PLoS ONE, 2020 Alignment of structural RNAs is an important problem with a wide range of applications. Since function is often determined by molecular structure, RNA alignment programs should take into account both sequence and base-pairing information for structural ...
Amir H Bayegan, Peter Clote
doaj +1 more source
Bootstrapping Lexical Choice via Multiple-Sequence Alignment [PDF]
, 2002 An important component of any generation system is the mapping dictionary, a lexicon of elementary semantic expressions and corresponding natural language realizations.
Barzilay, Regina, Lee, Lillian
core +7 more sources
Correctness by Construction for Pairwise Sequence Alignment Algorithm in Bio-Sequence
Tehnički Vjesnik, 2023 Pairwise sequence alignment is a classical problem in bioinformatics, aiming at finding the similarity between two sequences, which is important for discovering functional, structural and evolutionary information in biological sequences.
Haihe Shi +3 more
doaj +1 more source
Continuous Action Recognition Based on Sequence Alignment [PDF]
, 2014 Continuous action recognition is more challenging than isolated recognition because classification and segmentation must be simultaneously carried out.
Cech, Jan +3 more
core +4 more sources
An Introductory Guide to Aligning Networks Using SANA, the Simulated Annealing Network Aligner. [PDF]
, 2019 Sequence alignment has had an enormous impact on our understanding of biology, evolution, and disease. The alignment of biological networks holds similar promise.
A Chatr-Aryamontri +45 more
core +2 more sources
Sequence Alignment Using Machine Learning-Based Needleman–Wunsch Algorithm
IEEE Access, 2021 Biological pairwise sequence alignment can be used as a method for arranging two biological sequence characters to identify regions of similarity. This operation has elicited considerable interest due to its significant influence on various critical ...
Amr Ezz El-Din Rashed +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
Testing robustness of relative complexity measure method constructing robust phylogenetic trees for Galanthus L. Using the relative complexity measure [PDF]
, 2013 Background: Most phylogeny analysis methods based on molecular sequences use multiple alignment where the quality of the alignment, which is dependent on the alignment parameters, determines the accuracy of the resulting trees.
Bakis, Yasin +11 more
core +2 more sources
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
Shouji: A Fast and Efficient Pre-Alignment Filter for Sequence Alignment
, 2019 Motivation: The ability to generate massive amounts of sequencing data continues to overwhelm the processing capability of existing algorithms and compute infrastructures.
Alkan, Can +4 more
core +2 more sources