Results 21 to 30 of about 1,851,770 (264)

HCMV Envelope Glycoprotein Diversity Demystified

Frontiers in Microbiology, 2019
Human cytomegalovirus (HCMV) is the leading viral cause of congenital birth defects and is responsible for morbidity and mortality in immunosuppressed individuals.
Mathilde Foglierini, Mathilde Foglierini, Jessica Marcandalli, Laurent Perez   +3 more
doaj   +1 more source

A protein structural study based on the centrality analysis of protein sequence feature networks.

PLoS ONE, 2021
In this paper, we use network approaches to analyze the relations between protein sequence features for the top hierarchical classes of CATH and SCOP. We use fundamental connectivity measures such as correlation (CR), normalized mutual information rate ...
Xiaogeng Wan, Xinying Tan
doaj   +1 more source

Designing hardware for protein sequence analysis [PDF]

Bioinformatics, 2003
Abstract We present the architecture of PROSIDIS, a special purpose co-processor designed to search for the occurrence of substrings similar to a given ‘template string’ within a proteome. Actual tests show speed up figures ranging from 5 to 50 with respect to conventional general-purpose processors.
Marongiu, Alessandro, Palazzari, Paolo, Rosato, Vittorio   +2 more
openaire   +3 more sources

Using sound to understand protein sequence data: new sonification algorithms for protein sequences and multiple sequence alignments

BMC Bioinformatics, 2021
Background The use of sound to represent sequence data—sonification—has great potential as an alternative and complement to visual representation, exploiting features of human psychoacoustic intuitions to convey nuance more effectively.
Edward J. Martin, Thomas R. Meagher, Daniel Barker   +2 more
doaj   +1 more source

Density Peak clustering of protein sequences associated to a Pfam clan reveals clear similarities and interesting differences with respect to manual family annotation

BMC Bioinformatics, 2021
Background The identification of protein families is of outstanding practical importance for in silico protein annotation and is at the basis of several bioinformatic resources.
Elena Tea Russo, Alessandro Laio, Marco Punta   +2 more
doaj   +1 more source

SeqCP: A sequence-based algorithm for searching circularly permuted proteins

Computational and Structural Biotechnology Journal, 2023
Circular permutation (CP) is a protein sequence rearrangement in which the amino- and carboxyl-termini of a protein can be created in different positions along the imaginary circularized sequence.
Chi-Chun Chen, Yu-Wei Huang, Hsuan-Cheng Huang, Wei-Cheng Lo, Ping-Chiang Lyu   +4 more
doaj   +1 more source

CAPS: coevolution analysis using protein sequences [PDF]

Bioinformatics, 2006
Abstract Summary: Coevolution Analysis using Protein Sequences (CAPS) is a PERL based software that identifies co-evolution between amino acid sites. Blosum-corrected amino acid distances are used to identify amino acid co-variation. The phylogenetic sequence relationships are used to remove the phylogenetic and stochastic dependencies ...
Mario A, Fares, David, McNally
openaire   +2 more sources

Linking glycemic dysregulation in diabetes to symptoms, comorbidities, and genetics through EHR data mining

eLife, 2019
Diabetes is a diverse and complex disease, with considerable variation in phenotypic manifestation and severity. This variation hampers the study of etiological differences and reduces the statistical power of analyses of associations to genetics ...
Isa Kristina Kirk, Christian Simon, Karina Banasik, Peter Christoffer Holm, Amalie Dahl Haue, Peter Bjødstrup Jensen, Lars Juhl Jensen, Cristina Leal Rodríguez, Mette Krogh Pedersen, Robert Eriksson, Henrik Ullits Andersen, Thomas Almdal, Jette Bork-Jensen, Niels Grarup, Knut Borch-Johnsen, Oluf Pedersen, Flemming Pociot, Torben Hansen, Regine Bergholdt, Peter Rossing, Søren Brunak   +20 more
doaj   +1 more source

Coevolutionary Analysis of Protein Subfamilies by Sequence Reweighting

Entropy, 2019
Extracting structural information from sequence co-variation has become a common computational biology practice in the recent years, mainly due to the availability of large sequence alignments of protein families.
Duccio Malinverni, Alessandro Barducci
doaj   +1 more source

Progressive search in tandem mass spectrometry

BMC Bioinformatics, 2023
Background High-throughput Proteomics has been accelerated by (tandem) mass spectrometry. However, the slow speed of mass spectra analysis prevents the analysis results from being up-to-date.
Yoonsung Joh, Kangbae Lee, Hyunwoo Kim, Heejin Park   +3 more
doaj   +1 more source