Results 111 to 120 of about 1,526,772 (381)
msa: an R package for multiple sequence alignment
Bioinform., 2015 UNLABELLED Although the R platform and the add-on packages of the Bioconductor project are widely used in bioinformatics, the standard task of multiple sequence alignment has been neglected so far.
Ulrich Bodenhofer +3 more
semanticscholar +1 more source
Molecular Oncology, EarlyView.We quantified and cultured circulating tumor cells (CTCs) of 62 patients with various cancer types and generated CTC‐derived tumoroid models from two salivary gland cancer patients. Cellular liquid biopsy‐derived information enabled molecular genetic assessment of systemic disease heterogeneity and functional testing for therapy selection in both ...
Nataša Stojanović Gužvić +31 more
wiley +1 more source
Sequence embedding for fast construction of guide trees for multiple sequence alignment
Algorithms for Molecular Biology, 2010 Background The most widely used multiple sequence alignment methods require sequences to be clustered as an initial step. Most sequence clustering methods require a full distance matrix to be computed between all pairs of sequences.
Wilm Andreas +4 more
doaj +1 more source
The construction and use of log-odds substitution scores for multiple sequence alignment. [PDF]
PLoS Computational Biology, 2010 Most pairwise and multiple sequence alignment programs seek alignments with optimal scores. Central to defining such scores is selecting a set of substitution scores for aligned amino acids or nucleotides.
Stephen F Altschul +3 more
doaj +1 more source
Multiple Biolgical Sequence Alignment: Scoring Functions, Algorithms, and Evaluations [PDF]
, 2011 Aligning multiple biological sequences such as protein sequences or DNA/RNA sequences is a fundamental task in bioinformatics and sequence analysis. These alignments may contain invaluable information that scientists need to predict the sequences\u27 ...
Nguyen, Ken D
core +1 more source
Multiple alignment-free sequence comparison [PDF]
Bioinformatics, 2013 Abstract Motivation: Recently, a range of new statistics have become available for the alignment-free comparison of two sequences based on k-tuple word content. Here, we extend these statistics to the simultaneous comparison of more than two sequences.
Ren, J +4 more
openaire +4 more sources
Multiple sequence alignment modeling: methods and applications
Briefings Bioinform., 2016 This review provides an overview on the development of Multiple sequence alignment (MSA) methods and their main applications. It is focused on progress made over the past decade. The three first sections review recent algorithmic developments for protein,
Maria Chatzou +6 more
semanticscholar +1 more source
Molecular Oncology, EarlyView.The authors analyzed the spatial distributions of gene and metabolite profiles in cervical cancer through spatial transcriptomic and spatially resolved metabolomic techniques. Pivotal genes and metabolites within these cases were then identified and validated.
Lixiu Xu +3 more
wiley +1 more source
ProbCons: Probabilistic consistency-based multiple sequence alignment.
Genome Research, 2005 To study gene evolution across a wide range of organisms, biologists need accurate tools for multiple sequence alignment of protein families. Obtaining accurate alignments, however, is a difficult computational problem because of not only the high ...
Chuong B. Do +3 more
semanticscholar +1 more source
Molecular Oncology, EarlyView.Large multidimensional digital images of cancer tissue are becoming prolific, but many challenges exist to automatically extract relevant information from them using computational tools. We describe publicly available resources that have been developed jointly by expert and non‐expert computational biologists working together during a virtual hackathon
Sandhya Prabhakaran +16 more
wiley +1 more source