Nucleic Acids Research, 2003, Vol. 31, No. 13 3406-3415
© 2003 Oxford University Press
Mfold web server for nucleic acid folding and hybridization prediction
Department of Mathematical Sciences, Rensselaer Polytechnic Institute, Troy, NY 12180, USA
*Tel: +1 5182766902; Fax: +1 5182764824; Email: zukerm{at}rpi.edu
The abbreviated name, ‘mfold web server’, describes a number of closely related software applications available on the World Wide Web (WWW) for the prediction of the secondary structure of single stranded nucleic acids. The objective of this web server is to provide easy access to RNA and DNA folding and hybridization software to the scientific community at large. By making use of universally available web GUIs (Graphical User Interfaces), the server circumvents the problem of portability of this software. Detailed output, in the form of structure plots with or without reliability information, single strand frequency plots and ‘energy dot plots’, are available for the folding of single sequences. A variety of ‘bulk’ servers give less information, but in a shorter time and for up to hundreds of sequences at once. The portal for the mfold web server is http://www.bioinfo.rpi.edu/applications/mfold. This URL will be referred to as ‘MFOLDROOT’.
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D. Stoddart, A. J. Heron, E. Mikhailova, G. Maglia, and H. Bayley From the Cover: Single-nucleotide discrimination in immobilized DNA oligonucleotides with a biological nanopore PNAS, May 12, 2009; 106(19): 7702 - 7707. [Abstract] [Full Text] [PDF]
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M. Wieland, M. Gfell, and J. S. Hartig Expanded hammerhead ribozymes containing addressable three-way junctions RNA, May 1, 2009; 15(5): 968 - 976. [Abstract] [Full Text] [PDF]
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L. Childs, Z. Nikoloski, P. May, and D. Walther Identification and classification of ncRNA molecules using graph properties Nucleic Acids Res., May 1, 2009; 37(9): e66 - e66. [Abstract] [Full Text] [PDF]
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H.-M. Chen and S.-H. Wu Mining small RNA sequencing data: a new approach to identify small nucleolar RNAs in Arabidopsis Nucleic Acids Res., May 1, 2009; 37(9): e69 - e69. [Abstract] [Full Text] [PDF]
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 W. B. Langdon, G. J. G. Upton, and A. P. Harrison Probes containing runs of guanines provide insights into the biophysics and bioinformatics of Affymetrix GeneChips Brief Bioinform, May 1, 2009; 10(3): 259 - 277. [Abstract] [Full Text] [PDF]
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D. Xu and H. Shi Composite RNA aptamers as functional mimics of proteins Nucleic Acids Res., May 1, 2009; 37(9): e71 - e71. [Abstract] [Full Text] [PDF]
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M. Caporale, F. Arnaud, M. Mura, M. Golder, C. Murgia, and M. Palmarini The Signal Peptide of a Simple Retrovirus Envelope Functions as a Posttranscriptional Regulator of Viral Gene Expression J. Virol., May 1, 2009; 83(9): 4591 - 4604. [Abstract] [Full Text] [PDF]
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