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. Author manuscript; available in PMC: 2018 Jan 6.
Published in final edited form as: J Proteome Res. 2016 Nov 2;16(1):45–54. doi: 10.1021/acs.jproteome.6b00608

Figure 3.

Figure 3

(A) Assembled meta-contig covering 52 AA of the variable region of a putative antibody. The top-most de novo sequence is the highest-scoring interpretation of all 536 star spectra from this meta-contig (seen on left in zoomed out view). Each blue spectrum denotes a star spectrum where noise peaks (non-PRM masses) are removed based on alignment to neighboring spectra27. The sequence in red denotes a de novo sequence covering a less-abundant clonal derivative that was manually extracted using the PolyExtend tool. (B) Example output of PolyExtend while extending a partial protein sequence “TARITCEGNNIGSKSVHW” towards the N-term, suggesting that “GQ” is the most abundant extension.