DNAPLOT specifications

Information


Unique identifier OMICS_19798
Name DNAPLOT
Interface Web user interface
Restrictions to use None
Input data A single sequence or some multiple sequences.
Input format RAW, FASTA
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline VBASE2 Team <>

Additional information


http://www.vbase2.org/vbhelp.php DNAPLOT is a part of VBASE2 website.

Publications for DNAPLOT

library_books

VBASE2, an integrative V gene database.

2005 Nucleic Acids Res
PMCID: 540042
PMID: 15608286
DOI: 10.1093/nar/gki088
werner muller
werner muller
werner muller
werner muller
werner muller
werner muller
werner muller
werner muller
werner muller
werner muller
werner muller

DNAPLOT in publications

 (12)
PMCID: 4488840
PMID: 26131718
DOI: 10.1371/journal.pone.0131482

[…] right reading frame with no stop codon. the derived amino acid sequences and complementary determining regions (cdrs) are shown in the framework regions (frs) and cdrs were determined by the v-base dnaplot software. the length of cdrs was variable. the length of cdr1 vh ranged from 9 to 11 amino acid residues, with an average length of 10 residues, cdr2 vh with an average length of 7 residues, […]

PMCID: 3883639
PMID: 24409278
DOI: 10.1371/journal.pone.0081913

[…] somatic hypermutations were identified by comparing the sequences to the vbase (http://vbase.mrc-cpe.cam.ac.uk/) database of variable region germline sequences using the dnaplot software. multiple identical sequences were excluded from analysis and the percent of sequences excluded did not differ between group (median percent of redundant sequences relative […]

PMCID: 3929437
PMID: 24256717
DOI: 10.4161/mabs.27236

[…] of both heavy and light chain genes (fragment size ~1kb). sequences from at least five intact, randomly chosen scfvs per sublibrary were determined and analyzed by sequence alignment software dnaplot (http://www2.mrc-lmb.cam.ac.uk/vbase/dnaplot2.php) to identify the closest germline v, (d), and j segment genes as deposited in vbase. complementarity-determining regions (cdrs) […]

PMCID: 3573080
PMID: 23420489
DOI: 10.3892/ol.2012.1028

[…] were purified by gel electrophoresis, then sequenced. the most similar vh and dh germline gene segments were identified by sequence comparison to the international immunogenetics database with dnaplot software (http://imgt.cines.fr)., dna was isolated from tumour samples by standard phenol-chloroform extraction. t(14;18)-(igh;bcl-2) translocation, at the major break point region (mbr) […]

PMCID: 3373585
PMID: 22719874
DOI: 10.1371/journal.pone.0038291

[…] of phage panning, individual clones from enriched phage pools were analyzed by elisa against sfts virions or purified n protein. the positive human fab clones were sequenced and aligned with the dnaplot program for alignment to the vbase database. the human fab antibodies selected based on binding activity and sequence variance were converted to human igg by cloning the fab genes […]


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DNAPLOT institution(s)
Department of Experimental Immunology, Helmholtz Centre for Infection Reseach, Braunschweig, Germany

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