Cargando…

Domain enhanced lookup time accelerated BLAST

BACKGROUND: BLAST is a commonly-used software package for comparing a query sequence to a database of known sequences; in this study, we focus on protein sequences. Position-specific-iterated BLAST (PSI-BLAST) iteratively searches a protein sequence database, using the matches in round i to construc...

Descripción completa

Detalles Bibliográficos
Autores principales:	Boratyn, Grzegorz M, Schäffer, Alejandro A, Agarwala, Richa, Altschul, Stephen F, Lipman, David J, Madden, Thomas L
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	BioMed Central 2012
Materias:	Research
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3438057/ https://www.ncbi.nlm.nih.gov/pubmed/22510480 http://dx.doi.org/10.1186/1745-6150-7-12

Ejemplares similares

PSI-BLAST pseudocounts and the minimum description length principle
por: Altschul, Stephen F., et al.
Publicado: (2009)

ElasticBLAST: accelerating sequence search via cloud computing
por: Camacho, Christiam, et al.
Publicado: (2023)

Composition-based statistics and translated nucleotide searches: Improving the TBLASTN module of BLAST
por: Gertz, E Michael, et al.
Publicado: (2006)

Database indexing for production MegaBLAST searches
por: Morgulis, Aleksandr, et al.
Publicado: (2008)

Magic-BLAST, an accurate RNA-seq aligner for long and short reads
por: Boratyn, Grzegorz M., et al.
Publicado: (2019)

The Ontology Lookup Service: bigger and better
por: Côté, Richard, et al.
Publicado: (2010)

Genotify: Fast, lightweight gene lookup and summarization
por: Andrews, Jared M., et al.
Publicado: (2018)

Retrieval accuracy, statistical significance and compositional similarity in protein sequence database searches
por: Yu, Yi-Kuo, et al.
Publicado: (2006)

Improving the dictionary lookup approach for disease normalization using enhanced dictionary and query expansion
por: Jonnagaddala, Jitendra, et al.
Publicado: (2016)

Real-time 3D single-molecule localization microscopy analysis using lookup tables
por: Hauser, Fabian, et al.
Publicado: (2021)

Outlier detection in BLAST hits
por: Shah, Nidhi, et al.
Publicado: (2018)

OLS Dialog: An open-source front end to the Ontology Lookup Service
por: Barsnes, Harald, et al.
Publicado: (2010)

BLAST: a more efficient report with usability improvements
por: Boratyn, Grzegorz M., et al.
Publicado: (2013)

The Ontology Lookup Service: more data and better tools for controlled vocabulary queries
por: Côté, Richard G., et al.
Publicado: (2008)

DOA Estimation for Coprime Linear Array Based on MI-ESPRIT and Lookup Table
por: Zhang, Weike, et al.
Publicado: (2018)

An open-source GIS-enabled lookup service for Nagoya Protocol party information
por: Seifert, Hendrikje, et al.
Publicado: (2020)

Prevalence of dyslipidemia and hypercholesterolemia awareness: results from the Lookup 7+ online project
por: Martone, Anna Maria, et al.
Publicado: (2022)

The Ontology Lookup Service, a lightweight cross-platform tool for controlled vocabulary queries
por: Côté, Richard G, et al.
Publicado: (2006)

IgBLAST: an immunoglobulin variable domain sequence analysis tool
por: Ye, Jian, et al.
Publicado: (2013)

Lookup Tables Versus Stacked Rasch Analysis in Comparing Pre- and Postintervention Adult Strabismus-20 Data
por: Leske, David A., et al.
Publicado: (2016)

MathSeer: A Math-Aware Search Interface with Intuitive Formula Editing, Reuse, and Lookup
por: Nishizawa, Gavin, et al.
Publicado: (2020)

SKESA: strategic k-mer extension for scrupulous assemblies
por: Souvorov, Alexandre, et al.
Publicado: (2018)

Fast Star Matching Method Based on Double K-Vector Lookup Tables for Multi-Exposure Star Trackers
por: Yu, Wenbo, et al.
Publicado: (2021)

BLAST+: architecture and applications
por: Camacho, Christiam, et al.
Publicado: (2009)

BLAST: improvements for better sequence analysis
por: Ye, Jian, et al.
Publicado: (2006)

Blast Exposure Leads to Accelerated Cellular Senescence in the Rat Brain
por: Arun, Peethambaran, et al.
Publicado: (2020)

Relationship between cardiovascular health metrics and physical performance in community-living people: Results from the Longevity check-up (Lookup) 7+ project
por: Landi, Francesco, et al.
Publicado: (2018)

Application of kt-BLAST acceleration to reduce cardiac MR imaging time in healthy and infarcted mice
por: Marshall, Ian, et al.
Publicado: (2013)

Incorporation of biological knowledge into distance for clustering genes
por: Boratyn, Grzegorz M, et al.
Publicado: (2007)

Low Adherence to Mediterranean Diet Is Associated with Probable Sarcopenia in Community-Dwelling Older Adults: Results from the Longevity Check-Up (Lookup) 7+ Project
por: Cacciatore, Stefano, et al.
Publicado: (2023)

Tools for assessing child and adolescent stunting: Lookup tables, growth charts and a novel appropriate-technology “MEIRU” wallchart ‐ a diagnostic accuracy study
por: Chanyarungrojn, Pannapat Amy, et al.
Publicado: (2023)

NCBI BLAST: a better web interface
por: Johnson, Mark, et al.
Publicado: (2008)

Identifying underweight in infants and children using growth charts, lookup tables and a novel “MAMI” slide chart: A cross-over diagnostic and acceptability study
por: Monga, Meenakshi, et al.
Publicado: (2023)

High speed BLASTN: an accelerated MegaBLAST search tool
por: Chen, Ying, et al.
Publicado: (2015)

Treating accelerated and blast phase myeloproliferative neoplasms: progress and challenges
por: Ajufo, Helen O., et al.
Publicado: (2023)

Prevalence of dyslipidaemia and awareness of blood cholesterol levels among community-living people: results from the Longevity check-up 7+ (Lookup 7+) cross-sectional survey
por: Marzetti, Emanuele, et al.
Publicado: (2018)

Application of dissociation curve analysis to radiation hybrid panel marker scoring: generation of a map of river buffalo (B. bubalis) chromosome 20
por: Kochan, Kelli J, et al.
Publicado: (2008)

PedHunter 2.0 and its usage to characterize the founder structure of the Old Order Amish of Lancaster County
por: Lee, Woei-Jyh, et al.
Publicado: (2010)

Acceleration of tissue phase mapping by k-t BLAST: a detailed analysis of the influence of k-t-BLAST for the quantification of myocardial motion at 3T
por: Lutz, Anja, et al.
Publicado: (2011)

GPU-BLAST: using graphics processors to accelerate protein sequence alignment
por: Vouzis, Panagiotis D., et al.
Publicado: (2011)

Cannot write session to /tmp/vufind_sessions/sess_hnhm7o9b151ehfgb65rr8i8hlm