T-Coffee (English Wikipedia)

Analysis of information sources in references of the Wikipedia article "T-Coffee" in English language version.

refsWebsite

Global rank English rank

25nih.gov

4^th place

14doi.org

2^nd place

7worldcat.org

5^th place

2semanticscholar.org

11^th place

8^th place

1harvard.edu

18^th place

17^th place

1crg.eu

low place

1oxfordjournals.org

1,389^th place

2,996^th place

crg.eu

tcoffee.crg.eu

"T-Coffee Server". tcoffee.crg.eu. Retrieved 2023-12-26.

doi.org

Notredame C, Higgins DG, Heringa J (2000-09-08). "T-Coffee: A novel method for fast and accurate multiple sequence alignment". J Mol Biol. 302 (1): 205–217. doi:10.1006/jmbi.2000.4042. PMID 10964570. S2CID 10189971.{{cite journal}}: CS1 maint: multiple names: authors list (link)
Wallace, Iain M.; O'Sullivan, Orla; Higgins, Desmond G.; Notredame, Cedric (2006). "M-Coffee: combining multiple sequence alignment methods with T-Coffee". Nucleic Acids Research. 34 (6): 1692–1699. doi:10.1093/nar/gkl091. ISSN 1362-4962. PMC 1410914. PMID 16556910.
Armougom, Fabrice; Moretti, Sébastien; Poirot, Olivier; Audic, Stéphane; Dumas, Pierre; Schaeli, Basile; Keduas, Vladimir; Notredame, Cedric (2006-07-01). "Expresso: automatic incorporation of structural information in multiple sequence alignments using 3D-Coffee". Nucleic Acids Research. 34 (Web Server issue): W604–608. doi:10.1093/nar/gkl092. ISSN 1362-4962. PMC 1538866. PMID 16845081.
Zhang, Yang; Skolnick, Jeffrey (2005). "TM-align: a protein structure alignment algorithm based on the TM-score". Nucleic Acids Research. 33 (7): 2302–2309. doi:10.1093/nar/gki524. ISSN 1362-4962. PMC 1084323. PMID 15849316.
Konagurthu, Arun S.; Whisstock, James C.; Stuckey, Peter J.; Lesk, Arthur M. (2006-08-15). "MUSTANG: a multiple structural alignment algorithm". Proteins. 64 (3): 559–574. doi:10.1002/prot.20921. ISSN 1097-0134. PMID 16736488. S2CID 14074658.
Sun, Zheng; Tian, Weidong (2012). "SAP--a sequence mapping and analyzing program for long sequence reads alignment and accurate variants discovery". PLOS ONE. 7 (8): e42887. Bibcode:2012PLoSO...742887S. doi:10.1371/journal.pone.0042887. ISSN 1932-6203. PMC 3413671. PMID 22880129.
Wilm, Andreas; Higgins, Desmond G.; Notredame, Cédric (May 2008). "R-Coffee: a method for multiple alignment of non-coding RNA". Nucleic Acids Research. 36 (9): e52. doi:10.1093/nar/gkn174. ISSN 1362-4962. PMC 2396437. PMID 18420654.
Moretti, Sébastien; Wilm, Andreas; Higgins, Desmond G.; Xenarios, Ioannis; Notredame, Cédric (2008-07-01). "R-Coffee: a web server for accurately aligning noncoding RNA sequences". Nucleic Acids Research. 36 (Web Server issue): W10–13. doi:10.1093/nar/gkn278. ISSN 1362-4962. PMC 2447777. PMID 18483080.
Di Tommaso P, Moretti S, Xenarios I, Orobitg M, Montanyola A, Chang JM, Taly JF, Notredame C (Jul 2011). "T-Coffee: a web server for the multiple sequence alignment of protein and RNA sequences using structural information and homology extension". Nucleic Acids Res. 39 (Web Server issue): W13–7. doi:10.1093/nar/gkr245. PMC 3125728. PMID 21558174.
Kemena C, Notredame C (2009-10-01). "Upcoming challenges for multiple sequence alignment methods in the high-throughput era". Bioinformatics. 25 (19): 2455–65. doi:10.1093/bioinformatics/btp452. PMC 2752613. PMID 19648142.
Chang JM, Di Tommaso P, Taly JF, Notredame C (2012-03-28). "Accurate multiple sequence alignment of transmembrane proteins with PSI-Coffee". BMC Bioinformatics. 13: S1. doi:10.1186/1471-2105-13-S4-S1. PMC 3303701. PMID 22536955.
Erb I, González-Vallinas JR, Bussotti G, Blanco E, Eyras E, Notredame C (Apr 2012). "Use of ChIP-Seq data for the design of a multiple promoter-alignment method". Nucleic Acids Res. 40 (7): e52. doi:10.1093/nar/gkr1292. PMC 3326335. PMID 22230796.
Chang, JM; Di Tommaso, P; Lefort, V; Gascuel, O; Notredame, C (1 July 2015). "TCS: a web server for multiple sequence alignment evaluation and phylogenetic reconstruction". Nucleic Acids Research. 43 (W1): W3-6. doi:10.1093/nar/gkv310. PMC 4489230. PMID 25855806.
Chang, J.M.; Di Tommaso, P.; Notredame, C. (Jun 2014). "TCS: A New Multiple Sequence Alignment Reliability Measure to Estimate Alignment Accuracy and Improve Phylogenetic Tree Reconstruction". Molecular Biology and Evolution. 31 (6): 1625–37. doi:10.1093/molbev/msu117. PMID 24694831.

