MuDoGeR genome recovery from clinical samples by Taur et al. 2018 0 14253

Project
POF3 - T4 - Chemicals in the environment - pHuMAGs
Description
Comparing MuDoGeR genome-centric diversity with Kraken. To illustrate Kraken microbiome analysis, Lu et al., 2022 (https://www.nature.com/articles/s41596-022-00738-y) applied it to three metagenomic sequencing samples collected from Taur et al., 2018 (https://www.science.org/doi/full/10.1126/scitranslmed.aap9489). The samples exemplify a normal state of the patient microbiome and its reduced diversity state after antibiotic treatment.

Used samples: SRR14092160, SRR14092310, and SRR14143424,

After recovering the genomes from the clinical samples (MuDoGeR modules 1-4), we applied MuDoGeR module 5 to perform a complete read mapping against the recovered sequences.

This archive contains the complete outputs from the MuDoGeR application on the 3 samples and is intended as a Usecase of the MuDoGeR tool.

MuDoGeR: https://github.com/mdsufz/MuDoGeR
Size
60,5 GB
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Metadata Catalogues
Dublin Core
URI
https://www.ufz.de/record/dmp/archive/14253
Subject
Samples used as use case in the MuDoGeR paper
Publication Date
16.10.2023
Type of data
collection of various data
Creators
Kasmanas, Jonas Coelho
Publisher
Helmholtz-Centre for Environmental Research
Rights holders
Helmholtz-Centre for Environmental Research
Time or Period of creation
16.10.2023
Language of the content
English
Access permissions
free access