Species-specific analysis of protein sequence motifs using mutual information

<p<Abstract</p< <p<Background</p< <p<Protein sequence motifs are by definition short fragments of conserved amino acids, often associated with a specific function. Accordingly protein sequence profiles derived from multiple sequence alignments provide an alternative des...
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Autor*in:	Weckwerth Wolfram [verfasserIn] Keshvari Nima [verfasserIn] Hummel Jan [verfasserIn] Selbig Joachim [verfasserIn]

Format:	E-Artikel
Sprache:	Englisch

Erschienen:	2005

Übergeordnetes Werk:	In: BMC Bioinformatics - BMC, 2003, 6(2005), 1, p 164
Übergeordnetes Werk:	volume:6 ; year:2005 ; number:1, p 164

Links:	Link aufrufen Link aufrufen Link aufrufen Journal toc

DOI / URN:	10.1186/1471-2105-6-164

Katalog-ID:	DOAJ037224387

Internformat


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912			\|a GBV_ILN_2006
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912			\|a GBV_ILN_4325
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author_variant	w w ww k n kn h j hj s j sj
matchkey_str	article:14712105:2005----::pceseiiaayiopoeneuneoissn
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callnumber-subject-code	R
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allfields	10.1186/1471-2105-6-164 doi (DE-627)DOAJ037224387 (DE-599)DOAJc78c82905d6443b683fc4012a6b7ef4f DE-627 ger DE-627 rakwb eng R858-859.7 QH301-705.5 Weckwerth Wolfram verfasserin aut Species-specific analysis of protein sequence motifs using mutual information 2005 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier <p<Abstract</p< <p<Background</p< <p<Protein sequence motifs are by definition short fragments of conserved amino acids, often associated with a specific function. Accordingly protein sequence profiles derived from multiple sequence alignments provide an alternative description of functional motifs characterizing families of related sequences. Such profiles conveniently reflect functional necessities by pointing out proximity at conserved sequence positions as well as depicting distances at variable positions. Discovering significant conservation characteristics within the variable positions of profiles mirrors group-specific and, in particular, evolutionary features of the underlying sequences.</p< <p<Results</p< <p<We describe the tool <b<<it<PRO</it<</b<<it<file analysis based on </it<<b<<it<M</it<</b<<it<utual </it<<b<<it<I</it<</b<<it<nformation </it<(PROMI) that enables comparative analysis of user-classified protein sequences. PROMI is implemented as a web service using Perl and R as well as other publicly available packages and tools on the server-side. On the client-side platform-independence is achieved by generally applied internet delivery standards. As one possible application analysis of the zinc finger C<sub<2</sub<H<sub<2</sub<-type protein domain is introduced to illustrate the functionality of the tool.</p< <p<Conclusion</p< <p<The web service PROMI should assist researchers to detect evolutionary correlations in protein profiles of defined biological sequences. It is available at <url<http://promi.mpimp-golm.mpg.de</url< where additional documentation can be found.</p< Computer applications to medicine. Medical informatics Biology (General) Keshvari Nima verfasserin aut Hummel Jan verfasserin aut Selbig Joachim verfasserin aut In BMC Bioinformatics BMC, 2003 6(2005), 1, p 164 (DE-627)326644814 (DE-600)2041484-5 14712105 nnns volume:6 year:2005 number:1, p 164 https://doi.org/10.1186/1471-2105-6-164 kostenfrei https://doaj.org/article/c78c82905d6443b683fc4012a6b7ef4f kostenfrei http://www.biomedcentral.com/1471-2105/6/164 kostenfrei https://doaj.org/toc/1471-2105 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 6 2005 1, p 164
spelling	10.1186/1471-2105-6-164 doi (DE-627)DOAJ037224387 (DE-599)DOAJc78c82905d6443b683fc4012a6b7ef4f DE-627 ger DE-627 rakwb eng R858-859.7 QH301-705.5 Weckwerth Wolfram verfasserin aut Species-specific analysis of protein sequence motifs using mutual information 2005 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier <p<Abstract</p< <p<Background</p< <p<Protein sequence motifs are by definition short fragments of conserved amino acids, often associated with a specific function. Accordingly protein sequence profiles derived from multiple sequence alignments provide an alternative description of functional motifs characterizing families of related sequences. Such profiles conveniently reflect functional necessities by pointing out proximity at conserved sequence positions as well as depicting distances at variable positions. Discovering significant conservation characteristics within the variable positions of profiles mirrors group-specific and, in particular, evolutionary features of the underlying sequences.</p< <p<Results</p< <p<We describe the tool <b<<it<PRO</it<</b<<it<file analysis based on </it<<b<<it<M</it<</b<<it<utual </it<<b<<it<I</it<</b<<it<nformation </it<(PROMI) that enables comparative analysis of user-classified protein sequences. PROMI is implemented as a web service using Perl and R as well as other publicly available packages and tools on the server-side. On the client-side platform-independence is achieved by generally applied internet delivery standards. As one possible application analysis of the zinc finger C<sub<2</sub<H<sub<2</sub<-type protein domain is introduced to illustrate the functionality of the tool.