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By Jan Gorodkin, Walter L. Ruzzo

ISBN-10: 162703708X

ISBN-13: 9781627037082

The lifestyles of genes for RNA molecules no longer coding for proteins (ncRNAs) has been well-known because the 1950's, yet till lately, other than the seriously vital ribosomal and move RNA genes, so much concentration has been on protein coding genes. even if, an extended sequence of awesome discoveries, from RNA's skill to hold out catalytic functionality, to discovery of riboswitches, microRNAs and different ribo-regulators acting severe initiatives in primarily all residing organisms, has created a burgeoning curiosity during this primordial section of the biosphere. besides the fact that, the structural features and evolutionary constraints on RNA molecules are very diversified from these of proteins, necessitating improvement of a totally new suite of informatic instruments to handle those demanding situations. In RNA series, Structure, functionality: Computational and Bioinformatic Methods, specialist researchers within the box describe a considerable and proper fraction of those methodologies from either functional and computational/algorithmic views. targeting either one of those instructions addresses either the biologist drawn to understanding extra approximately RNA bioinformatics in addition to the bioinformaticist drawn to extra specific facets of the algorithms. Written within the hugely profitable Methods in Molecular Biology series layout, the chapters contain the type of particular description and implementation recommendation that's an important for buying optimum results.

Thorough and intuitive, RNA series, constitution, functionality: Computational and Bioinformatic Methods aids scientists in carrying on with to check key equipment and ideas of RNA bioinformatics.

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Extra resources for RNA Sequence, Structure, and Function: Computational and Bioinformatic Methods

Example text

SELEX (systematic evolution of ligands by exponential enrichment) has been widely used to select in vitro RNA molecules which bind a wide variety of targets, including proteins and antibiotics, with high affinity and specificity [48]. Compared to antibodies, the aptamer approach has the advantage of circumventing the costly use of animals or cultured cells. RNase-resistant aptamers with 2’ modification can be chemically synthesized on a large scale and applied as drugs. Several such aptamers for use as therapeutic molecules are currently in development [49].

International Human Genome Sequencing Consortium (2001) Initial sequencing and analysis of the human genome. Nature 409:860–921 23. Lim LP, Glasner ME, Yekta S, Burge CB, Bartel DP (2003) Vertebrate microRNA genes. Science 299:1540 24. Omer AD, Lowe TM, Russell AG, Ebhardt H, Eddy SR, Dennis PP (2000) Homologs of small nucleolar RNAs in Archaea. Science 288(5465):517–522 25. Ames TD, Rodionov DA, Weinberg Z, Breaker RR (2010) A eubacterial riboswitch class that senses the coenzyme tetrahydrofolate.

Gorodkin J, Stricklin SL, Stormo GD (2001) Discovering common stem-loop motifs in unaligned RNA sequences. Nucleic Acids Res 29:2135–2144 124. Hamada M, Sato K, Asai K (2010) Prediction of RNA secondary structure by maximizing pseudo-expected accuracy. BMC Bioinformatics 11:586 125. Kato Y, Akutsu T, Seki H (2009) A grammatical approach to RNA-RNA interaction prediction. Pattern Recognit 42:531–538 126. Seemann SE, Gorodkin J, Backofen R (2008) Unifying evolutionary and thermodynamic information for RNA folding of multiple alignments.

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RNA Sequence, Structure, and Function: Computational and Bioinformatic Methods by Jan Gorodkin, Walter L. Ruzzo


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