Protocols

SSPA specifications

Information


Unique identifier OMICS_26996
Name SSPA
Alternative name Sample Size and Power Analysis
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 2.0
Computer skills Advanced
Version 2.20.0
Stability Stable
Requirements
qvalue, limma, methods, stats, graphics, R(>=2.12), BiocStyle, edgeR, lattice, DESeq, genefilter
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Maarten van Iterson

Publications for Sample Size and Power Analysis

SSPA citations

 (2)
call_split

Subtilisin like protease 1 secreted through type IV secretion system contributes to high virulence of Streptococcus suis 2

2016
Sci Rep
PMCID: 4897608
PMID: 27270879
DOI: 10.1038/srep27369
call_split See protocol

[…] ed using SYBR premix Ex TaqTM (TaKaRa) in an Eco Real-Time PCR System (Illumina). Levels of 16S rRNA were used as internal control. The primers used for qRT-PCR are shown in . The fold changes of the sspA-1 transcripts were quantified using a comparative threshold cycle (ΔΔCT) program in the Eco software package. The assays were performed in triplicate. […]

library_books

Genome Wide Analysis of Cell Type Specific Gene Transcription during Spore Formation in Clostridium difficile

2013
PLoS Genet
PMCID: 3789822
PMID: 24098137
DOI: 10.1371/journal.pgen.1003756

[…] xpression will require further investigations.It is worth noting that the expression of many sigG-controlled genes (82% of σG regulon members) including those for key sporulation proteins like SpoVA, SspA, SspB and PdaA was strongly reduced in a sigF mutant in transcriptome (). The absence of detection of the complete σG regulon in the sigF mutant might be due to the timing of sampling (14 h) that […]

SSPA institution(s)
Center for Human and Clinical Genetics, Leiden University Medical Center, Leiden, The Netherland; Department of Epidemiology and Biostatistics, VU University Medical Center, Amsterdam, The Netherlands; Erasmus Medical Centre, Sophia Children’s Hospital, Laboratory of Pediatric Oncology/Hematology, Rotterdam, The Netherlands; Netherlands Bioinformatics Centre, Nijmegen, The Netherlands
SSPA funding source(s)
Supported by a BSIK grant through the Netherlands Genomics Initiative.

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