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ProteomicsAnalysis of IgG1 producing CHO cells
The effects of changes in bioprocessing parameters (temp, pH, DO) on anti-IL8 IgG1 producing Chinese hamster ovary (CHO) cells were studied on the level of host cell proteome expression using TMT-SPS-MS3.
ORGANISM(S): Cricetulus griseus (Chinese hamster) (Cricetulus barabensis griseus) 
2021-04-09 | PXD017779 | Pride
Sps-ms3 Tmt Cho 
ProteomicsTesting TMT-SPS-MS3 and label free approach in recalcitrant Mago (Mangifera indica L.) peel tissues
Significant progress has been observed in recent years in proteomics tools. However, minimal application of the newest proteomic tools has been massively applied in plant recalcitrant tissues in non-model fruits. This constant occurrence constrains the progress in understanding essential molecular p...
ORGANISM(S): Mangifera indica (Mango) 
2024-01-29 | PXD040720 | Pride
Protein extraction Proteomics Postharvest shelf life Mango peel 
ProteomicsTMT10 controlled mixtures - SILAC HeLa UPS1, acquired using SPS-MS3
The controlled mixtures were prepared to evaluate the ability of our proposed approach when dealing with the complicated design, e.g. multiple TMT mixtures with technical replicates. 500, 333, 250, and 62.5 fmol UPS1 peptides were spiked-into 50 g SILAC HeLa peptides in duplicate. It produced a dilu...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2019-08-30 | MSV000084264 | MassIVE
ProteomicsProteomics study in somatic embryogenesis in avocado
To understand the molecular foundation of the SE induction and development in avocado, we compared by proteomics approach, the embryogenic (EC) and non-embryogenic (NEC) cultures of two avocado varieties. Although Criollo and Hass EC exhibits particularities in the proteome and metabolome profile, i...
ORGANISM(S): Persea americana 
2020-08-14 | PXD019705 | Pride
Sps-ms3 Plant proteomics Tmt Avocado 
ProteomicsA Triple Knockout (TKO) Proteomics Standard for Diagnosing Ion Interference in Isobaric Labeling Experiments
Isobaric labeling is a powerful strategy for quantitative mass spectrometry-based proteomic investigations. A complication of such analyses has been the co-isolation of multiple analytes of similar mass-to-charge resulting in the distortion of relative protein abundance measurements across samples. ...
ORGANISM(S): Saccharomyces Cerevisiae (ncbitaxon:4932) 
2019-08-23 | MSV000084230 | MassIVE
ProteomicsImpact of alternative splicing on Arabidopsis proteome (Part III, TMT RT-SPS-MS3)
Alternative splicing (AS) is a key regulatory process in eukaryotes. Despite its importance, the impact of AS on plant protein diversity and its global effect on the proteome remain largely unexplored. To address this, we included the AS acinus pinin mutant in our qualitative proteomic analysis to i...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2026-06-08 | PXD068593 | Pride
Tandem mass tags (tmt) Proteome Transcriptomics Alternative splicing 
ProteomicsHYpro16: A Two-Proteome Mixture to Assess Interference in Isobaric Tag-Based Sample Multiplexing Experiments
Isobaric tagging is a powerful strategy for global proteome profiling. A caveat of isobaric tag-based quantification is “interference” which may be caused by co-eluting peptides that are co-isolated, co-fragmented, and co-analyzed, thereby confounding quantitative accuracy. Here, we present a two-pr...
ORGANISM(S): Homo sapiens (Human) Saccharomyces cerevisiae (Baker's yeast) 
2021-08-16 | PXD020815 | Pride
Multiplex Tmt Sps-ms3 Standard Lumos Multi-notch 
ProteomicsSugarQuant: a streamlined pipeline for multiplexed quantitative site-specific N-glycoproteomics
Site-specific regulation of protein N-glycosylation is essential in human cells. However, accurate quantification of glycosylation sites and their individual glycan moieties in a cell-wide manner is still technically challenging. Here, we introduce SugarQuant, an integrated mass spectrometry-based p...
ORGANISM(S): Homo sapiens (Human) 
2020-08-24 | PXD018349 | Pride
Glycosylation 
ProteomicsTKO6: A Peptide Standard to Assess Interference for Unit-Resolved Isobaric Labeling Platforms
Protein abundance profiling using isobaric labeling is a well-established quantitative mass spectrometry technique. However, ratio distortion resulting from co-isolated and co-fragmented ions - commonly referred to as interference - remains a caveat of this technique. Tribrid mass spectrometers, suc...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2019-03-07 | PXD011653 | Pride
Tko  interference  tmt  itraq  sps-ms3 
ProteomicsSelective degradation of platelet BTK by the PROTAC NX-5948
This study presents a tandem mass tag (TMT)–based quantitative proteomic analysis of human platelets treated with the BTK degraders NX-2127 or NX-5948, or vehicle control (DMSO). Washed platelet lysates from three independent biological replicates per condition were digested with trypsin, labelled w...
ORGANISM(S): Homo sapiens (Human) 
2026-09-21 | PXD072863 | Pride
Human Nx-2127 Quantitative proteomics Nx-5948 Sps-ms3 Tmt Btk Protac Thrombosis Platelets 
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