Metaproteomics Analysis
Environment:
human gut
Reference:
Verberkmoes NC, Russell AL, Shah M, Godzik A, Rosenquist M, Halfvarson J, Lefsrud MG, Apajalahti J, Tysk C, Hettich RL, Jansson JK. (2009) Shotgun metaproteomics of the human
distal gut microbiota. ISME J. 2009 Feb;3(2):179-89. .
Environment:
phyllosphere bacteria
Reference:
Delmotte N, Knief C, Chaffron S, Innerebner G, Roschitzki B, Schlapbach R, von Mering C, Vorholt JA (2009). Community proteogenomics reveals insights into the physiology of phyllosphere bacteria. PNAS 106(38) 16428-16433. .
Environment:
marine
Reference:
Morris RM, Nunn BL, Frazar C, Goodlett DR, Ting YS, Rocap G (2010). Comparative metaproteomics reveals ocean-scale shifts in microbial nutrient utilization and energy transduction. ISME Journal 4, 673-685. .
Load data from the PRIDE archive
You can easily load data from the PRIDE data repository. Simply enter an assay id (e.g. 8500) in the field below and click the 'Load PRIDE Dataset' button. The corresponding dataset will then be fetched using the PRIDE API and loaded into the search form on the left.
Enter a peptide list
Paste a list of peptides from your metaproteomics experiment in the search box. Each line should contain a single peptide.
Click search
Review the search settings for peptide deduplication, advanced missed cleavage handling and equating isoleucine and leucine before clicking search.
Gain insight
For each of the peptides, the lowest common ancestor (LCA) will be calculated, aggregated and visualised on the result page, giving you insight in the taxonomic diversity of your sample.