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Number of citations per year for the bioinformatics software tool ARH
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Protocols

ARH specifications

Information


Unique identifier OMICS_07626
Name ARH
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Axel Rasche

Publication for ARH

ARH citations

 (4)
call_split

Algorithms for differential splicing detection using exon arrays: a comparative assessment

2015
BMC Genomics
PMCID: 4391533
PMID: 27391904
DOI: 10.1186/s12864-015-1322-x
call_split See protocol

[…] the fold change (FC) often used on the gene level. As opposed to the FC, exon expression is first normalized to the corresponding gene expression before calculating the ratio between two conditions. ARH, an information theoretical approach based on Shannon’s entropy, computes the splicing deviation between conditions for every exon and transforms it into a probability for differential splicing. A […]

library_books

A robust estimation of exon expression to identify alternative spliced genes applied to human tissues and cancer samples

2014
BMC Genomics
PMCID: 4298068
PMID: 25297679
DOI: 10.1186/1471-2164-15-879

[…] ethods and to compare the accuracy in the detection of known splicing events []. First, we tried our method in ESLiMa, ESLiMc and ESLiMt. In parallel, we also tried three published methods: FIRMA [], ARH [] and COSIE []. The most widely used is FIRMA (referred in 75 publications according to Google-Scholar in April 2014), which is based on an extension of the additive model of the RMA method [].Th […]

library_books

The conserved ubiquitin like protein Hub1 plays a critical role in splicing in human cells

2014
PMCID: 4141198
PMID: 24872507
DOI: 10.1093/jmcb/mju026

[…] sis via Affymetrix Powertools (ATLAS Biolabs GmbH) as described previously (). Relative expression profiles of individual probes after Hub1 or control knockdown in U2OS cells were processed using the ARH method, resulting in metascores based on Splice index (SI), P-value (P, log10), and arh-value (arh, >0.03 significant). For initial analysis CEL files were processed using AltAnalyze software (ver […]

library_books

TGF β drives epithelial mesenchymal transition through δEF1 mediated downregulation of ESRP

2011
Oncogene
PMCID: 3391666
PMID: 22037216
DOI: 10.1038/onc.2011.493

[…] nsferase 1. The primer sequences are shown in . Oligonucleotide microarray analysis was performed using GeneChip Mouse Exon 1.0 ST Array (Affymetrix) according to the manufacturer's instructions. The ARH method was used to identify exons differentially expressed between non-treated and TGF-β-treated NMuMG cells (). Exon-array data are available at Gene Expression Omnibus (GSE28184). […]


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ARH institution(s)
Department of Vertebrate Genomics, Max-Planck-Institute for Molecular Genetics, Berlin, Germany
ARH funding source(s)
Supported by European Union under its 6th Framework Programme with the grants SysProt (LSHG-CT-2006-037457); SysCo (LSHG-CT2006-037231); and Max Planck Society.

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