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ProteomicsEnrichment of NICD4 interacting proteins by three different methods.
There are several methods to bring down the bait and interactors from the cell lysates, each with its own advantages and disadvantages. Recently, the most commonly used method is one step AP, TAP and proximity-labeling. In order to analyze the Strengths and weaknesses of the three methods, fusion pr...
ORGANISM(S): Homo sapiens (Human) 
2022-08-12 | PXD031772 | Pride
Sfb-tap Nicd4 Flag tag ap Turboid. 
ProteomicsDefine the interactome of IBTK by Affinity purification coupled with mass spectrometry (AP-MS) and proximity-dependent biotinylation identification (BioID) methods
Affinity purification coupled with mass spectrometry (AP-MS) and proximity-dependent biotinylation identification (BioID) methods are powerful tools to define the interactome for a specific protein bait. Whereas AP-MS results in the identification of proteins that are in a stable complex, BioID labe...
ORGANISM(S): Homo sapiens (Human) 
2024-05-10 | PXD038286 | Pride
Ap-ms Ibtk interactome Bioid 
TranscriptomicsFOXK2 ChIP-chip
Chromatin immunoprecipitation of FOXK2 (tagged with Flag and His tags) in U2OS cells detected by Affymetrix human promoter array 1.0R.
ORGANISM(S): Homo sapiens 
2011-11-03 | E-MEXP-3116 | biostudies-arrayexpress
ProteomicsIdentification of host interactors of Brucella BT4E effector proteins by Flag-tag affinity purification coupled with LC-MS/MS in HEK293T cells
This study aimed to systematically identify host cellular proteins that interact with newly discovered Brucella abortus type IV secretion system (T4SS) effector proteins, designated BT4E3, BT4E4, BT4E19, BT4E32, BT4E33, BT4E37, and BT4E43. To achieve this, we employed an affinity purification–mass s...
ORGANISM(S): Homo sapiens (Human) 
2026-02-13 | PXD068987 | Pride
Brucella bt4e effector proteins Hek293t Lc-ms/ms Flag-tag affinity purification 
ProteomicsAffinity purification of Flag-tagged BSU1 fragments expressed in Arabidopsis thaliana bri1-5 seedlings
The immunoprecipitation followed by mass-spectrometry (AP-MS) experiment was performed as follows. The N-terminal Kelch domain, the C-terminal phosphatase domain or a catalytically inactive version of the C-terminal phosphatase domain of the Kelch phosphatase BSU1 from Arabidopsis thaliana were cons...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2026-05-22 | PXD072713 | Pride
Arabidopsis Brassinosteroid signaling Cell cycle Protein phosphatase 
ProteomicsSMARCD1 Affinity Purification-mass Spectrometry (AP-MS) in HEK-293 Cells
This study reports the identification of the FLAG-tagged SMARCD1 protein interactome in HEK-293 cells using Affinity Purification-Mass Spectrometry (AP-MS). The data provides a comprehensive list of proteins that physically associate with SMARCD1, thereby contributing to the understanding of its mol...
ORGANISM(S): Homo sapiens (Human) 
2026-07-09 | PXD068854 | Pride
Ap-ms Smarcd1 
GenomicsAP-1 subunits converge promiscuously at enhancers to potentiate transcription
AP-1 subunits converge promiscuously at enhancers to potentiate transcription
PRJNA641875 | ENA
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 
TranscriptomicsDynamic profile of gene expression in rice flag leaf under high temperature
To comprehend the gene expression profile in rice flag leaf under high temperature, Agilent 4M-CM-^W44k rice oligo microarray experiments were carried out using rice flag leaf of reproductive stage at 0 min, 20 min, 60 min, 2 hr, 4 hr, and 8 hr after the treatment of 40 degree centigrade, and the si...
ORGANISM(S): Oryza sativa 
2013-09-10 | E-GEOD-45259 | biostudies-arrayexpress
ProteomicsA peptidisc-based AP/MS approach to explore the interactome of the bacterial Sec translocon
We recently presented the peptidisc membrane mimetic for the global reconstitution of membrane proteomes into water-soluble detergent-free particles, termed peptidisc library. We here develop a method that combines the peptidisc library with affinity pulldown and mass spectrometry (AP/MS) to explore...
ORGANISM(S): Escherichia coli (strain K12 / W3110 / ATCC 27325 / DSM 5911) 
2023-03-22 | PXD018866 | Pride
Mass spectrometry Affinity tagging Sec translocon Protein translocation Peptidisc Protein complex analysis Membrane mimetics Membrane protein complexes Protein-protein interactions Affinity purification/mass spectrometry (ap/ms) 
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