harvard.edu

ui.adsabs.harvard.edu

Sun, Zheng; Tian, Weidong (2012). "SAP--a sequence mapping and analyzing program for long sequence reads alignment and accurate variants discovery". PLOS ONE. 7 (8): e42887. Bibcode:2012PLoSO...742887S. doi:10.1371/journal.pone.0042887. ISSN 1932-6203. PMC 3413671. PMID 22880129.

nih.gov

pubmed.ncbi.nlm.nih.gov

Notredame C, Higgins DG, Heringa J (2000-09-08). "T-Coffee: A novel method for fast and accurate multiple sequence alignment". J Mol Biol. 302 (1): 205–217. doi:10.1006/jmbi.2000.4042. PMID 10964570. S2CID 10189971.{{cite journal}}: CS1 maint: multiple names: authors list (link)
Wallace, Iain M.; O'Sullivan, Orla; Higgins, Desmond G.; Notredame, Cedric (2006). "M-Coffee: combining multiple sequence alignment methods with T-Coffee". Nucleic Acids Research. 34 (6): 1692–1699. doi:10.1093/nar/gkl091. ISSN 1362-4962. PMC 1410914. PMID 16556910.
Armougom, Fabrice; Moretti, Sébastien; Poirot, Olivier; Audic, Stéphane; Dumas, Pierre; Schaeli, Basile; Keduas, Vladimir; Notredame, Cedric (2006-07-01). "Expresso: automatic incorporation of structural information in multiple sequence alignments using 3D-Coffee". Nucleic Acids Research. 34 (Web Server issue): W604–608. doi:10.1093/nar/gkl092. ISSN 1362-4962. PMC 1538866. PMID 16845081.
Zhang, Yang; Skolnick, Jeffrey (2005). "TM-align: a protein structure alignment algorithm based on the TM-score". Nucleic Acids Research. 33 (7): 2302–2309. doi:10.1093/nar/gki524. ISSN 1362-4962. PMC 1084323. PMID 15849316.
Konagurthu, Arun S.; Whisstock, James C.; Stuckey, Peter J.; Lesk, Arthur M. (2006-08-15). "MUSTANG: a multiple structural alignment algorithm". Proteins. 64 (3): 559–574. doi:10.1002/prot.20921. ISSN 1097-0134. PMID 16736488. S2CID 14074658.
Sun, Zheng; Tian, Weidong (2012). "SAP--a sequence mapping and analyzing program for long sequence reads alignment and accurate variants discovery". PLOS ONE. 7 (8): e42887. Bibcode:2012PLoSO...742887S. doi:10.1371/journal.pone.0042887. ISSN 1932-6203. PMC 3413671. PMID 22880129.
Wilm, Andreas; Higgins, Desmond G.; Notredame, Cédric (May 2008). "R-Coffee: a method for multiple alignment of non-coding RNA". Nucleic Acids Research. 36 (9): e52. doi:10.1093/nar/gkn174. ISSN 1362-4962. PMC 2396437. PMID 18420654.
Moretti, Sébastien; Wilm, Andreas; Higgins, Desmond G.; Xenarios, Ioannis; Notredame, Cédric (2008-07-01). "R-Coffee: a web server for accurately aligning noncoding RNA sequences". Nucleic Acids Research. 36 (Web Server issue): W10–13. doi:10.1093/nar/gkn278. ISSN 1362-4962. PMC 2447777. PMID 18483080.
Di Tommaso P, Moretti S, Xenarios I, Orobitg M, Montanyola A, Chang JM, Taly JF, Notredame C (Jul 2011). "T-Coffee: a web server for the multiple sequence alignment of protein and RNA sequences using structural information and homology extension". Nucleic Acids Res. 39 (Web Server issue): W13–7. doi:10.1093/nar/gkr245. PMC 3125728. PMID 21558174.
Kemena C, Notredame C (2009-10-01). "Upcoming challenges for multiple sequence alignment methods in the high-throughput era". Bioinformatics. 25 (19): 2455–65. doi:10.1093/bioinformatics/btp452. PMC 2752613. PMID 19648142.
Chang JM, Di Tommaso P, Taly JF, Notredame C (2012-03-28). "Accurate multiple sequence alignment of transmembrane proteins with PSI-Coffee". BMC Bioinformatics. 13: S1. doi:10.1186/1471-2105-13-S4-S1. PMC 3303701. PMID 22536955.
Erb I, González-Vallinas JR, Bussotti G, Blanco E, Eyras E, Notredame C (Apr 2012). "Use of ChIP-Seq data for the design of a multiple promoter-alignment method". Nucleic Acids Res. 40 (7): e52. doi:10.1093/nar/gkr1292. PMC 3326335. PMID 22230796.
Chang, JM; Di Tommaso, P; Lefort, V; Gascuel, O; Notredame, C (1 July 2015). "TCS: a web server for multiple sequence alignment evaluation and phylogenetic reconstruction". Nucleic Acids Research. 43 (W1): W3-6. doi:10.1093/nar/gkv310. PMC 4489230. PMID 25855806.
Chang, J.M.; Di Tommaso, P.; Notredame, C. (Jun 2014). "TCS: A New Multiple Sequence Alignment Reliability Measure to Estimate Alignment Accuracy and Improve Phylogenetic Tree Reconstruction". Molecular Biology and Evolution. 31 (6): 1625–37. doi:10.1093/molbev/msu117. PMID 24694831.

