Results 11 to 20 of about 7,767,567 (301)
Peptide vocabulary analysis reveals ultra-conservation and homonymity in protein sequences [PDF]
, 2007 A new algorithm is presented for vocabulary analysis (word detection) in texts of human origin. It performs at 60%–70% overall accuracy and greater than 80% accuracy for longer words, and approximately 85% sensitivity on Alice in Wonderland, a ...
Gatherer, D. +2 more
core +14 more sources
DNA Sequences Are as Useful as Protein Sequences for Inferring Deep Phylogenies
Systematic Biology, 2023 Abstract Inference of deep phylogenies has almost exclusively used protein rather than DNA sequences based on the perception that protein sequences are less prone to homoplasy and saturation or to issues of compositional heterogeneity than DNA sequences.
Kapli, Paschalia +4 more
openaire +5 more sources
Methods for comparing a DNA sequence with a protein sequence [PDF]
Bioinformatics, 1996 We describe two methods for constructing an optimal global alignment of, and an optimal local alignment between, a DNA sequence and a protein sequence. The alignment model of the methods addresses the problems of frameshifts and introns in the DNA sequence. The methods require computer memory proportional to the sequence lengths, so they can rigorously
Huang, Xiaoqiu, Zhang, Jinghui
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Base-sequence-dependent sliding of proteins on DNA [PDF]
Physical Review E, 2004 The possibility that the sliding motion of proteins on DNA is influenced by the base sequence through a base pair reading interaction, is considered. Referring to the case of the T7 RNA-polymerase, we show that the protein should follow a noise-influenced sequence-dependent motion which deviate from the standard random walk usually assumed. The general
Barbi, Maria +3 more
openaire +6 more sources
Comparison of DNA Sequences with Protein Sequences
Genomics, 1997 The FASTA package of sequence comparison programs has been expanded to include FASTX and FASTY, which compare a DNA sequence to a protein sequence database, translating the DNA sequence in three frames and aligning the translated DNA sequence to each sequence in the protein database, allowing gaps and frameshifts.
W R, Pearson +3 more
openaire +2 more sources
MCALIGN2: Faster, accurate global pairwise alignment of non-coding DNA sequences based on explicit models of indel evolution [PDF]
, 2006 Background Non-coding DNA sequences comprise a very large proportion of the total genomic content of mammals, most other vertebrates, many invertebrates, and most plants. Unraveling the functional significance of non-coding DNA depends on how well we are
Johnson Toby +8 more
core +1 more source
transAlign: using amino acids to facilitate the multiple alignment of protein-coding DNA sequences
BMC Bioinformatics, 2005 Background Alignments of homologous DNA sequences are crucial for comparative genomics and phylogenetic analysis. However, multiple alignment represents a computationally difficult problem.
Bininda-Emonds Olaf RP
doaj +1 more source
Investigation of distal repetitive sequences in the genus allium [PDF]
, 2009 PhDThe telomere is a DNA/protein structure required to maintain the ends of linear chromosomes. Usually the DNA component comprises a highly conserved tandemly repeated minisatellite sequence.
Chester, Michael
core +3 more sources
LIA5 is required for nuclear reorganization and programmed DNA rearrangements occurring during tetrahymena macronuclear differentiation. [PDF]
PLoS ONE, 2013 During macronuclear differentiation of the ciliate Tetrahymena thermophila, genome-wide DNA rearrangements eliminate nearly 50 Mbp of germline derived DNA, creating a streamlined somatic genome.
Annie Wan Yi Shieh, Douglas L Chalker
doaj +1 more source
BioTechniques, 2000 The size of sequence databases, the rapid rate of generating sequence data and the need to routinely construct recombinant DNA molecules in molecular biological research necessitate the frequent handling and analysis of nucleotide and protein sequences ...
Hugh G. Patterton, Steven Graves
doaj +1 more source