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Fig. 8 | Microbiome

Fig. 8

From: Ultra-sensitive isotope probing to quantify activity and substrate assimilation in microbiomes

Fig. 8

Protein-SIP and direct Protein-SIF workflow using Calis-p 2.1. The data filtering and computations illustrated in step (5) all happen in Calis-p in a fully automated fashion. The user has the ability to set specific parameters when starting the program. Full details on how to operate Calis-p are provided in the Wiki at https://sourceforge.net/projects/calis-p/. Not shown in the figure is that for Protein-SIF calibration of values with a reference material is needed, for details on this see the supplementary text and the original Protein-SIF publication [14]. In step (3), as in most metaproteomics applications, a well-curated protein sequence database is needed for peptide identification (see details in [39])

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