ncbi.nlm.nih.gov

Wallace, Iain M.; O'Sullivan, Orla; Higgins, Desmond G.; Notredame, Cedric (2006). "M-Coffee: combining multiple sequence alignment methods with T-Coffee". Nucleic Acids Research. 34 (6): 1692–1699. doi:10.1093/nar/gkl091. ISSN 1362-4962. PMC 1410914. PMID 16556910.
Armougom, Fabrice; Moretti, Sébastien; Poirot, Olivier; Audic, Stéphane; Dumas, Pierre; Schaeli, Basile; Keduas, Vladimir; Notredame, Cedric (2006-07-01). "Expresso: automatic incorporation of structural information in multiple sequence alignments using 3D-Coffee". Nucleic Acids Research. 34 (Web Server issue): W604–608. doi:10.1093/nar/gkl092. ISSN 1362-4962. PMC 1538866. PMID 16845081.
Zhang, Yang; Skolnick, Jeffrey (2005). "TM-align: a protein structure alignment algorithm based on the TM-score". Nucleic Acids Research. 33 (7): 2302–2309. doi:10.1093/nar/gki524. ISSN 1362-4962. PMC 1084323. PMID 15849316.
Sun, Zheng; Tian, Weidong (2012). "SAP--a sequence mapping and analyzing program for long sequence reads alignment and accurate variants discovery". PLOS ONE. 7 (8): e42887. Bibcode:2012PLoSO...742887S. doi:10.1371/journal.pone.0042887. ISSN 1932-6203. PMC 3413671. PMID 22880129.
Wilm, Andreas; Higgins, Desmond G.; Notredame, Cédric (May 2008). "R-Coffee: a method for multiple alignment of non-coding RNA". Nucleic Acids Research. 36 (9): e52. doi:10.1093/nar/gkn174. ISSN 1362-4962. PMC 2396437. PMID 18420654.
Moretti, Sébastien; Wilm, Andreas; Higgins, Desmond G.; Xenarios, Ioannis; Notredame, Cédric (2008-07-01). "R-Coffee: a web server for accurately aligning noncoding RNA sequences". Nucleic Acids Research. 36 (Web Server issue): W10–13. doi:10.1093/nar/gkn278. ISSN 1362-4962. PMC 2447777. PMID 18483080.
Di Tommaso P, Moretti S, Xenarios I, Orobitg M, Montanyola A, Chang JM, Taly JF, Notredame C (Jul 2011). "T-Coffee: a web server for the multiple sequence alignment of protein and RNA sequences using structural information and homology extension". Nucleic Acids Res. 39 (Web Server issue): W13–7. doi:10.1093/nar/gkr245. PMC 3125728. PMID 21558174.
Kemena C, Notredame C (2009-10-01). "Upcoming challenges for multiple sequence alignment methods in the high-throughput era". Bioinformatics. 25 (19): 2455–65. doi:10.1093/bioinformatics/btp452. PMC 2752613. PMID 19648142.
Chang JM, Di Tommaso P, Taly JF, Notredame C (2012-03-28). "Accurate multiple sequence alignment of transmembrane proteins with PSI-Coffee". BMC Bioinformatics. 13: S1. doi:10.1186/1471-2105-13-S4-S1. PMC 3303701. PMID 22536955.
Erb I, González-Vallinas JR, Bussotti G, Blanco E, Eyras E, Notredame C (Apr 2012). "Use of ChIP-Seq data for the design of a multiple promoter-alignment method". Nucleic Acids Res. 40 (7): e52. doi:10.1093/nar/gkr1292. PMC 3326335. PMID 22230796.
Chang, JM; Di Tommaso, P; Lefort, V; Gascuel, O; Notredame, C (1 July 2015). "TCS: a web server for multiple sequence alignment evaluation and phylogenetic reconstruction". Nucleic Acids Research. 43 (W1): W3-6. doi:10.1093/nar/gkv310. PMC 4489230. PMID 25855806.

