We established a workflow for highly sensitive multiplexed quantitative phosphoproteomics using a nano-scale solid-phase tandem mass tag (TMT) labeling reactor. Phosphopeptides were firstly enriched by titanium oxide chromatography and then labeled with isobaric TMT reagents in a StageTip packed wit...
Isobaric stable isotope labeling using, for example, tandem mass tags (TMTs) is increasingly being applied for large-scale proteomic studies. Experiments focusing on proteoform analysis in drug time course or perturbation studies or in large patient cohorts greatly benefit from the reproducible quan...
ORGANISM(S): Homo sapiens (Human) Mus musculus (Mouse)
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. ...
LC-MS-based profiling of proteomes with isobaric tag labeling from low-quantity biological and clinical samples, including needle-core biopsies and laser capture microdissection, has been challenging due to limited amount and sample loss during preparation. To address this problem, we developed OnM ...
Multiplexed Data-Independent Acquisition (plexDIA) aims to bridge the gap between the quantitative depth of DIA and the sample throughput of isobaric tag-based workflows. Here, we implement non‑isobaric sample multiplexing using commercially available, isotopically differentiated tandem mass tag (TM...
Mapping the subcellular proteome using a differential fractionation and an orthogonal nycodenz fractionation combined with quantitative mass spectrometry using isobaric labeling (TMT) in MS2
Single cell proteomics data from three murine cell lines (Raw, SVEC4-10, C10) and HeLa cell lysate. Samples were digested with trypsin and labeled with TMT 10-Plex on a small scale using nanoPOTS, followed by LC-MS/MS analysis.
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) Mus Musculus (ncbitaxon:10090)
Defining the repertoire of peptides presented by the major histocompatibility complex class I (MHC I) is a key step towards the identification of relevant antigens for cancer immunotherapy. However, the identification of the cancer-specific antigens is a significant analytical challenge in view of t...
Quantitative metaproteomics is a relatively new research field by applying proteomics technique to study microbial proteins of microbiome, and holds the great potential to truly quantify the functional proteins actually expressed by microbes in the biological environment such as gastrointestinal tra...
