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BMC Res Notes. 2017 Jun 12;10(1):208. doi: 10.1186/s13104-017-2533-9.

rdml: A Mathematica package for parsing and importing Real-Time qPCR data.

Author information

1
Theoretical Biology and Bioinformatics, Utrecht University, Padualaan 8, 3584 CH, Utrecht, The Netherlands. ramiro.magno@gmail.com.
2
CBMR, Centre for Biomedical Research, University of Algarve, 8005-139, Faro, Portugal. ramiro.magno@gmail.com.
3
CBMR, Centre for Biomedical Research, University of Algarve, 8005-139, Faro, Portugal.
4
CMBI, Center for Molecular and Biomolecular Informatics-NCMLS, Radboud University, Geert Grooteplein 28, 6525 GA, Nijmegen, The Netherlands.
5
Regenerative Medicine Program, Department of Biomedical Sciences and Medicine, University of Algarve, 8005-139, Faro, Portugal.

Abstract

OBJECTIVE:

The purpose and objective of the research presented is to provide a package for easy importing of Real-Time PCR data markup language (RDML) data to Mathematica.

RESULTS:

Real-Time qPCR is the most widely used experimental method for the accurate quantification of gene expression. To enable the straightforward archiving and sharing of qPCR data and its associated experimental information, an XML-based data standard was developed-the Real-Time PCR data markup language (RDML)-devised by the RDML consortium. Here, we present rdml, a package to parse and import RDML data into Mathematica, allowing the quick loading and extraction of relevant data, thus promoting the re-analysis, meta-analysis or experimental re-validation of gene expression data deposited in RDML format.

KEYWORDS:

DNA; Mathematica; PCR; RDML; RNA; Wolfram; qPCR

PMID:
28606167
PMCID:
PMC5469176
DOI:
10.1186/s13104-017-2533-9
[Indexed for MEDLINE]
Free PMC Article

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