General Unified Microbiome Profiling Pipeline (GUMPP) was developed for large scale, streamlined and reproducible analysis of bacterial 16S rRNA data and prediction of microbial metagenomes, enzymatic reactions and metabolic pathways from amplicon data. GUMPP workflow introduces reproducible data analyses at each of the three levels of resolution (genus; operational taxonomic units (OTUs); amplicon sequence variants (ASVs)). The ability to support reproducible analyses enables production of datasets that ultimately identify the biochemical pathways characteristic of disease pathology. These datasets coupled to biostatistics and mathematical approaches of machine learning can play a significant role in extraction of truly significant and meaningful information from a wide set of 16S rRNA datasets. The adoption of GUMPP in the gut-microbiota related research enables focusing on the generation of novel biomarkers that can lead to the development of mechanistic hypotheses applicable to the development of novel therapies in personalized medicine.
| Jezik: | Angleški jezik |
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| Ključne besede: | 16S rRNA, amplicon, Mothur, PICRUSt 2, Piphillin, genus, OTU, ASV, predicted metagenomes, predicted enzymatic reactions, predicted metabolic pathways, reproducible analyses, human microbiome, gut, intestine, mice |
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| Vrsta gradiva: | Članek v reviji |
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| Tipologija: | 1.01 - Izvirni znanstveni članek |
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| Organizacija: | FE - Fakulteta za elektrotehniko
BF - Biotehniška fakulteta
FGG - Fakulteta za gradbeništvo in geodezijo
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| Status publikacije: | Objavljeno |
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| Različica publikacije: | Objavljena publikacija |
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| Leto izida: | 2021 |
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| Št. strani: | 14 str. |
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| Številčenje: | Vol. 11, iss. 6, art. 336 |
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| PID: | 20.500.12556/RUL-135449  |
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| UDK: | 579 |
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| ISSN pri članku: | 2218-1989 |
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| DOI: | 10.3390/metabo11060336 |
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| COBISS.SI-ID: | 64527363 |
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| Datum objave v RUL: | 15.03.2022 |
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| Število ogledov: | 444 |
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| Število prenosov: | 104 |
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| Metapodatki: |     |
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