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UnknownModeling contaminants in AP-MS/MS experiments.
Not available
S-EPMC4494835 | biostudies-literature
ProteomicsBait correlation improves interactor identification by TMT-AP-MS
The quantitative multiplexing capacity of isobaric Tandem Mass Tags (TMT) has increased the throughput of affinity purification mass spectrometry (AP-MS) to characterize protein interaction networks of immunoprecipitated baits. However, variable bait levels between replicates can convolute interacto...
ORGANISM(S): Homo sapiens (Human) 
2020-06-22 | PXD016613 | Pride
Tmt Protein-protein interactions Ap-ms 
ProteomicsA Tandem Mass Tag (TMT) proteomic analysis during the early phase of experimental pancreatitis
We performed in a rat pancreatitic model a quantitative shotgun proteomic profiling of the soluble and whole membrane fractions from the pancreas during the early phase of cerulein (Cer)-induced AP compared to controls. Three control and three pancreatitic samples from both the soluble and the whole...
ORGANISM(S): Rattus norvegicus (Rat) 
2018-05-22 | PXD007096 | Pride
Cerulein Rat pancreas Subcellular fractions Acute pancreatitis Tmt (tandem mass tags) 
ProteomicsMolecular Characterization of LubX. AP-MS using Legionella lysate
Legionella pneumophila delivers over 300 effector proteins into the host cytosol. One of these effectors, LubX contains 2 U-box domains, and directs the proeosomal degradation of another translocated protein, SidH, however this 'metaeffector' activity is pooly understood. As part of our investigatio...
ORGANISM(S): Legionella pneumophila subsp. pneumophila (strain Philadelphia 1 / ATCC 33152 / DSM 7513) 
2020-01-27 | PXD001525 | Pride
Sidh Ap-ms Dits Ltq xl Lubx Legionella 
ProteomicsHuman Ku70 WT AP-MS - Mapping the Ku interactome using proximity-dependent biotin identification in human cells
Affinity purification coupled to mass spectrometry is often used as a complementary technique to BioID experiments, and the data presented here complements another project. To infer processes involving Ku70, we used AP-MS to identify candidate proteins that may interact with Ku70 and compared these ...
ORGANISM(S): Homo sapiens (Human) 
2019-01-03 | PXD010930 | Pride
Ku70 Ap-ms Hek293 
ProteomicsCryptococcus Wcp1-mCherry Wcp1-FLAG AP–MS
This study aims to identify Wcp1-interacting proteins in Cryptococcus neoformans under different pH conditions. Wcp1 is a WD40–cyclophilin fusion protein implicated in adaptation to host-associated stresses, including CO2, temperature, and acidic pH. Affinity purification coupled with liquid chrom...
ORGANISM(S): Fungi Cryptococcus neoformans H99-YPD_1 
2026-05-16 | PXD077146 | Pride
Wcp1 Cryptococcus Ph 
ProteomicsRat Brain LC-MS/MS - Quantitative Proteomics Reveals Protein-Protein Interactions with Fibroblast Growth Factor12 as a Component of the Nav1
Voltage-gated sodium channels are responsible for the initiation and propagation of action potentials in excitable cells. While the channel is functional on its own, it is the transient and stable protein-protein interactions that modulate functional outcomes. AP-MS has been successfully applied to ...
ORGANISM(S): Rattus norvegicus (Rat) 
2015-03-03 | PXD000719 | Pride
Ap-ms Mammalian brain Interactome 
ProteomicsAP-MS analysis of human histone deacetylase interactions in CEM-T cells
Affinity purification-mass spectrometry (AP-MS) datasets of eleven human histone deacetylases (HDACs). Affinity-tagged (GFP) HDACs were expressed in a human CEM-T cell line. For label-free analysis, proteins were digested by trypsin in-solution and peptides separated across a linear 180 min gradient...
ORGANISM(S): Homo sapiens (Human) 
2013-06-14 | PXD000208 | Pride
Ap-ms Protein interactions Hdac Idirt 
ProteomicsExamining protein interaction differences between sorting nexin 2 (SNX2) isoforms created by alternative splicing of a microexon exon, using AP-MS
We examined how alternative RNA splicing affects protein interactions at large scale by creating a protein-protein interaction network using data from interaction databases and then examined how interactions might be affected by splicing. We also examined whether alternative RNA splicing often affec...
ORGANISM(S): Homo sapiens (Human) 
2026-03-31 | PXD074758 | Pride
Alternative splicing Ap-ms Isoforms Microexon Lc-msms 
ProteomicsHVint validation by AP-MS analysis of HSV-1 VP26
Human herpesviruses are widespread human pathogens with a remarkable impact on worldwide public health. Despite intense decades of research, the molecular details in many aspects of their function remain to be fully characterized. To unravel the details of how these viruses operate a thorough unders...
ORGANISM(S): Homo sapiens (Human) 
2017-02-02 | PXD003599 | Pride
Protein interactions Orbitrap velos Human Herpes simplex virus Virology Interactome 
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