Pictogram pipeline

Pictogram specifications

Information


Unique identifier OMICS_10787
Name Pictogram
Interface Web user interface
Restrictions to use None
Input data DNA sequences
Input format FASTA, Raw
Output format The program outputs postscript and PDF, for easy viewing and printing.
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Chris Burge <>

Pictogram IN pipelines

 (5)
2017
PMCID: 5499736
PMID: 28402567
DOI: 10.1093/nar/gkx256

[…] and ptc-containing transcripts, a custom perl script was first used to extract sequences from around the splicing donor and acceptor sites. after alignment, these sequences were submitted to the pictogram online server (http://genes.mit.edu/pictogram.html) for plotting the sequence logo and calculating its information content. structural features of ptc-containing and normal transcripts […]

2017
PMCID: 5499736
PMID: 28402567
DOI: 10.1093/nar/gkx256

[…] script was first used to extract sequences from around the splicing donor and acceptor sites. after alignment, these sequences were submitted to the pictogram online server (http://genes.mit.edu/pictogram.html) for plotting the sequence logo and calculating its information content. structural features of ptc-containing and normal transcripts were analyzed using a series of custom perl […]

2014
PMCID: 4122784
PMID: 25001858
DOI: 10.1186/1471-2164-15-574

[…] sequence identity, with a number of other vtx-phages identified in different vtec strains (table 1). the alignment of all the phage sequences comprised in the 100%-60% similarity range is shown in a pictogram generated with the circoletto online tool [30] (figure 2) and in another one produced by mauve software (in additional file 1: figure s1).table 1strainsimilarity%acc. no.reference e. coli […]

2008
PMCID: 2483917
PMID: 18688272
DOI: 10.1371/journal.pgen.1000148

[…] for 5′ splice sites we used a similar methodology as described in [9]. the first 6 bases of each intron were extracted, and information content in bits for positions +3 to +6 was calculated using pictogram software online (http://genes.mit.edu/pictogram.html)., we downloaded available est sequences for o. lucimarinus from ncbi on april 4th, and performed standalone blastn searches […]

2008
PMCID: 2483917
PMID: 18688272
DOI: 10.1371/journal.pgen.1000148

[…] as described in [9]. the first 6 bases of each intron were extracted, and information content in bits for positions +3 to +6 was calculated using pictogram software online (http://genes.mit.edu/pictogram.html)., we downloaded available est sequences for o. lucimarinus from ncbi on april 4th, and performed standalone blastn searches for each predicted intron-containing o. lucimarinus gene […]

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