</p< <p<Conclusion</p< <p<The web service PROMI should assist researchers to detect evolutionary correlations in protein profiles of defined biological sequences. It is available at <url<http://promi.mpimp-golm.mpg.de</url< where additional documentation can be found.</p< Computer applications to medicine. Medical informatics Biology (General) Keshvari Nima verfasserin aut Hummel Jan verfasserin aut Selbig Joachim verfasserin aut In BMC Bioinformatics BMC, 2003 6(2005), 1, p 164 (DE-627)326644814 (DE-600)2041484-5 14712105 nnns volume:6 year:2005 number:1, p 164 https://doi.org/10.1186/1471-2105-6-164 kostenfrei https://doaj.org/article/c78c82905d6443b683fc4012a6b7ef4f kostenfrei http://www.biomedcentral.com/1471-2105/6/164 kostenfrei https://doaj.org/toc/1471-2105 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 6 2005 1, p 164
allfields_unstemmed	10.1186/1471-2105-6-164 doi (DE-627)DOAJ037224387 (DE-599)DOAJc78c82905d6443b683fc4012a6b7ef4f DE-627 ger DE-627 rakwb eng R858-859.7 QH301-705.5 Weckwerth Wolfram verfasserin aut Species-specific analysis of protein sequence motifs using mutual information 2005 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier <p<Abstract</p< <p<Background</p< <p<Protein sequence motifs are by definition short fragments of conserved amino acids, often associated with a specific function. Accordingly protein sequence profiles derived from multiple sequence alignments provide an alternative description of functional motifs characterizing families of related sequences. Such profiles conveniently reflect functional necessities by pointing out proximity at conserved sequence positions as well as depicting distances at variable positions. Discovering significant conservation characteristics within the variable positions of profiles mirrors group-specific and, in particular, evolutionary features of the underlying sequences.</p< <p<Results</p< <p<We describe the tool <b<<it<PRO</it<</b<<it<file analysis based on </it<<b<<it<M</it<</b<<it<utual </it<<b<<it<I</it<</b<<it<nformation </it<(PROMI) that enables comparative analysis of user-classified protein sequences. PROMI is implemented as a web service using Perl and R as well as other publicly available packages and tools on the server-side. On the client-side platform-independence is achieved by generally applied internet delivery standards. As one possible application analysis of the zinc finger C<sub<2</sub<H<sub<2</sub<-type protein domain is introduced to illustrate the functionality of the tool.</p< <p<Conclusion</p< <p<The web service PROMI should assist researchers to detect evolutionary correlations in protein profiles of defined biological sequences. It is available at <url<http://promi.mpimp-golm.mpg.de</url< where additional documentation can be found.</p< Computer applications to medicine. Medical informatics Biology (General) Keshvari Nima verfasserin aut Hummel Jan verfasserin aut Selbig Joachim verfasserin aut In BMC Bioinformatics BMC, 2003 6(2005), 1, p 164 (DE-627)326644814 (DE-600)2041484-5 14712105 nnns volume:6 year:2005 number:1, p 164 https://doi.org/10.1186/1471-2105-6-164 kostenfrei https://doaj.org/article/c78c82905d6443b683fc4012a6b7ef4f kostenfrei http://www.biomedcentral.com/1471-2105/6/164 kostenfrei https://doaj.org/toc/1471-2105 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 6 2005 1, p 164
allfieldsGer	10.1186/1471-2105-6-164 doi (DE-627)DOAJ037224387 (DE-599)DOAJc78c82905d6443b683fc4012a6b7ef4f DE-627 ger DE-627 rakwb eng R858-859.7 QH301-705.5 Weckwerth Wolfram verfasserin aut Species-specific analysis of protein sequence motifs using mutual information 2005 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier <p<Abstract</p< <p<Background</p< <p<Protein sequence motifs are by definition short fragments of conserved amino acids, often associated with a specific function. Accordingly protein sequence profiles derived from multiple sequence alignments provide an alternative description of functional motifs characterizing families of related sequences. Such profiles conveniently reflect functional necessities by pointing out proximity at conserved sequence positions as well as depicting distances at variable positions. Discovering significant conservation characteristics within the variable positions of profiles mirrors group-specific and, in particular, evolutionary features of the underlying sequences.</p< <p<Results</p< <p<We describe the tool <b<<it<PRO</it<</b<<it<file analysis based on </it<<b<<it<M</it<</b<<it<utual </it<<b<<it<I</it<</b<<it<nformation </it<(PROMI) that enables comparative analysis of user-classified protein sequences. PROMI is implemented as a web service using Perl and R as well as other publicly available packages and tools on the server-side. On the client-side platform-independence is achieved by generally applied internet delivery standards. As one possible application analysis of the zinc finger C<sub<2</sub<H<sub<2</sub<-type protein domain is introduced to illustrate the functionality of the tool.