PMID- 28654728
OWN - NLM
STAT- MEDLINE
DCOM- 20171106
LR  - 20200108
IS  - 1934-340X (Electronic)
IS  - 1934-3396 (Linking)
VI  - 58
DP  - 2017 Jun 27
TI  - Finding Similar Nucleotide Sequences Using Network BLAST Searches.
PG  - 3.3.1-3.3.25
LID - 10.1002/cpbi.29 [doi]
AB  - The Basic Local Alignment Search Tool (BLAST) is the first tool in the annotation 
      of nucleotide or amino acid sequences. BLAST is a flagship of bioinformatics due 
      to its performance and user-friendliness. Beginners and intermediate users will 
      learn how to design and submit blastn and Megablast searches on the Web pages at 
      the National Center for Biotechnology Information. We map nucleic acid sequences 
      to genomes, find identical or similar mRNAs, expressed sequence tag, and 
      noncoding RNA sequences, and run Megablast searches, which are much faster than 
      blastn. Understanding results is assisted by taxonomy reports, genomic views, and 
      multiple alignments. We interpret expected frequency thresholds, biological 
      significance, and statistical significance. Weak hits provide no evidence, but 
      indicate hints for further analyses. We find genes that may code for homologous 
      proteins by translated BLAST. We reduce false positives by filtering out 
      low-complexity regions. Parsed BLAST results can be integrated into analysis 
      pipelines. Links in the output connect to Entrez and PubMed, as well as 
      structural, sequence, interaction, and expression databases. This facilitates 
      integration with a wide spectrum of biological knowledge. (c) 2017 by John Wiley & 
      Sons, Inc.
CI  - Copyright (c) 2017 John Wiley & Sons, Inc.
FAU - Ladunga, Istvan
AU  - Ladunga I
AD  - Departments of Statistics, Biochemistry, and School of Biological Sciences, 
      University of Nebraska-Lincoln, Lincoln, Nebraska.
LA  - eng
PT  - Journal Article
DEP - 20170627
PL  - United States
TA  - Curr Protoc Bioinformatics
JT  - Current protocols in bioinformatics
JID - 101157830
SB  - IM
MH  - Amino Acid Sequence
MH  - Computational Biology/*methods
MH  - Internet
MH  - Sequence Analysis/*methods
MH  - *Software
OTO - NOTNLM
OT  - BLAST
OT  - DNA
OT  - Megablast
OT  - RNA
OT  - blastn
OT  - database search
OT  - genome
OT  - homology search
OT  - mapping
OT  - nucleic acid
OT  - sequence alignment
EDAT- 2017/06/28 06:00
MHDA- 2017/11/07 06:00
CRDT- 2017/06/28 06:00
PHST- 2017/06/28 06:00 [entrez]
PHST- 2017/06/28 06:00 [pubmed]
PHST- 2017/11/07 06:00 [medline]
AID - 10.1002/cpbi.29 [doi]
PST - epublish
SO  - Curr Protoc Bioinformatics. 2017 Jun 27;58:3.3.1-3.3.25. doi: 10.1002/cpbi.29.