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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. 
Proteomics293T NME4 TAP-MS and TurboID-MS
To identify interacting proteins of NME4 in human cell lines, we using tandem affinity purification followed by mass spectrometry (TAP-MS) in HEK293T cells. We established stable cell line which expressing NME4 gene fused with SFB triple tags (S tag-2x Flag tag-SBP tag) or TurboID. We isolated, comb...
ORGANISM(S): Homo sapiens (Human) 
2023-10-13 | PXD036624 | Pride
Tap-ms turboid-ms 
ProteomicsSFB-tagged(S-protein tag, Flag epitope tag, and streptavidin-binding peptide tag) RNF4 wild-type and CS mutant LC-MSMS
To elucidate the role of RNF4 in DNA replication and fork reversal, we performed tandem affinity purification (TAP) using a HEK293T cell line that stably expresses SFB-tagged(S-protein tag, Flag epitope tag, and streptavidin-binding peptide tag) wild-type and CS mutant to isolate proteins that assoc...
ORGANISM(S): Homo sapiens (Human) 
2022-08-11 | PXD028397 | Pride
Human rnf4 wt and cs lc-msms 
ProteomicsUSP11 deubiquitinates monoubiquitinated SPRTN to repair DNA-protein crosslinks
DNA-protein crosslinks (DPCs) are toxic DNA lesions that interfere with DNA metabolic processes such as replication, transcription, and recombination. SPRTN is a replication-coupled DNA-dependent metalloprotease that degrades proteins crosslinked to DNA to promote DPC repair. SPRTN function is tight...
ORGANISM(S): Homo sapiens (Human) 
2021-04-01 | PXD019923 | Pride
Deubiquitination Dpc Top1-ccs Dpc repair Monoubiquitinated sprtn Sprtn Usp11 
UnknownProtocol for establishing a protein-protein interaction network using tandem affinity purification followed by mass spectrometry in mammalian cells.
Not available
S-EPMC9304681 | biostudies-literature
ProteomicsSLX4 and SLX4IP TAP-MS - SLX4IP acts with SLX4 and XPF-ERCC1 to promote interstrand crosslink repair
Interstrand crosslinks (ICLs) are highly toxic DNA lesions, which are repaired via a complex process that requires the coordination of several DNA repair pathways. Defects in ICL repair result in Fanconi anemia (FA), which is diagnosed with bone marrow failure, development abnormalities and high inc...
ORGANISM(S): Homo sapiens (Human) 
2019-09-13 | PXD012521 | Pride
Sfb Slx4 Tap-ms Slx4ip 
ProteomicsCTCF cooperates with CtIP to drive homologous recombination repair of double-strand breaks
The pleiotropic CCCTC-binding factor (CTCF) plays a role in homologous recombination (HR) repair of DNA double-strand breaks (DSBs). However, the precise mechanistic role of CTCF in HR remains largely unclear. Here, we show that CTCF engages in DNA end resection, which is the initial, crucial step i...
ORGANISM(S): Homo sapiens (Human) 
2019-11-12 | PXD014441 | Pride
Pleiotropic ccctc-binding factor Mre11 Human Interactome 
ProteomicsAutophosphorylation of Tousled-like kinases (TLK1 and TLK2) regulates recruitment to damaged chromatin via PCNA interaction (Tandem Affinity Purification coupled to LC-MS/MS of SFB-TLK1 WT, 1-240, and D607A)
Tandem affinity purification of SFB-Tagged TLK1 Wildtype, TLK1 1-240, and TLK1 D607A from transiently transfected HEK 293T cells to try to identify possible TLK1 interactions. Data represent technical duplicates.
ORGANISM(S): Homo sapiens (Human) 
2025-01-02 | PXD047964 | Pride
Tandem affinity purification Tousled-like kinases Lc-ms/ms 
ProteomicsTandem affinity purification coupled with mass spectrometry (TAP-MS) to identify the proteins that interact with RAD51, RAD51 paralogs (RAD51B, RAD51C,RAD51D,XRCC2 and XRCC3), PFKP and PFKP-F649L in HeLa cells.
Tandem affinity purification coupled with mass spectrometry (TAP-MS) was used to identify the proteins that interact with RAD51,RAD51 paralogs (RAD51B, RAD51C,RAD51D,XRCC2 and XRCC3),PFKP and PFKP-F649L in HeLa cells. In addition, we also investigated the phosphorylation of RAD51.
ORGANISM(S): Homo sapiens (Human) 
2026-04-27 | PXD070095 | Pride
Rad51paralogs Rad51 Pfkp-f649l Hela cells Rad51 phosphorylation Pfkp 
ProteomicsAutophosphorylation of Tousled-like kinases (TLK1 and TLK2) regulates recruitment to damaged chromatin via PCNA interaction (Tandem Affinity Purification coupled to LC-MS/MS of SFB-TLK1 133-208 and 133-208 Y149A F150A)
Tandem affinity purification of HEK 293T cells transiently expressing SFB-TLK1 133-208 or SFB-TLK1 133-208 Y149A F150A to identify if TLK1 PIP box mutants can still interact with PCNA.
ORGANISM(S): Homo sapiens (Human) 
2025-01-02 | PXD048215 | Pride
Tandem affinity purification Tousled-like kinases Lc-ms/ms 
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