19478186. S2CID 31148824.
Duran C; Appleby N; Vardy M; Imelfort M; Edwards D; Batley J (May 2009). "Single nucleotide polymorphism discovery in barley using autoSNPdb". Plant Biotechnol. J. 7 (4): 326–33. Bibcode:2009PBioJ...7..326D. doi:10.1111/j.1467-7652.2009.00407.x. PMID 19386041.
Barzilay R; Lee L. (2002). "Bootstrapping lexical choice via multiple-sequence alignment" (PDF). Proceedings of the ACL-02 conference on Empirical methods in natural language processing - EMNLP '02. Vol. 10. pp. 164–171. arXiv:cs/0205065. Bibcode:2002cs........5065B. doi:10.3115/1118693.1118715. S2CID 7521453.

la-press.com

Ortet P; Bastien O (2010). "Where Does the Alignment Score Distribution Shape Come from?". Evolutionary Bioinformatics. 6: 159–187. doi:10.4137/EBO.S5875. PMC 3023300. PMID 21258650.

metapress.com

inderscience.metapress.com

Agrawal A; Brendel VP; Huang X (2008). "Pairwise statistical significance and empirical determination of effective gap opening penalties for protein local sequence alignment". International Journal of Computational Biology and Drug Design. 1 (4): 347–367. doi:10.1504/IJCBDD.2008.022207. PMID 20063463. Archived from the original on 28 January 2013.