</p< <p<Conclusion</p< <p<The web service PROMI should assist researchers to detect evolutionary correlations in protein profiles of defined biological sequences. It is available at <url<http://promi.mpimp-golm.mpg.de</url< where additional documentation can be found.</p< Computer applications to medicine. Medical informatics Biology (General) Keshvari Nima verfasserin aut Hummel Jan verfasserin aut Selbig Joachim verfasserin aut In BMC Bioinformatics BMC, 2003 6(2005), 1, p 164 (DE-627)326644814 (DE-600)2041484-5 14712105 nnns volume:6 year:2005 number:1, p 164 https://doi.org/10.1186/1471-2105-6-164 kostenfrei https://doaj.org/article/c78c82905d6443b683fc4012a6b7ef4f kostenfrei http://www.biomedcentral.com/1471-2105/6/164 kostenfrei https://doaj.org/toc/1471-2105 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 6 2005 1, p 164
allfieldsSound	10.1186/1471-2105-6-164 doi (DE-627)DOAJ037224387 (DE-599)DOAJc78c82905d6443b683fc4012a6b7ef4f DE-627 ger DE-627 rakwb eng R858-859.7 QH301-705.5 Weckwerth Wolfram verfasserin aut Species-specific analysis of protein sequence motifs using mutual information 2005 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier <p<Abstract</p< <p<Background</p< <p<Protein sequence motifs are by definition short fragments of conserved amino acids, often associated with a specific function. Accordingly protein sequence profiles derived from multiple sequence alignments provide an alternative description of functional motifs characterizing families of related sequences. Such profiles conveniently reflect functional necessities by pointing out proximity at conserved sequence positions as well as depicting distances at variable positions. Discovering significant conservation characteristics within the variable positions of profiles mirrors group-specific and, in particular, evolutionary features of the underlying sequences.</p< <p<Results</p< <p<We describe the tool <b<<it<PRO</it<</b<<it<file analysis based on </it<<b<<it<M</it<</b<<it<utual </it<<b<<it<I</it<</b<<it<nformation </it<(PROMI) that enables comparative analysis of user-classified protein sequences. PROMI is implemented as a web service using Perl and R as well as other publicly available packages and tools on the server-side. On the client-side platform-independence is achieved by generally applied internet delivery standards. As one possible application analysis of the zinc finger C<sub<2</sub<H<sub<2</sub<-type protein domain is introduced to illustrate the functionality of the tool.</p< <p<Conclusion</p< <p<The web service PROMI should assist researchers to detect evolutionary correlations in protein profiles of defined biological sequences. It is available at <url<http://promi.mpimp-golm.mpg.de</url< where additional documentation can be found.</p< Computer applications to medicine. Medical informatics Biology (General) Keshvari Nima verfasserin aut Hummel Jan verfasserin aut Selbig Joachim verfasserin aut In BMC Bioinformatics BMC, 2003 6(2005), 1, p 164 (DE-627)326644814 (DE-600)2041484-5 14712105 nnns volume:6 year:2005 number:1, p 164 https://doi.org/10.1186/1471-2105-6-164 kostenfrei https://doaj.org/article/c78c82905d6443b683fc4012a6b7ef4f kostenfrei http://www.biomedcentral.com/1471-2105/6/164 kostenfrei https://doaj.org/toc/1471-2105 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 6 2005 1, p 164
language	English
source	In BMC Bioinformatics 6(2005), 1, p 164 volume:6 year:2005 number:1, p 164
sourceStr	In BMC Bioinformatics 6(2005), 1, p 164 volume:6 year:2005 number:1, p 164
format_phy_str_mv	Article
institution	findex.gbv.de
topic_facet	Computer applications to medicine. Medical informatics Biology (General)
isfreeaccess_bool	true
container_title	BMC Bioinformatics
authorswithroles_txt_mv	Weckwerth Wolfram @@aut@@ Keshvari Nima @@aut@@ Hummel Jan @@aut@@ Selbig Joachim @@aut@@
publishDateDaySort_date	2005-01-01T00:00:00Z
hierarchy_top_id	326644814
id	DOAJ037224387
language_de	englisch
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callnumber-first	R - Medicine
author	Weckwerth Wolfram
spellingShingle	Weckwerth Wolfram misc R858-859.7 misc QH301-705.5 misc Computer applications to medicine. Medical informatics misc Biology (General) Species-specific analysis of protein sequence motifs using mutual information
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topic_title	R858-859.7 QH301-705.5 Species-specific analysis of protein sequence motifs using mutual information
topic	misc R858-859.7 misc QH301-705.5 misc Computer applications to medicine. Medical informatics misc Biology (General)
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title	Species-specific analysis of protein sequence motifs using mutual information
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title_full	Species-specific analysis of protein sequence motifs using mutual information
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title_sort	species-specific analysis of protein sequence motifs using mutual information
