Universal Multi-omics Reference and Alignment Database
This repository involves a series of pipelines that create a Universal Reference to unite and analyze multi-omics data.
Currently the different databases are separated - to keep things simple for me when I made them.
1. Universal Taxonomy Database: found here
2. Universal Compounds Database and + 3. Universal Reactions Database: found here
4. Universal Protein Alignment Database: found here
5. Universal ncRNA Alignment Database: found here
- These databases span all kingdoms of life.
- The databases allow the simultaneous identification of microbial community phylogeny and functions.
- All the biological molecules/compounds and their data are linked to their enzymes and transporters to map the flow of metabolites in microbe-microbe or microbe-host interactions.
- The databases are used for (meta)transcriptomics, (meta)proteomics, metabolomics, metagenomics, and for novel binning and MAG quality control software I've created. This way many types of data can be combined into a secondary analysis, with taxonomy and functions being directly linked. It also covers both the protein and the non-coding fraction of sequencing.
There are several primary and secondary microbiome analysis pipelines on my main GitHub page that use these databases:
- RNAseq/Metatranscriptome Analysis here
- Metagenome Primary Analysis here
- Metabolomics Analysis - TBD; for now you can directly link the metabolomics output to compounds->reactions->proteins/oranisms using the Functional and Protein databases
- Strain-level Metagenome Binning here
- Secondary Functional Analysis and Visualization here