nih.gov

pubmed.ncbi.nlm.nih.gov

Ng PC; Henikoff S (May 2001). "Predicting deleterious amino acid substitutions". Genome Res. 11 (5): 863–74. doi:10.1101/gr.176601. PMC 311071. PMID 11337480.
Polyanovsky, V. O.; Roytberg, M. A.; Tumanyan, V. G. (2011). "Comparative analysis of the quality of a global algorithm and a local algorithm for alignment of two sequences". Algorithms for Molecular Biology. 6 (1): 25. doi:10.1186/1748-7188-6-25. PMC 3223492. PMID 22032267. S2CID 2658261.
Schneider TD; Stephens RM (1990). "Sequence logos: a new way to display consensus sequences". Nucleic Acids Res. 18 (20): 6097–6100. doi:10.1093/nar/18.20.6097. PMC 332411. PMID 2172928.
Brudno M; Malde S; Poliakov A; Do CB; Couronne O; Dubchak I; Batzoglou S (2003). "Glocal alignment: finding rearrangements during alignment". Bioinformatics. 19. Suppl 1 (90001): i54–62. doi:10.1093/bioinformatics/btg1005. PMID 12855437.
Delcher, A. L.; Kasif, S.; Fleishmann, R.D.; Peterson, J.; White, O.; Salzberg, S.L. (1999). "Alignment of whole genomes". Nucleic Acids Research. 27 (11): 2369–2376. doi:10.1093/nar/30.11.2478. PMC 148804. PMID 10325427.
Gotoh, Osamu (15 December 1982). "An improved algorithm for matching biological sequences". Journal of Molecular Biology. 162 (3): 705–708. doi:10.1016/0022-2836(82)90398-9. ISSN 0022-2836. PMID 7166760.
Gotoh, Osamu (1 January 1999). "Multiple sequence alignment: Algorithms and applications". Advances in Biophysics. 36: 159–206. doi:10.1016/S0065-227X(99)80007-0. ISSN 0065-227X. PMID 10463075.
Wang L; Jiang T. (1994). "On the complexity of multiple sequence alignment". J Comput Biol. 1 (4): 337–48. CiteSeerX 10.1.1.408.894. doi:10.1089/cmb.1994.1.337. PMID 8790475.
Elias, Isaac (2006). "Settling the intractability of multiple alignment". J Comput Biol. 13 (7): 1323–1339. CiteSeerX 10.1.1.6.256. doi:10.1089/cmb.2006.13.1323. PMID 17037961.
Lipman DJ; Altschul SF; Kececioglu JD (1989). "A tool for multiple sequence alignment". Proc Natl Acad Sci USA. 86 (12): 4412–5. Bibcode:1989PNAS...86.4412L. doi:10.1073/pnas.86.12.4412. PMC 287279. PMID 2734293.
Higgins DG, Sharp PM (1988). "CLUSTAL: a package for performing multiple sequence alignment on a microcomputer". Gene. 73 (1): 237–44. doi:10.1016/0378-1119(88)90330-7. PMID 3243435.
Thompson JD; Higgins DG; Gibson TJ. (1994). "CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice". Nucleic Acids Res. 22 (22): 4673–80. doi:10.1093/nar/22.22.4673. PMC 308517. PMID 7984417.
Chenna R; Sugawara H; Koike T; Lopez R; Gibson TJ; Higgins DG; Thompson JD. (2003). "Multiple sequence alignment with the Clustal series of programs". Nucleic Acids Res. 31 (13): 3497–500. doi:10.1093/nar/gkg500. PMC 168907. PMID 12824352.
Notredame C; Higgins DG; Heringa J. (2000). "T-Coffee: A novel method for fast and accurate multiple sequence alignment". J Mol Biol. 302 (1): 205–17. doi:10.1006/jmbi.2000.4042. PMID 10964570. S2CID 10189971.
Hirosawa M; Totoki Y; Hoshida M; Ishikawa M. (1995). "Comprehensive study on iterative algorithms of multiple sequence alignment". Comput Appl Biosci. 11 (1): 13–8. doi:10.1093/bioinformatics/11.1.13. PMID 7796270.
Karplus K; Barrett C; Hughey R. (1998). "Hidden Markov models for detecting remote protein homologies". Bioinformatics. 14 (10): 846–856. CiteSeerX 10.1.1.57.2762. doi:10.1093/bioinformatics/14.10.846. PMID 9927713.
Chothia C; Lesk AM. (April 1986). "The relation between the divergence of sequence and structure in proteins". EMBO J. 5 (4): 823–6. doi:10.1002/j.1460-2075.1986.tb04288.x. PMC 1166865. PMID 3709526.
Zhang Y; Skolnick J. (2005). "The protein structure prediction problem could be solved using the current PDB library". Proc Natl Acad Sci USA. 102 (4): 1029–34. Bibcode:2005PNAS..102.1029Z. doi:10.1073/pnas.0407152101. PMC 545829. PMID 15653774.
Holm L; Sander C (1996). "Mapping the protein universe". Science. 273 (5275): 595–603. Bibcode:1996Sci...273..595H. doi:10.1126/science.273.5275.595. PMID 8662544. S2CID 7509134.
Taylor WR; Flores TP; Orengo CA. (1994). "Multiple protein structure alignment". Protein Sci. 3 (10): 1858–70. doi:10.1002/pro.5560031025. PMC 2142613. PMID 7849601.
