Quantitative proteomics to study aging in rabbit spleen tissues

Multivalent Human Cytomegalovirus Glycoprotein B Nucleoside-Modified mRNA Vaccines Demonstrate a Greater Breadth in T cell but not Antibody Responses

“…Limitations of this study include the animal model and the species specificity of HCMV that complicates challenge studies. Compared to rodents, the rabbit model has multiple advantages, including their intermediate size for large sample collection, long life span for vaccine boosts, lack of an inbred strain to better mimic human populations, and a closer phylogenetic relationship with human beings 40, [64][65][66][67][68] commonly applied in preclinical vaccine studies, the immune system of rabbits may not represent human B and T cell repertoire. We did not examine whether the multivalent vaccines expand the T cell repertoire, partly due to the cross-species model limitations, and therefore this should be studied in future human studies.…”

Multivalent Human Cytomegalovirus Glycoprotein B Nucleoside-Modified mRNA Vaccines Demonstrate a Greater Breadth in T cell but not Antibody Responses

“…Limitations of this study include the animal model and the species specificity of HCMV that complicates challenge studies. Compared to rodents, the rabbit model has multiple advantages, including their intermediate size for large sample collection, long life span for vaccine boosts, lack of an inbred strain to better mimic human populations, and a closer phylogenetic relationship with human beings 40,[64][65][66][67][68] . Although rabbits are commonly applied in preclinical vaccine studies, the immune system of rabbits may not represent human B and T cell repertoire.…”

Evaluating cPILOT Data toward Quality Control Implementation

“…For example, NETLOP combines isotopic and isobaric versions of TMT tags to achieve up to 48-plex labeling, TAG-TMTpro combines amino acid labeling with TMT isobaric tags to achieve up to 45-plex labeling, and cPILOT combines isotopic dimethylation and TMT or dimethyl leucine (DiLeu) isobaric tags to achieve up to 42-plex labeling. [1][2][3][4]6,7,18 cPILOT can encompass multiple conditions such as tissue types, time points, and genotypes and has been broadly applied to study aging, 19 Alzheimer's disease, 18,20,21 and post-translational modifications. 22 cPILOT is attractive due to its ability to increase quantitative accuracy and reduce data acquisition times, experimental costs, and sample error.…”

“…In prior cPILOT studies, a spectral precursor selection-MS 3 (SPS-MS 3 ) acquisition strategy was used. 5,[19][20][21]23 SPS-MS 3 selects the top N precursors from MS/MS scans, fragments the precursors simultaneously, and subsequently scans the fragments in the MS 3 scan. However, SPS-MS 3 methods limit the number of identifiable and quantifiable proteins due to longer duty cycle times (∼20% longer cycle times compared to MS/ MS-only acquisition).…”

“…Enhanced multiplexing technologies such as N -hydroxysuccinimide-ester tandem labeling in one pot (NETLOP), 29-plex tandem mass tag (TMT), TAG-TMTpro, combined precursor isotopic labeling and isobaric tagging (cPILOT), and others − enable high-throughput proteomics experiments by combining more than one multiplexing technology into a single experiment. For example, NETLOP combines isotopic and isobaric versions of TMT tags to achieve up to 48-plex labeling, TAG-TMTpro combines amino acid labeling with TMT isobaric tags to achieve up to 45-plex labeling, and cPILOT combines isotopic dimethylation and TMT or dimethyl leucine (DiLeu) isobaric tags to achieve up to 42-plex labeling. − ,,, cPILOT can encompass multiple conditions such as tissue types, time points, and genotypes and has been broadly applied to study aging, Alzheimer’s disease, ,, and post-translational modifications . cPILOT is attractive due to its ability to increase quantitative accuracy and reduce data acquisition times, experimental costs, and sample error.…”