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Metatranscriptomics Analysis of Macaques with Idiopathic Chronic Diarrhea (ICD)

David Seide November 23, 2020

1. Introduction Juvenile rhesus macaques commonly suffer from idiopathic chronic diarrhea (ICD). This disease is characterized by inflammation of the colon and repeated bouts of diarrhea. It is a common cause of morbidity and mortality among macaques because it is unresponsive to drugs. The gut microbiome of macaques with ICD is characterized by abrupt changes when compared to healthy individuals.

Transcriptome analysis reveals important metabolic pathways of Allium sativum

Mariana Monteiro October 6, 2020

OmicsBox was used to perform the complete transcriptome analysis of Allium sativum. Enrichment analysis revealed important metabolic pathways.

OmicsBox Update Version 1.4

Stefan Götz September 24, 2020

We are happy to announce the latest version of OmicsBox 1.4, a very technical release of the OmicsBox base platform. We upgraded many internal libraries and updated to the latest version of many underlying software packages. These changes required a lot of code-refactoring and software testing to comply with all our internal security and quality standards. OmicsBox is now more

The functional annotation of the plant Moringa oleifera

Mariana Monteiro July 13, 2020

This project shows how OmicsBox was used to functional annotate Moringa oleifera and to better understand the genome of the plant.

OmicsBox Update Version 1.3

Stefan Götz April 29, 2020

We are happy to announce that the OmicsBox Update Version 1.3 has now been released. OmicsBox provides now Long-Read support for DNA-Seq data analysis pipelines. Several new tools and updates improve the transcriptomics module and a new statistical package in the Metagenomics Module allow to identify functional differences among microbiome samples.

New Genome Analysis Features

Carlos Menor October 25, 2019

Release OmicsBox version 1.2 (24th of October, 2019) We are happy to announce the following updates for the genome analysis module. New feature includes a new DNA-Seq de novo assembly strategy based on SPAdes.More details can be found below as well as in the online user manual and Genome Analysis Module website. DNA-Seq de Novo Assembly: SPAdes SPAdes (St Petersburg genome

New Transcriptomics Features

Carlos Menor October 25, 2019

Release OmicsBox version 1.2 (24th of October, 2019) We are happy to announce the following updates for the transcriptomics module. New features include Completeness Assessment and Predict Coding Regions. More details can be found below as well as in the online user manual and Transcriptomics Module website. Completeness Assessment The Completeness Assessment functionality provides quantitative measures for the assessment of transcriptome assembly completeness, based on

New Metagenomics Features

David Seide October 24, 2019

Release OmicsBox version 1.2 (24th of October, 2019) We are happy to announce the following updates for the Metagenomics Module. New Metagenomics feature include OTU Differential Abundance Testing and several new taxonomy plots: Chao1 Diversity, Rarefaction Curves and PCoA. More details can be found below as well as in the online user manual and Metagenomics Module website. New Taxonomy Statistics

OmicsBox Example Datasets

Mariana Monteiro June 14, 2019

This provides example data to be used in OmicsBox.

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Metatranscriptomics Analysis of Macaques with Idiopathic Chronic Diarrhea (ICD)

Transcriptome analysis reveals important metabolic pathways of Allium sativum

OmicsBox Update Version 1.4

The functional annotation of the plant Moringa oleifera

OmicsBox Update Version 1.3

New Genome Analysis Features

New Transcriptomics Features

New Metagenomics Features

OmicsBox Example Datasets

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