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ProteomicsReproducible Workflow for Multiplexed Deep-Scale Proteome and Phosphoproteome Analysis of Tumor Tissues by Liquid Chromatography-Mass Spectrometry

Mertins P, Tang LC, Krug K, Clark DJ, Gritsenko MA, Chen L, Clauser KR, Clauss TR, Shah P, Gillette MA, et al., Nat Protoc. 2018 Jul 9. doi: 10.1038/s41596-018-0006-9

Here we present an optimized workflow for gl...

ORGANISM(S): Homo Sapiens (ncbitaxon:9606) Mus Musculus (ncbitaxon:10090) 
2019-08-30 | MSV000084265 | MassIVE
ProteomicsPhosphoproteomic analysis of estrogen signaling upstream and downstream of mTORC1
Phosphoproteomic data from human MCF-7 cells treated with estrogen only or estrogen plus rapamycin, an mTOR inhibitor.
ORGANISM(S): Homo sapiens (Human) 
2019-08-08 | PXD013503 | Pride
Mcf7 Cancer Phosphoproteomics Estrogen signaling 
ProteomicsA Signal Amplification via Boosting with Isobaric Labeling Strategy for Comprehensive Quantitative Phosphoproteomic Characterization of Small Populations of Cells
Despite recent advances in MS-based proteomics, comprehensive phosphoproteomics analysis of small populations of cells remains a daunting task, due primarily to the general lack of sufficient MS signals from such limited amounts of samples. In light of the unique multiplexing feature of isobaric lab...
ORGANISM(S): Homo Sapiens (human) 
2019-03-15 | PXD011857 | JPOST Repository
ProteomicsResidual tissue repositories as a resource for population-based cancer proteomic studies
Background Mass spectrometry-based proteomics has become a powerful tool for the identification and quantification of proteins from a wide variety of biological specimens. To date, the majority of studies utilizing tissue samples have been carried out on prospectively collected fresh frozen or optim...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2021-12-08 | MSV000088548 | MassIVE
ProteomicsAnalysis of protein phosphorylation in response to the ATP treatment in Arabidopsis thaliana
The project intended to reveal protein phosphorylation patterns in Arabidopsis thaliana in response to ATP. For this purpose, Arabidopsis thaliana plants, including WT, ATP receptor mutants (p2k1, p2k2, and double mutant p2k1/p2k2), and P2K1 overexpression plants, were treated with ATP or buffer (as...
ORGANISM(S): Arabidopsis Thaliana (ncbitaxon:3702) 
MSV000095888 | MassIVE
ProteomicsSynechocystis.sp. 6803 - Whole organism, SC (Wegener,mcp,2010)
abundance based on Spectral counting, Interaction consistency score: 6.1, Coverage: 38
ORGANISM(S): 1148 
2010-00-00 | 1305834575 | PAXDB
ProteomicsMouse brain proteome response to a circadian rhythm disruption and FABP7 KO
Proteomic data from mouse brain; frontal cortical/hippocampal, encompassing Sham control and Fabp7 KO combined with circadian rhythm disrupting electroshock. 16 total samples. Samples were digested with trypsin, TMT labeled and fractionated (12) then analyzed by LC-MS/MS. Data was searched with MS-G...
ORGANISM(S): Mus Musculus (ncbitaxon:10090) 
2025-02-21 | MSV000097187 | MassIVE
ProteomicsThe Mycobacterium tuberculosis O-phosphorylation landscape
LC-MS/MS tryptic peptide data comprising both label free (phosphoproteome) and TMT10 (global and phosphoproteome) analysis of mycobacterium tuberculosis mutants (WT, GoF, and LoF) grown at stationary phase. Data was searched with MS-GF+ (TMT) and MaxQuant (label free).
ORGANISM(S): Mycobacterium Tuberculosis (ncbitaxon:1773) 
2021-10-21 | MSV000088254 | MassIVE
MetabolomicsTrans-tissue molecular coordination in high-intensity physical activity
High-intensity physical activity has major impacts in different parts of the body. However, the regulatory coordination between different tissues to support the high physical demands is poorly understood. Here we performed a multi-omics analysis of blood plasma, urine and saliva from a group of fire...
2025-07-03 | MTBLS1891 | MetaboLights
ProteomicsDefective insulin receptor signaling in hPSCs skews pluripotency and negatively perturbs neural differentiation
Proteomics and phosphoproteomics analyses of two human pluripotent stem cell (hPSC) lines with stable insulin receptor knock down. 6-plex TMT-based strategy was applied to compare control versus insulin receptor (IR) knockdown (n=3 replicates for each condition) for each cell lines (CHB8 and H9). D...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2020-04-16 | MSV000085298 | MassIVE
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