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Protein-level assembly increases protein sequence recovery from metagenomic samples manyfold

Martin Steinegger, Milot Mirdita, Johannes Söding
doi: https://doi.org/10.1101/386110
Martin Steinegger
1Quantitative and Computational Biology Group, Max-Planck Institute for Biophysical Chemistry, Am Faßberg 11, 37077 Göttingen, Germany
2Department for Bioinformatics and Computational Biology, Technische Universität München, 85748 Garching, Germany
3Department of Chemistry, Seoul National University, Seoul, Korea
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  • For correspondence: martin.steinegger@mpibpc.mpg.de soeding@mpibpc.mpg.de
Milot Mirdita
1Quantitative and Computational Biology Group, Max-Planck Institute for Biophysical Chemistry, Am Faßberg 11, 37077 Göttingen, Germany
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Johannes Söding
1Quantitative and Computational Biology Group, Max-Planck Institute for Biophysical Chemistry, Am Faßberg 11, 37077 Göttingen, Germany
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  • For correspondence: martin.steinegger@mpibpc.mpg.de soeding@mpibpc.mpg.de
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Abstract

The open-source de-novo Protein-Level ASSembler Plass (https://plass.mmseqs.org) assembles six-frame-translated sequencing reads into protein sequences. It recovers 2 to 10 times more protein sequences from complex metagenomes and can assemble huge datasets. We assembled two redundancy-filtered reference protein catalogs, 2 billion sequences from 640 soil samples (SRC) and 292 million sequences from 775 marine eukaryotic metatranscriptomes (MERC), the largest free collections of protein sequences.

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Posted August 07, 2018.
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Protein-level assembly increases protein sequence recovery from metagenomic samples manyfold
Martin Steinegger, Milot Mirdita, Johannes Söding
bioRxiv 386110; doi: https://doi.org/10.1101/386110
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Protein-level assembly increases protein sequence recovery from metagenomic samples manyfold
Martin Steinegger, Milot Mirdita, Johannes Söding
bioRxiv 386110; doi: https://doi.org/10.1101/386110

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