TY - CHAP AU - Dill, K. A. AU - MacCallum, J. L. PY - 2012 DA - 2012// BT - The protein-folding problem, 50 years on Science ID - Dill2012 ER - TY - CHAP AU - Machiraju, R. AU - Ray, W. AU - Bartlett, C. PY - 2013 DA - 2013// BT - BioVis data contest ID - Machiraju2013 ER - TY - JOUR AU - Lolis, E. AU - Petsko, G. A. PY - 1990 DA - 1990// TI - Crystallographic analysis of the complex between triosephosphate isomerase and 2-phosphoglycolate at 2.5-a resolution: implications for catalysis JO - Biochemistry VL - 29 UR - https://doi.org/10.1021/bi00480a010 DO - 10.1021/bi00480a010 ID - Lolis1990 ER - TY - JOUR AU - Chou, P. Y. AU - Fasman, G. D. PY - 1978 DA - 1978// TI - Prediction of the secondary structure of proteins from their amino acid sequence JO - Advances in enzymology and related areas of molecular biology VL - 47 ID - Chou1978 ER - TY - JOUR AU - Kidera, A. AU - Konishi, Y. AU - Oka, M. AU - Ooi, T. AU - Scheraga, H. A. PY - 1985 DA - 1985// TI - Statistical analysis of the physical properties of the 20 naturally occurring amino acids JO - Journal of Protein Chemistry VL - 4 UR - https://doi.org/10.1007/BF01025492 DO - 10.1007/BF01025492 ID - Kidera1985 ER - TY - JOUR AU - Kidera, A. AU - Konishi, Y. AU - Ooi, T. AU - Scheraga, H. A. PY - 1985 DA - 1985// TI - Relation between sequence similarity and structural similarity in proteins. role of important properties of amino acids JO - Journal of Protein Chemistry VL - 4 UR - https://doi.org/10.1007/BF01025494 DO - 10.1007/BF01025494 ID - Kidera1985 ER - TY - JOUR AU - Rackovsky, S. PY - 2009 DA - 2009// TI - Sequence physical properties encode the global organization of protein structure space JO - Proceedings of the National Academy of Sciences VL - 106 UR - https://doi.org/10.1073/pnas.0903433106 DO - 10.1073/pnas.0903433106 ID - Rackovsky2009 ER - TY - JOUR AU - Nielsen, C. B. AU - Cantor, M. AU - Dubchak, I. AU - Gordon, D. AU - Wang, T. PY - 2010 DA - 2010// TI - Visualizing genomes: techniques and challenges JO - Nature Methods VL - 7 UR - https://doi.org/10.1038/nmeth.1422 DO - 10.1038/nmeth.1422 ID - Nielsen2010 ER - TY - JOUR AU - Rutherford, K. AU - Parkhill, J. AU - Crook, J. AU - Horsnell, T. AU - Rice, P. AU - Rajandream, M. -. A. AU - Barrell, B. PY - 2000 DA - 2000// TI - Artemis: sequence visualization and annotation JO - Bioinformatics VL - 16 UR - https://doi.org/10.1093/bioinformatics/16.10.944 DO - 10.1093/bioinformatics/16.10.944 ID - Rutherford2000 ER - TY - JOUR AU - Kent, W. J. AU - Sugnet, C. W. AU - Furey, T. S. AU - Roskin, K. M. AU - Pringle, T. H. AU - Zahler, A. M. AU - Haussler, D. PY - 2002 DA - 2002// TI - The human genome browser at UCSC JO - Genome Research VL - 12 UR - https://doi.org/10.1101/gr.229102. Article published online before print in May 2002 DO - 10.1101/gr.229102. Article published online before print in May 2002 ID - Kent2002 ER - TY - JOUR AU - Thorvaldsdóttir, H. AU - Robinson, J. T. AU - Mesirov, J. P. PY - 2013 DA - 2013// TI - Integrative genomics viewer (IGV): high-performance genomics data visualization and exploration JO - Briefings in bioinformatics VL - 14 UR - https://doi.org/10.1093/bib/bbs017 DO - 10.1093/bib/bbs017 ID - Thorvaldsdóttir2013 ER - TY - JOUR AU - Procter, J. B. AU - Thompson, J. AU - Letunic, I. AU - Creevey, C. AU - Jossinet, F. AU - Barton, G. J. PY - 2010 DA - 2010// TI - Visualization of multiple alignments, phylogenies and gene family evolution JO - Nature Methods VL - 7 UR - https://doi.org/10.1038/nmeth.1434 DO - 10.1038/nmeth.1434 ID - Procter2010 ER - TY - JOUR AU - Li, W. AU - Godzik, A. PY - 2006 DA - 2006// TI - VISSA: a program to visualize structural features from structure sequence alignment JO - Bioinformatics VL - 22 UR - https://doi.org/10.1093/bioinformatics/btl019 DO - 10.1093/bioinformatics/btl019 ID - Li2006 ER - TY - JOUR AU - Caffrey, D. R. AU - Dana, P. H. AU - Mathur, V. AU - Ocano, M. AU - Hong, E. -. J. AU - Wang, Y. E. AU - Somaroo, S. AU - Caffrey, B. E. AU - Potluri, S. AU - Huang, E. S. PY - 2007 DA - 2007// TI - PFAAT version 2.0: A tool for editing, annotating, and analyzing multiple sequence alignments JO - BMC Bioinformatics VL - 8 UR - https://doi.org/10.1186/1471-2105-8-381 DO - 10.1186/1471-2105-8-381 ID - Caffrey2007 ER - TY - JOUR AU - Bulka, B. AU - desJardins, M. AU - Freeland, S. J. PY - 2006 DA - 2006// TI - An interactive visualization tool to explore the biophysical properties of amino acids and their contribution to substitution matrices JO - BMC Bioinformatics VL - 7 UR - https://doi.org/10.1186/1471-2105-7-329 DO - 10.1186/1471-2105-7-329 ID - Bulka2006 ER - TY - JOUR AU - Kanehisa, M. AU - Goto, S. AU - Kawashima, S. AU - Nakaya, A. PY - 2002 DA - 2002// TI - The KEGG databases at GenomeNet JO - Nucleic Acids Research VL - 30 UR - https://doi.org/10.1093/nar/30.1.42 DO - 10.1093/nar/30.1.42 ID - Kanehisa2002 ER - TY - JOUR AU - Tomii, K. AU - Kanehisa, M. PY - 1996 DA - 1996// TI - Analysis of amino acid indices and mutation matrices for sequence comparison and structure prediction of proteins JO - Protein Engineering VL - 9 UR - https://doi.org/10.1093/protein/9.1.27 DO - 10.1093/protein/9.1.27 ID - Tomii1996 ER - TY - JOUR AU - Chenna, R. AU - Sugawara, H. AU - Koike, T. AU - Lopez, R. AU - Gibson, T. J. AU - Higgins, D. G. AU - Thompson, J. D. PY - 2003 DA - 2003// TI - Multiple sequence alignment with the clustal series of programs JO - Nucleic acids research VL - 31 UR - https://doi.org/10.1093/nar/gkg500 DO - 10.1093/nar/gkg500 ID - Chenna2003 ER - TY - JOUR AU - Prabhakaran, M. PY - 1990 DA - 1990// TI - The distribution of physical, chemical and conformational properties in signal and nascent peptides JO - Biochem J VL - 269 UR - https://doi.org/10.1042/bj2690691 DO - 10.1042/bj2690691 ID - Prabhakaran1990 ER - TY - CHAP AU - Bodenmiller, B. PY - 2006 DA - 2006// BT - Amino acid colour schemes ID - Bodenmiller2006 ER - TY - JOUR AU - Enderton, E. AU - Sintorn, E. AU - Shirley, P. AU - Luebke, D. PY - 2011 DA - 2011// TI - Stochastic transparency JO - IEEE Transactions on Visualization and Computer Graphics VL - 17 UR - https://doi.org/10.1109/TVCG.2010.123 DO - 10.1109/TVCG.2010.123 ID - Enderton2011 ER - TY - JOUR AU - Bostock, M. AU - Ogievetsky, V. AU - Heer, J. PY - 2011 DA - 2011// TI - D3: Data-driven documents JO - IEEE Transactions on Visualization and Computer Graphics VL - 17 UR - https://doi.org/10.1109/TVCG.2011.185 DO - 10.1109/TVCG.2011.185 ID - Bostock2011 ER - TY - JOUR AU - Brocchieri, L. AU - Karlin, S. PY - 2005 DA - 2005// TI - Protein length in eukaryotic and prokaryotic proteomes JO - Nucleic Acids Research VL - 33 UR - https://doi.org/10.1093/nar/gki615 DO - 10.1093/nar/gki615 ID - Brocchieri2005 ER -