Immunoglobulin peptide biomarker profiling
downstream-application
Immunoglobulin peptides themselves used as biomarkers of an immune response, rather than the antigens they bind. Rats were immunised with one of two purified antigens and immunoglobulins from pre- and post-immune sera were profiled by nano-LC on an LTQ-Orbitrap with top-5 data-dependent fragmentation, giving 684 peptides differentially present between the treatment groups and cluster separation of the two. Sequences were obtained for 44% of spectral features by combining Mascot database search with de novo sequencing in PEAKS Studio 5.1, merged in Progenesis, which keeps the best-scoring sequence per feature. The authors state the de novo half was essential, because immunoglobulins are poorly represented in sequence databases. The shared peptides found across animals indicate that repertoire development is not fully random but under selection pressure favouring the best-binding sequences.
| Kind | downstream-application |
| Deep learning | no |
| Acquisition | DDA |
| Application area | antibodyomics |
Papers
- Immune Responses Are Characterized by Specific Shared Immunoglobulin Peptides That Can Be Detected by Proteomic Techniques (2010, Journal of Biological Chemistry, peer-reviewed)