MeShClust: an intelligent tool for clustering DNA sequences
Sequence clustering is a fundamental step in analyzing DNA sequences. Widely-used
software tools for sequence clustering utilize greedy approaches that are not guaranteed to …
software tools for sequence clustering utilize greedy approaches that are not guaranteed to …
Identity: rapid alignment-free prediction of sequence alignment identity scores using self-supervised general linear models
Pairwise global alignment is a fundamental step in sequence analysis. Optimal alignment
algorithms are quadratic—slow especially on long sequences. In many applications that …
algorithms are quadratic—slow especially on long sequences. In many applications that …
Look4TRs: a de novo tool for detecting simple tandem repeats using self-supervised hidden Markov models
Motivation Simple tandem repeats, microsatellites in particular, have regulatory functions,
links to several diseases and applications in biotechnology. There is an immediate need for …
links to several diseases and applications in biotechnology. There is an immediate need for …
MeShClust2: Application of alignment-free identity scores in clustering long DNA sequences
Grou** sequences into similar clusters is an important part of sequence analysis. Widely
used clustering tools sacrifice quality for speed. Previously, we developed MeShClust, which …
used clustering tools sacrifice quality for speed. Previously, we developed MeShClust, which …
On-line hierarchy of general linear models for selecting and ranking the best predicted protein structures
To predict the three dimensional structure of proteins, many computational methods sample
the conformational space, generating a large number of candidate structures. Subsequently …
the conformational space, generating a large number of candidate structures. Subsequently …
[KNJIGA][B] Machine-learning-based meta approaches to protein structure prediction
HZ Girgis - 2008 - search.proquest.com
The importance of knowing the three dimensional structure of proteins and the difficulty of
determining it experimentally, have led scientists to develop several computational methods …
determining it experimentally, have led scientists to develop several computational methods …
FASTCAR: Rapid alignment-free prediction of sequence alignment identity scores using self-supervised general linear models
Pairwise alignment has been the predominant algorithm in the field of bioinformatics since
its beginning. Several applications have been made in order to speed up this algorithm …
its beginning. Several applications have been made in order to speed up this algorithm …
HebbPlot: an intelligent tool for learning and visualizing chromatin mark signatures
Background Histone modifications play important roles in gene regulation, heredity,
imprinting, and many human diseases. The histone code is complex and consists of more …
imprinting, and many human diseases. The histone code is complex and consists of more …
[PDF][PDF] Look4TRs: A de-novo tool for detecting simple tandem repeats using self-supervised hidden Markov models
II Alfredo Velasco, BT James, VD Wells, HZ Girgis - researchgate.net
Simple tandem repeats, microsatellites in particular, have regulatory functions, links to
several diseases, and applications in biotechnology. Sequences of thousands of species …
several diseases, and applications in biotechnology. Sequences of thousands of species …