By Ion Mandoiu, Alexander Zelikovsky
Ambitions the longer term collaboration of researchers in algorithms, bioinformatics, and molecular biology. It addresses severe bioinformatics examine parts of protein-protein interplay, molecular modeling in drug layout, and structural biology. a few of th.
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Extra info for Bioinformatics algorithms : techniques and applications
Developed partial order alignment (POA) method, which guarantees that the optimal alignment of each new sequence versus each sequence in the MSA is considered. Also the algorithm has improved speed (linear to the number of sequences) over existing MSA algorithms, enabling construction of massive and complex alignments. , part of a sequence S1 is aligned to sequence S2 and then the next part of S1 can be aligned to sequence S3 instead of S2 as long as the order of the amino acid positions is obeyed).
3 DYNAMIC PROGRAMMING ALGORITHM FOR RNA SEQUENCE ANALYSIS RNAs usually function as single strand molecules. The nucleotides of a single RNA secondary molecule can pair with each other (through hydrogen bonds) and form a stable secondary structure (Fig. 5). 5 A schematic illustration of an RNA secondary structure and its loop components. 20 DYNAMIC PROGRAMMING ALGORITHMS molecule is often assumed to be the one with the lowest free energy, and the computational problem of finding this stable structure from a given RNA sequence is called the problem of RNA secondary structure prediction.
39. Jareborg N, Birney NE, Durbin R. Comparative analysis of non-coding regions of 77 orthologous mouse and human gene pairs. Genome Res1999;10:950. 40. Jennings AJ, Edge CM, Sternberg MJ. An approach to improving multiple alignments of protein sequences using predicted secondary structure. Protein Eng 2001;14:227. 41. Jiang T, Lin G, Ma B, Zhang K. A general edit distance between RNA structures. J Comput Biol 2002;9:371. 42. Kent WJ, Zahler AM. Conservation, regulation, synteny and introns in a large-scale C.
Bioinformatics algorithms : techniques and applications by Ion Mandoiu, Alexander Zelikovsky