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Cytochrome b is commonly used as a region of mitochondrial DNA for determining phylogenetic relationships between organisms, due to its sequence variability. It is considered to be most useful in determining relationships within families and genera. Comparative studies involving cytochrome b have resulted in new classification schemes and have ...
Python language toolkit Cross-platform: Biopython [2] Open Bioinformatics Foundation: BioRuby: Ruby language toolkit Linux, macOS, Windows [3] GPL v2 or Ruby: Open Bioinformatics Foundation: BLAST: Algorithm and program for comparing primary biological sequence information, including DNA and protein sequences. Cross-platform: Public domain
In bioinformatics, sequence analysis is the process of subjecting a DNA, RNA or peptide sequence to any of a wide range of analytical methods to understand its features, function, structure, or evolution. It can be performed on the entire genome, transcriptome or proteome of an organism, and can also involve only selected segments or regions ...
Location of the MT-CYB gene in the human mitochondrial genome (coral box).. Cytochrome b is a protein that in humans is encoded by the MT-CYB gene. [5] Its gene product is a subunit of the respiratory chain protein ubiquinol–cytochrome c reductase (UQCR, complex III or cytochrome bc 1 complex), which consists of the products of one mitochondrially encoded gene, MT-CYB (mitochondrial ...
Software for ultra fast local DNA sequence motif search and pairwise alignment for NGS data (FASTA, FASTQ). DNA: Hepperle D (www.sequentix.de) 2020 Genoogle Genoogle uses indexing and parallel processing techniques for searching DNA and Proteins sequences. It is developed in Java and open source. Both: Albrecht F: 2015 HMMER
The Ascona B-DNA Consortium (ABC) is a collaborative international research initiative founded in 2001 to investigate the sequence-dependent mechanical properties of DNA using molecular dynamics (MD) simulations. The consortium has contributed significantly to the understanding of DNA structure and dynamics over the past two decades, from the ...
A sequence alignment is a way of arranging the sequences of protein, RNA or DNA, to identify regions of similarity that may be a consequence of functional, structural, or evolutionary relationships between the sequences. The concept initially compares only two such sequences in the so called pairwise alignment.
To filter out the low-complexity regions, the SEG program is used for protein sequences and the program DUST is used for DNA sequences. On the other hand, the program XNU is used to mask off the tandem repeats in protein sequences. Make a k-letter word list of the query sequence. Take k=3 for example, we list the words of length 3 in the query ...