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- person_outline Nicolle H. Packer
Publications for UniCarbKB
iPTMnet: an integrated resource for protein post translational modification network discovery
[…] -specific PTM proteoforms (PRO category: organism-modification), we extract the evidence, reference UniProtKB AC and PTM sites along with their corresponding PTM types (represented by a PSI-MOD () or UniCarbKB () identifier) from the definition of the term. PTM enzyme information is extracted from the PRO comment line; (ii) Proteoform-dependent PPI information is extracted from the PRO annotation […]
Mass Spectrometry Based N Glycomics of Colorectal Cancer
[…] dition to these (semi) automated tools for analysis of glycan data from LC-MS/MS data, efforts have been made towards integrating a number of glycomics-centric databases into a common platform called UnicarbKB  and UnicarbDB , which act as centralized data repositories for glycan data and work on the interface with the already available glycomics (GlycomeDB, EUROcarbDB) and proteomics (Uniprot […]
Site specific O Glycosylation Analysis of Human Blood Plasma Proteins*
[…] f a glycosylation consensus motif within the putative peptide sequence (N-glycosylation: Asn-X-Ser/Thr; O-glycosylation: Ser/Thr). Furthermore, knowledge, derived from public databases (UniProtKB and UniCarbKB) on already described N-/O-glycosylation sites within the putative peptide sequence or within the entire protein, was used to validate a peptide/protein hit. ETD-MS2 fragment spectra of iden […]
Complementary LC MS/MS Based N Glycan, N Glycopeptide, and Intact N Glycoprotein Profiling Reveals Unconventional Asn71 Glycosylation of Human Neutrophil Cathepsin G
[…] the corresponding monosaccharide compositions) when using search engines (e.g., Byonic) for glycomics/glycoproteomics experiments. Upon consultation of an established glycan structure database (i.e., UniCarbKB), we noticed that monoantennary core-truncated N-glycans have not yet been deposited. We ensured that artificial generation of these truncated structures by any contaminating glycosidase act […]
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