oxfordjournals.org

mbe.oxfordjournals.org

Chang, J.M.; Di Tommaso, P.; Notredame, C. (Jun 2014). "TCS: A New Multiple Sequence Alignment Reliability Measure to Estimate Alignment Accuracy and Improve Phylogenetic Tree Reconstruction". Molecular Biology and Evolution. 31 (6): 1625–37. doi:10.1093/molbev/msu117. PMID 24694831.

semanticscholar.org

api.semanticscholar.org

Notredame C, Higgins DG, Heringa J (2000-09-08). "T-Coffee: A novel method for fast and accurate multiple sequence alignment". J Mol Biol. 302 (1): 205–217. doi:10.1006/jmbi.2000.4042. PMID 10964570. S2CID 10189971.{{cite journal}}: CS1 maint: multiple names: authors list (link)
Konagurthu, Arun S.; Whisstock, James C.; Stuckey, Peter J.; Lesk, Arthur M. (2006-08-15). "MUSTANG: a multiple structural alignment algorithm". Proteins. 64 (3): 559–574. doi:10.1002/prot.20921. ISSN 1097-0134. PMID 16736488. S2CID 14074658.

worldcat.org

search.worldcat.org

Wallace, Iain M.; O'Sullivan, Orla; Higgins, Desmond G.; Notredame, Cedric (2006). "M-Coffee: combining multiple sequence alignment methods with T-Coffee". Nucleic Acids Research. 34 (6): 1692–1699. doi:10.1093/nar/gkl091. ISSN 1362-4962. PMC 1410914. PMID 16556910.
Armougom, Fabrice; Moretti, Sébastien; Poirot, Olivier; Audic, Stéphane; Dumas, Pierre; Schaeli, Basile; Keduas, Vladimir; Notredame, Cedric (2006-07-01). "Expresso: automatic incorporation of structural information in multiple sequence alignments using 3D-Coffee". Nucleic Acids Research. 34 (Web Server issue): W604–608. doi:10.1093/nar/gkl092. ISSN 1362-4962. PMC 1538866. PMID 16845081.
Zhang, Yang; Skolnick, Jeffrey (2005). "TM-align: a protein structure alignment algorithm based on the TM-score". Nucleic Acids Research. 33 (7): 2302–2309. doi:10.1093/nar/gki524. ISSN 1362-4962. PMC 1084323. PMID 15849316.
Konagurthu, Arun S.; Whisstock, James C.; Stuckey, Peter J.; Lesk, Arthur M. (2006-08-15). "MUSTANG: a multiple structural alignment algorithm". Proteins. 64 (3): 559–574. doi:10.1002/prot.20921. ISSN 1097-0134. PMID 16736488. S2CID 14074658.
Sun, Zheng; Tian, Weidong (2012). "SAP--a sequence mapping and analyzing program for long sequence reads alignment and accurate variants discovery". PLOS ONE. 7 (8): e42887. Bibcode:2012PLoSO...742887S. doi:10.1371/journal.pone.0042887. ISSN 1932-6203. PMC 3413671. PMID 22880129.
Wilm, Andreas; Higgins, Desmond G.; Notredame, Cédric (May 2008). "R-Coffee: a method for multiple alignment of non-coding RNA". Nucleic Acids Research. 36 (9): e52. doi:10.1093/nar/gkn174. ISSN 1362-4962. PMC 2396437. PMID 18420654.
Moretti, Sébastien; Wilm, Andreas; Higgins, Desmond G.; Xenarios, Ioannis; Notredame, Cédric (2008-07-01). "R-Coffee: a web server for accurately aligning noncoding RNA sequences". Nucleic Acids Research. 36 (Web Server issue): W10–13. doi:10.1093/nar/gkn278. ISSN 1362-4962. PMC 2447777. PMID 18483080.