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UnknownRtpca: an R package for differential thermal proximity coaggregation analysis.
Not available
S-EPMC8058776 | biostudies-literature
ProteomicsTapioca – A Novel Platform for Prediction Of Protein-Protein Interaction Dynamics Identifies NUCKS1 as a Broad-Spectrum Herpesvirus Proviral Factor
Understanding protein-protein interaction (PPI) network dynamics is key to understanding nominal and perturbed cell states. Here, we develop a new machine learning framework called Tapioca that allows for the study of PPIs in dynamics contexts at a global scale in ex/in vivo conditions. Furthermore,...
ORGANISM(S): Human herpesvirus 8 strain GK18 Homo sapiens (Human) 
2025-05-06 | PXD041152 | Pride
Human Kshv Herpesvirus Thermal proximity coaggregation 
ProteomicsTemporal dynamics of protein complex formation and dissociation during human cytomegalovirus infection
Emerging evidence indicates that viral infection alters protein complex composition to induce both proviral and antiviral effects. However, global changes in protein complexes during infection remains understudied. Here, we employ thermal proximity coaggregation (TPCA) analysis to provide the first ...
ORGANISM(S): Homo sapiens (Human) Human cytomegalovirus (strain AD169) (HHV-5) (Human herpesvirus 5) 
2020-01-29 | PXD014747 | Pride
Tpca Ms-cetsa Cellular thermal shift assay Herpesvirus Thermal proximity coaggregation Hcmv Cytomegalovirus 
ProteomicsThermal Proteome Profiling Datasets for smarTPCA
Chemical biology and the application of small molecules has proven to be a potent perturbation strategy especially for the functional elucidation of proteins, their networks and regulators. In recent years, the cellular thermal shift assay (CETSA) and its proteome-wide extension, thermal proteome pr...
ORGANISM(S): Homo sapiens (Human) 
2022-06-09 | PXD032942 | Pride
Kinase inhibitors Small molecule arranged thermal proximity coaggregation (smartpca) Tpp with temperature range (tpp-tr) or compound concentration range (tpp-ccr) Hl-60 cell line Thermal proteome profiling (tpp) 
ProteomicsDifferential contributions of interferon classes to driving host inflammatory responses and restricting virus progeny production
The cornerstone of mammalian intrinsic and innate immune defense against pathogens is the production of interferons (IFN), cytokines that stimulate anti-pathogen signaling pathways through the simultaneous expression of hundreds of interferon-stimulated genes (ISG). We compared the effects of IFN cl...
ORGANISM(S): Homo sapiens (Human) 
2024-02-28 | PXD046976 | Pride
Macrophage Thermal proximity coaggregation Interferon-beta Human cytomegalovirus Herpes simplex virus-1 Interferon-gamma Adenovirus Parallel reaction monitoring Monocyte Interferon-stimulated gene Gingival keratinocyte 
UnknownSequestration of ribosome biogenesis factors in HSV-1 nuclear aggregates revealed by spatially resolved thermal profiling.
Not available
S-EPMC12204162 | biostudies-literature
UnknownExploring direct and indirect targets of current antileishmanial drugs using a novel thermal proteomics profiling approach.
Not available
S-EPMC9381709 | biostudies-literature
ProteomicsTapioca – A Novel Platform for Prediction Of Protein-Protein Interaction Dynamics Identifies NUCKS1 as a Broad-Spectrum Herpesvirus Proviral Factor
Understanding protein-protein interaction (PPI) network dynamics is key to understanding nominal and perturbed cell states. Here, we develop a new machine learning framework called Tapioca that allows for the study of PPIs in dynamics contexts at a global scale in ex/in vivo conditions. Furthermore,...
ORGANISM(S): Homo Sapiens Human Herpesvirus 8 Strain Gk18 
2023-12-02 | PXD041269 | panorama
UnknownTapioca: a platform for predicting de novo protein-protein interactions in dynamic contexts.
Not available
S-EPMC11249048 | biostudies-literature
UnknownSystematic profiling of protein complex dynamics reveals DNA-PK phosphorylation of IFI16 en route to herpesvirus immunity.
Not available
S-EPMC8213230 | biostudies-literature
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