Results 51 to 60 of about 4,504,319 (408)
Multiple sequence alignment with hierarchical clustering.
Nucleic Acids Research, 1988 An algorithm is presented for the multiple alignment of sequences, either proteins or nucleic acids, that is both accurate and easy to use on microcomputers.
F. Corpet
semanticscholar +1 more source
ViralMSA: Massively scalable reference-guided multiple sequence alignment of viral genomes
bioRxiv, 2020 Motivation In molecular epidemiology, the identification of clusters of transmissions typically requires the alignment of viral genomic sequence data.
Niema Moshiri
semanticscholar +1 more source
Identifying and seeing beyond multiple sequence alignment errors using intra-molecular protein covariation. [PDF]
PLoS ONE, 2010 BACKGROUND: There is currently no way to verify the quality of a multiple sequence alignment that is independent of the assumptions used to build it. Sequence alignments are typically evaluated by a number of established criteria: sequence conservation ...
Russell J Dickson +3 more
doaj +1 more source
RAPIDx: High-performance ReRAM Processing in-Memory Accelerator for Sequence Alignment [PDF]
, 2022 Genome sequence alignment is the core of many biological applications. The advancement of sequencing technologies produces a tremendous amount of data, making sequence alignment a critical bottleneck in bioinformatics analysis. The existing hardware accelerators for alignment suffer from limited on-chip memory, costly data movement, and poorly ...
arxiv +1 more source
Structure-Guided Recombination Creates an Artificial Family of Cytochromes P450 [PDF]
, 2006 Creating artificial protein families affords new opportunities to explore the determinants of structure and biological function free from many of the constraints of natural selection.
Arnold, Frances H. +5 more
core +1 more source
SINA: Accurate high-throughput multiple sequence alignment of ribosomal RNA genes
Bioinform., 2012 MOTIVATION In the analysis of homologous sequences, computation of multiple sequence alignments (MSAs) has become a bottleneck. This is especially troublesome for marker genes like the ribosomal RNA (rRNA) where already millions of sequences are publicly
E. Pruesse, J. Peplies, F. Glöckner
semanticscholar +1 more source
Contact-based sequence alignment [PDF]
Nucleic Acids Research, 2004 This paper introduces the novel method of contact-based protein sequence alignment, where structural information in the form of contact mutation probabilities is incorporated into an alignment routine using contact-mutation matrices (CAO: Contact Accepted mutatiOn).
Kuang Lin +3 more
openaire +4 more sources
Hardware Accelerated Sequence Alignment with Traceback
International Journal of Reconfigurable Computing, 2009 Biological sequence alignment is an essential tool used in molecular biology and biomedical applications. The growing volume of genetic data and the complexity of sequence alignment present a challenge in obtaining alignment results in a timely manner ...
Scott Lloyd, Quinn O. Snell
doaj +1 more source
BMC Bioinformatics, 2010 Background Protein alignments are an essential tool for many bioinformatics analyses. While sequence alignments are accurate for proteins of high sequence similarity, they become unreliable as they approach the so-called 'twilight zone' where sequence ...
Bastolla Ugo +3 more
doaj +1 more source
Optimal alignments of longest common subsequences and their path properties [PDF]
Bernoulli 2014, Vol. 20, No. 3, 1292-1343, 2014 We investigate the behavior of optimal alignment paths for homologous (related) and independent random sequences. An alignment between two finite sequences is optimal if it corresponds to the longest common subsequence (LCS). We prove the existence of lowest and highest optimal alignments and study their differences.
arxiv +1 more source