BLAT—the BLAST-like alignment tool

WJ Kent - Genome research, 2002 - genome.cshlp.org
… The new algorithm is called BLAT , which is short for “ BLAST -like alignment tool.” BLAT
is … BLAT differs from BLAST in some significant ways. Where BLAST builds an index of the …

Quickly finding orthologs as reciprocal best hits with BLAT, LAST, and UBLAST: how much do we miss?

N Ward, G Moreno-Hagelsieb - PloS one, 2014 - journals.plos.org
… We tested BLAT, LAST and UBLAST. All three programs ran in a hundredth to a 25th of the
… the genomes compared become more dissimilar, with BLAT, a program optimized for quickly …

Estimating overannotation across prokaryotic genomes using BLAST+, UBLAST, LAST and BLAT

G Moreno-Hagelsieb, B Hudy-Yuffa - BMC research notes, 2014 - Springer
… We thus decided to compare the overannotation estimates yielded using three such
programs, UBLAST, LAST and the Blast-Like Alignment Tool (BLAT), and to test non-redundant …

Using BLAT to find sequence similarity in closely related genomes

M Bhagwat, L Young… - Current protocols in …, 2012 - Wiley Online Library
… The BLAST-Like Alignment Tool (BLAT) is used to find genomic sequences that match a
protein or DNA sequence submitted by the user. BLAT is … It was developed to align millions of …

pblat: a multithread blat algorithm speeding up aligning sequences to genomes

M Wang, L Kong - BMC bioinformatics, 2019 - Springer
… The blat is a widely used sequence alignment tool. It is especially useful for aligning long …
However, the blat tool is single threaded and when used to map whole genome or whole …

[PDF][PDF] Bfast: Blat-like fast accurate search tool

N Homer - Bfast: Blat-like fast accurate search tool, 2009 - vcru.wisc.edu
… for creating and distributing the BLAT program (Kent (2002)), which was both a motivation
for this work, and was also the basis for our initial practical large scale alignment pipeline. We …

Tools used in sequence alignment

V Sharma, I Sheikh, V Kushwaha, A Panwar… - Bioinformatics: Drug …, 2024 - degruyter.com
…  BLAT BLAST-like alignment tool … In conclusion, sequence alignment tools play a crucial
role in the field of bioinformatics and genomics, enabling researchers to compare biological …

PxBLAT: an efficient python binding library for BLAT

Y Li, R Yang - BMC bioinformatics, 2024 - Springer
… , the demand for efficient bioinformatics tools for sequence analysis has become
paramount. BLAST-like alignment tool (BLAT), a sequence alignment tool, faces limitations in …

CLAST: CUDA implemented large-scale alignment search tool

M Yano, H Mori, Y Akiyama, T Yamada, K Kurokawa - BMC bioinformatics, 2014 - Springer
… We chose only BLAST and BLAT in the accuracy test because these two tools are widely … ,
BLAST, BLAT, and CLAST. Fourthly, we removed hits from the results for each alignment tool if …

Homology Search Tools

KM Chao, L Zhang - Sequence Comparison: Theory and Methods, 2009 - Springer
… Section 4.4 describes BLAT, short for “BLAST-like alignment tool.” It is often used to
search for the database sequences that are closely related to the query sequences such as …