DyNB specifications

Information


Unique identifier OMICS_04635
Name DyNB
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages MATLAB
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Maintainers


  • person_outline Harri Lahdesmaki
  • person_outline Tarmo aijo

Publication for DyNB

DyNB citations

 (2)
library_books

Dynamics in Transcriptomics: Advancements in RNA seq Time Course and Downstream Analysis

2015
Comput Struct Biotechnol J
PMCID: 4564389
PMID: 26430493
DOI: 10.1016/j.csbj.2015.08.004

[…] ization is performed by variance estimation and rescaling of counts similar to DESeq , but on the previously calculated Gaussian process function rather then directly on the samples. In the next step DyNB uses a Markov-Chain-Monte-Carlo (MCMC) sampling algorithm for marginal likelihoods that enables the DEG analysis. A comparison of the DyNB and DESeq candidates showed that the DyNB outperforms DE […]

library_books

Linking gene expression to phenotypes via pathway information

2015
J Biomed Semantics
PMCID: 4404592
PMID: 25901272
DOI: 10.1186/s13326-015-0013-5

[…] iables. Efforts are being made to generalise these tools and resources so that analysis of complex designs can be made easier. Examples include software for the analysis of time-series data sets. The DyNB tools suite in [] and NextmaSigPro [] are examples of software tools that enable analysis of time-series data sets.Efforts have also been made to tackle the complexities of tissue specific gene e […]

DyNB institution(s)
Department of Information and Computer Science, Aalto University, Aalto, Finland; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA, USA; Turku Centre for Biotechnology, University of Turku and Åbo Akademi University, Turku, Finland
DyNB funding source(s)
The Academy of Finland [Centre of Excellence in Molecular Systems Immunology and Physiology Research (2012-2017), grant 135320], EU FP7 grant (EC-FP7- SYBILLA-201106), EU ERASysBio ERA-NET, the Sigrid Juselius Foundation and FICS graduate school.

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