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structural alignment

by Cuncong Zhong, Haixu Tang, Shaojie Zhang , 2010
"... RNA structural motifs using secondary ..."
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RNA structural motifs using secondary

Structural Alignment

by Stella Christie, Dedre Gentner, Stella Christie, Dedre Gentner , 2010
"... This article may be used for research, teaching and private study purposes. Any substantial or systematic reproduction, re-distribution, re-selling, loan or sub-licensing, systematic supply or distribution in any form to anyone is expressly forbidden. The publisher does not give any warranty express ..."
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This article may be used for research, teaching and private study purposes. Any substantial or systematic reproduction, re-distribution, re-selling, loan or sub-licensing, systematic supply or distribution in any form to anyone is expressly forbidden. The publisher does not give any warranty express or implied or make any representation that the contents will be complete or accurate or up to date. The accuracy of any instructions, formulae and drug doses should be independently verified with primary sources. The publisher shall not be liable for any loss, actions, claims, proceedings, demand or costs or damages whatsoever or howsoever caused arising directly or indirectly in connection with or arising out of the use of this material. JOURNAL OF COGNITION AND DEVELOPMENT, 11(3):356–373 Copyright # 2010 Taylor & Francis Group, LLC ISSN: 1524-8372 print=1532-7647 online

Structure Alignments

by Th. Margraf, A. Torda, Ulrich H. E. Hansmann, Jan H. Meinke, Ipan Mohanty, Walter Nadler, Olav Zimmermann (editors, Thomas Margraf, Andrew Torda
"... Proceedings of the NIC Workshop 2008, ..."
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Proceedings of the NIC Workshop 2008,

TM-align: A protein structure alignment algorithm based on TM-score

by Yang Zhang, Jeffrey Skolnick - Nucleic Acids Research
"... TM-score ..."
Abstract - Cited by 289 (38 self) - Add to MetaCart
Abstract not found

PROMALS3D: a tool for multiple protein sequence and structure alignments

by Jimin Pei, Bong-hyun Kim, Nick V. Grishin - Nucleic Acids Res , 2008
"... structure alignments ..."
Abstract - Cited by 42 (2 self) - Add to MetaCart
structure alignments

Structure–Structure alignment of Proteins

by Manish Kumar, Kapil Govil
"... Abstract: FSSP (families of structurally similar proteins) is a database of structural alignments of proteins in the Protein Data Bank (PDB) (1). The current release has 2860 entries. The FSSP ..."
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Abstract: FSSP (families of structurally similar proteins) is a database of structural alignments of proteins in the Protein Data Bank (PDB) (1). The current release has 2860 entries. The FSSP

The URMS-RMS hybrid algorithm for fast and sensitive local protein structure alignment

by Golan Yona, Klara Kedem - Journal of Computational Biology , 2005
"... structure alignment ..."
Abstract - Cited by 13 (4 self) - Add to MetaCart
structure alignment

Bayesian protein structure alignment

by Abel Rodriguez, Scott C. Schmidler , 2006
"... The analysis of the three dimensional structure of proteins is an important topic in molecular biochemistry. Structure plays a critical role in defining the function of proteins, and is more strongly conserved than amino acid sequence over evolutionary timescales. A key challenge is the identificati ..."
Abstract - Cited by 3 (0 self) - Add to MetaCart
structures; however, all are based on heuristic optimization criteria making statistical interpretation somewhat difficult. Here we present a fully probabilistic framework for pairwise structural alignment of proteins. Our approach has several advantages, including the ability to capture alignment

Structural alignment of pseudoknotted RNA

by Banu Dost, Buhm Han, Shaojie Zhang, Vineet Bafna - In Proceedings of the Annual Intl. Conference on Computational Biology (RECOMB , 2006
"... Abstract. In this paper, we address the problem of discovering novel non-coding RNA (ncRNA) using primary sequence, and secondary structure conservation, focusing on ncRNA families with pseudo-knotted structures. Our main technical result is an efficient algorithm for computing an optimum structural ..."
Abstract - Cited by 5 (2 self) - Add to MetaCart
structural alignment of an RNA sequence against a genomic substring. This algorithm finds two applications. First, by scanning a genome, we can identify novel (homologous) pseudoknotted ncRNA, and second, we can infer the secondary structure of the target aligned sequence. We test an implementation of our

Twilight Zone of Protein Sequence Alignments

by Burkhard Rost , 1999
"... l findings are applicable to automatic database searches. Keywords: alignment quality analysis/evolutionary conservation/ genome analysis/protein sequence alignment/sequence space hopping Introduction Protein sequence alignments in twilight zone Protein sequences fold into unique three-dimension ..."
Abstract - Cited by 397 (49 self) - Add to MetaCart
l findings are applicable to automatic database searches. Keywords: alignment quality analysis/evolutionary conservation/ genome analysis/protein sequence alignment/sequence space hopping Introduction Protein sequence alignments in twilight zone Protein sequences fold into unique three
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