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NASTIseq | Integrated detection of natural antisense transcripts using strand-specific RNA sequencing data

Identifies cis-natural antisense transcripts (cis-NATs) pairs using strand-specific RNA sequencing (ssRNA-seq) data. NASTIseq provides an R package based on model comparison for characterizing the mechanism by which cis-NAT pairs regulate gene expression. This method first calculates a score based on Bayesian information criterion (BIC), and then identifies candidate cis-NAT pairs that have small intergenic distances and are on opposite strands in the genome.

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NASTIseq classification

NASTIseq specifications

Unique identifier:
OMICS_01945
Alternative name:
NASTI-seq
Interface:
Command line interface
Operating system:
Unix/Linux, Mac OS, Windows
Computer skills:
Advanced
Stability:
Stable
Source code URL:
https://ohlerlab.mdc-berlin.de/files/duke/NASTIseq/NASTIseq_1.0.tar.gz
Name:
Natural AntiSense Transcripts Identification using RNA-seq
Software type:
Package/Module
Restrictions to use:
None
Programming languages:
R
Version:
1.0
Requirements:
ROCR, DESeq
Maintained:
Yes

NASTIseq distribution

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NASTIseq support

Documentation

Maintainer

  • Uwe Ohler <>

Credits

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Publications

Institution(s)

Institute for Genome Sciences & Policy, Duke University, Durham, NC, USA; Department of Biology, Duke University, Durham, NC, USA; Duke Center for Systems Biology, Duke University, Durham, NC, USA; Department of Biostatistics and Bioinformatics, Duke University, Durham, NC, USA

Funding source(s)

Supported by a grant from the NSF Arabidopsis 2010 project (IOS-1021619).

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