callnumber	R858-859.7
title_auth	Species-specific analysis of protein sequence motifs using mutual information
abstract	<p<Abstract</p< <p<Background</p< <p<Protein sequence motifs are by definition short fragments of conserved amino acids, often associated with a specific function. Accordingly protein sequence profiles derived from multiple sequence alignments provide an alternative description of functional motifs characterizing families of related sequences. Such profiles conveniently reflect functional necessities by pointing out proximity at conserved sequence positions as well as depicting distances at variable positions. Discovering significant conservation characteristics within the variable positions of profiles mirrors group-specific and, in particular, evolutionary features of the underlying sequences.</p< <p<Results</p< <p<We describe the tool <b<<it<PRO</it<</b<<it<file analysis based on </it<<b<<it<M</it<</b<<it<utual </it<<b<<it<I</it<</b<<it<nformation </it<(PROMI) that enables comparative analysis of user-classified protein sequences. PROMI is implemented as a web service using Perl and R as well as other publicly available packages and tools on the server-side. On the client-side platform-independence is achieved by generally applied internet delivery standards. As one possible application analysis of the zinc finger C<sub<2</sub<H<sub<2</sub<-type protein domain is introduced to illustrate the functionality of the tool.</p< <p<Conclusion</p< <p<The web service PROMI should assist researchers to detect evolutionary correlations in protein profiles of defined biological sequences. It is available at <url<http://promi.mpimp-golm.mpg.de</url< where additional documentation can be found.</p<
abstractGer	<p<Abstract</p< <p<Background</p< <p<Protein sequence motifs are by definition short fragments of conserved amino acids, often associated with a specific function. Accordingly protein sequence profiles derived from multiple sequence alignments provide an alternative description of functional motifs characterizing families of related sequences. Such profiles conveniently reflect functional necessities by pointing out proximity at conserved sequence positions as well as depicting distances at variable positions. Discovering significant conservation characteristics within the variable positions of profiles mirrors group-specific and, in particular, evolutionary features of the underlying sequences.</p< <p<Results</p< <p<We describe the tool <b<<it<PRO</it<</b<<it<file analysis based on </it<<b<<it<M</it<</b<<it<utual </it<<b<<it<I</it<</b<<it<nformation </it<(PROMI) that enables comparative analysis of user-classified protein sequences. PROMI is implemented as a web service using Perl and R as well as other publicly available packages and tools on the server-side. On the client-side platform-independence is achieved by generally applied internet delivery standards. As one possible application analysis of the zinc finger C<sub<2</sub<H<sub<2</sub<-type protein domain is introduced to illustrate the functionality of the tool.</p< <p<Conclusion</p< <p<The web service PROMI should assist researchers to detect evolutionary correlations in protein profiles of defined biological sequences. It is available at <url<http://promi.mpimp-golm.mpg.de</url< where additional documentation can be found.</p<
abstract_unstemmed	<p<Abstract</p< <p<Background</p< <p<Protein sequence motifs are by definition short fragments of conserved amino acids, often associated with a specific function. Accordingly protein sequence profiles derived from multiple sequence alignments provide an alternative description of functional motifs characterizing families of related sequences. Such profiles conveniently reflect functional necessities by pointing out proximity at conserved sequence positions as well as depicting distances at variable positions. Discovering significant conservation characteristics within the variable positions of profiles mirrors group-specific and, in particular, evolutionary features of the underlying sequences.</p< <p<Results</p< <p<We describe the tool <b<<it<PRO</it<</b<<it<file analysis based on </it<<b<<it<M</it<</b<<it<utual </it<<b<<it<I</it<</b<<it<nformation </it<(PROMI) that enables comparative analysis of user-classified protein sequences. PROMI is implemented as a web service using Perl and R as well as other publicly available packages and tools on the server-side. On the client-side platform-independence is achieved by generally applied internet delivery standards. As one possible application analysis of the zinc finger C<sub<2</sub<H<sub<2</sub<-type protein domain is introduced to illustrate the functionality of the tool.</p< <p<Conclusion</p< <p<The web service PROMI should assist researchers to detect evolutionary correlations in protein profiles of defined biological sequences. It is available at <url<http://promi.mpimp-golm.mpg.de</url< where additional documentation can be found.</p<
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Species-specific analysis of protein sequence motifs using mutual information

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