Orengo CA; Michie AD; Jones S; Jones DT; Swindells MB; Thornton JM (1997). "CATH--a hierarchic classification of protein domain structures". Structure. 5 (8): 1093–108. doi:10.1016/S0969-2126(97)00260-8. PMID 9309224.
Shindyalov IN; Bourne PE. (1998). "Protein structure alignment by incremental combinatorial extension (CE) of the optimal path". Protein Eng. 11 (9): 739–47. doi:10.1093/protein/11.9.739. PMID 9796821.
Ortet P; Bastien O (2010). "Where Does the Alignment Score Distribution Shape Come from?". Evolutionary Bioinformatics. 6: 159–187. doi:10.4137/EBO.S5875. PMC 3023300. PMID 21258650.
Altschul SF; Gish W (1996). "Local alignment statistics". Computer Methods for Macromolecular Sequence Analysis. Methods in Enzymology. Vol. 266. pp. 460–480. doi:10.1016/S0076-6879(96)66029-7. ISBN 9780121821678. PMID 8743700.
Hartmann AK (2002). "Sampling rare events: statistics of local sequence alignments". Phys. Rev. E. 65 (5): 056102. arXiv:cond-mat/0108201. Bibcode:2002PhRvE..65e6102H. doi:10.1103/PhysRevE.65.056102. PMID 12059642. S2CID 193085.
Newberg LA (2008). "Significance of gapped sequence alignments". J Comput Biol. 15 (9): 1187–1194. doi:10.1089/cmb.2008.0125. PMC 2737730. PMID 18973434.
Eddy SR; Rost, Burkhard (2008). Rost, Burkhard (ed.). "A probabilistic model of local sequence alignment that simplifies statistical significance estimation". PLOS Comput Biol. 4 (5): e1000069. Bibcode:2008PLSCB...4E0069E. doi:10.1371/journal.pcbi.1000069. PMC 2396288. PMID 18516236. S2CID 15640896.
Bastien O; Aude JC; Roy S; Marechal E (2004). "Fundamentals of massive automatic pairwise alignments of protein sequences: theoretical significance of Z-value statistics". Bioinformatics. 20 (4): 534–537. CiteSeerX 10.1.1.602.6979. doi:10.1093/bioinformatics/btg440. PMID 14990449.
Agrawal A; Huang X (2011). "Pairwise Statistical Significance of Local Sequence Alignment Using Sequence-Specific and Position-Specific Substitution Matrices". IEEE/ACM Transactions on Computational Biology and Bioinformatics. 8 (1): 194–205. doi:10.1109/TCBB.2009.69. PMID 21071807. S2CID 6559731.
Agrawal A; Brendel VP; Huang X (2008). "Pairwise statistical significance and empirical determination of effective gap opening penalties for protein local sequence alignment". International Journal of Computational Biology and Drug Design. 1 (4): 347–367. doi:10.1504/IJCBDD.2008.022207. PMID 20063463. Archived from the original on 28 January 2013.
Newberg LA; Lawrence CE (2009). "Exact Calculation of Distributions on Integers, with Application to Sequence Alignment". J Comput Biol. 16 (1): 1–18. doi:10.1089/cmb.2008.0137. PMC 2858568. PMID 19119992.
Kim N; Lee C (2008). "Bioinformatics Detection of Alternative Splicing". Bioinformatics. Methods in Molecular Biology. Vol. 452. pp. 179–97. doi:10.1007/978-1-60327-159-2_9. ISBN 978-1-58829-707-5. PMID 18566765.
Li JB, Levanon EY, Yoon JK, et al. (May 2009). "Genome-wide identification of human RNA editing sites by parallel DNA capturing and sequencing". Science. 324 (5931): 1210–3. Bibcode:2009Sci...324.1210L. doi:10.1126/science.1170995. PMID 19478186. S2CID 31148824.
Blazewicz J, Bryja M, Figlerowicz M, et al. (June 2009). "Whole genome assembly from 454 sequencing output via modified DNA graph concept". Comput Biol Chem. 33 (3): 224–30. doi:10.1016/j.compbiolchem.2009.04.005. PMID 19477687.
Duran C; Appleby N; Vardy M; Imelfort M; Edwards D; Batley J (May 2009). "Single nucleotide polymorphism discovery in barley using autoSNPdb". Plant Biotechnol. J. 7 (4): 326–33. Bibcode:2009PBioJ...7..326D. doi:10.1111/j.1467-7652.2009.00407.x. PMID 19386041.
Thompson JD; Plewniak F; Poch O (1999). "BAliBASE: a benchmark alignment database for the evaluation of multiple alignment programs". Bioinformatics. 15 (1): 87–8. doi:10.1093/bioinformatics/15.1.87. PMID 10068696.
Thompson JD; Plewniak F; Poch O. (1999). "A comprehensive comparison of multiple sequence alignment programs". Nucleic Acids Res. 27 (13): 2682–90. doi:10.1093/nar/27.13.2682. PMC 148477. PMID 10373585.

ncbi.nlm.nih.gov

Ng PC; Henikoff S (May 2001). "Predicting deleterious amino acid substitutions". Genome Res. 11 (5): 863–74. doi:10.1101/gr.176601. PMC 311071. PMID 11337480.
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