BLASTX statistics

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Protocols

BLASTX specifications

Information


Unique identifier OMICS_00992
Name BLASTX
Interface Web user interface
Restrictions to use None
Input data Accession numbers, gis, or sequences.
Input format FASTA, TXT
Computer skills Basic
Stability Stable
Maintained Yes

Documentation


Publications for BLASTX

BLASTX citations

 (5606)
call_split

Viromic Analysis of Wastewater Input to a River Catchment Reveals a Diverse Assemblage of RNA Viruses

2018
mSystems
PMCID: 5964442
DOI: 10.1128/mSystems.00025-18
call_split See protocol

[…] ) sequences from 3′ and 5′ ends of reads.The positive- and negative-control libraries described earlier were used for contaminant removal. The reads of the control samples were analyzed using Diamond blastx () against the nonredundant protein database of NCBI (nr, November 2015 version). The blast results were visualized using MEGAN6 Community Edition (). An extra contaminant file was created with […]

library_books

Characterization of new microsatellite markers based on the transcriptome sequencing of Clematis finetiana

2018
Hereditas
PMCID: 5952850
PMID: 29785177
DOI: 10.1186/s41065-018-0060-x

[…] Trinity [] software was used to assemble all clean high-quality reads. The expression level of transcripts was measured by RSEM, and the result was reported by units of TPM (transcripts per million).BLASTX was employed to annotate the function of unigene sequences using no redundant (Nr) protein database (NCBI), Swiss Prot database, KEGG (Kyoto Encyclopedia of Genes and Genomes), COG (Clusters of […]

library_books

Genomic evidence for intraspecific hybridization in a clonal and extremely halotolerant yeast

2018
BMC Genomics
PMCID: 5952469
PMID: 29764372
DOI: 10.1186/s12864-018-4751-5

[…] d strains (Fig. ). In genomes A, B, D and G no genes were predicted in the region where MAT1–2 gene was expected. When this region was manually searched against the GenBank database for proteins with BLASTX, no matches were found. However, when these genomic regions were compared to the well-conserved MAT1–2 genes from other H. werneckii strains, the similarity was clearly recognizable, suggesting […]

library_books

Microscopic and Molecular Evidence of the First Elasmobranch Adomavirus, the Cause of Skin Disease in a Giant Guitarfish, Rhynchobatus djiddensis

2018
MBio
PMCID: 5954223
PMID: 29764943
DOI: 10.1128/mBio.00185-18

[…] he cleaned reads were de novo assembled using an in-house sequence assembler employing an ensemble strategy (), and the resulting assembled contigs were compared to the GenBank protein database using BLASTx. Once the viral contigs were identified, a complete circular genome was constructed from the available contigs and reads using Geneious (Biomatters), which was also used to generate coverage an […]

library_books

Evolutionary instability of CUG Leu in the genetic code of budding yeasts

2018
Nat Commun
PMCID: 5951914
PMID: 29760453
DOI: 10.1038/s41467-018-04374-7

[…] pplementary Table ). Proteins encoded by these elements were used as queries in TBLASTN searches against a database of all 54 fungal genomes, and potential pseudogenes were then tested for reciprocal BLASTX hits to VLE proteins. […]

library_books

Transcriptome and Co Expression Network Analyses Identify Key Genes Regulating Nitrogen Use Efficiency in Brassica juncea L.

2018
Sci Rep
PMCID: 5945678
PMID: 29748645
DOI: 10.1038/s41598-018-25826-6

[…] The correctly assembled transcripts were searched against NCBI NR protein sequence database using BLASTX at an E-value threshold of 10−5. The transcripts that had no sequence similarity but may belong to different regions of similar gene were identified and clustered using Dissimilar Sequence (DS) […]

Citations

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BLASTX institution(s)
National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA

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Anonymous user #33239

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Web
Useful, but should have better UI