P-Match protocols

P-Match specifications

Information


Unique identifier OMICS_18433
Name P-Match
Interface Web user interface
Restrictions to use None
Input data A library of weight matrices, a profile file containing a set of matrix accession numbers, a DNA sequence file.
Input format TRANSFAC, FASTA EMBL
Programming languages C++, Perl
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Kel AE <>

Additional information


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Information


Unique identifier OMICS_18433
Name P-Match
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data A library of weight matrices, a profile file containing a set of matrix accession numbers, a DNA sequence file.
Input format TRANSFAC, FASTA EMBL
Operating system Unix/Linux, Windows
Programming languages C++, Perl
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


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Maintainer


  • person_outline Kel AE <>

Additional information


A registration is needed to access to tool.

Publication for P-Match

P-Match IN pipeline

2012
PMCID: 3264657
PMID: 22292071
DOI: 10.1371/journal.pone.0030895

[…] syrichta) sequences were identified from the whole-genome shotgun sequence database in ncbi using blastn [62]. sequence alignment was performed using multi-lagan [63] and visualized in bioedit [64]. p-match [65] was used for identification and scoring of yy1 dna response elements. matching was performed to predefined vertebrate matrices in a liver specific profile., the proximal 370 bp […]

P-Match institution(s)
BIOBASE GmbH, Wolfenbuttel, Germany
P-Match funding source(s)
Supported by a grant of the European Commission (Projects: Intergenomics, COMBIO, INTAS:N.03-51- 5218, TRANSISTOR), and by grant BioProfile Braunschweig/ Gottingen/Hannover (0 313 092).

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