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Fig. 1 | Genome Biology

Fig. 1

From: The proBAM and proBed standard formats: enabling a seamless integration of genomics and proteomics data

Fig. 1

Overview of the proBAM and proBed proteogenomics standard formats. Both proBAM and proBed can be created from well-established proteomics standard formats containing peptide and protein identification information (mzTab and mzIdentML, blue box), which are derived from their corresponding MS data spectrum files (mzML, brown box). The proBAM and proBed formats (green box) contain similar PSM-related and genomic mapping information, yet proBAM contains more details, including enzymatic (protease) information, key in proteomics experiments (enzyme type, mis-cleavages, enzymatic termini, etc.) and mapping details (CIGAR, flag, etc.). Additionally, proBAM is able to hold a full MS-based proteomics identification result set, enabling further downstream analysis in addition to genome-centric visualization, as it is also the purpose for proBed (purple box)

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Genome Biology

ISSN: 1474-760X

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