Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

CLOCK immunoprecipitation in Huh7 cells

ABSTRACT: Huh7 cells with expression of Flag CLOCK were treated with IGF1. An immunoprecipitation assay was performed , and immunoprecipitants were subjected to masspec analysis.

INSTRUMENT(S): Orbitrap Elite mass spectrometer(Thermo)

ORGANISM(S): Human

SUBMITTER: Zhimin Lu

PROVIDER: MSV000090588 | MassIVE | Wed Oct 26 04:22:00 BST 2022

SECONDARY ACCESSION(S): PXD037738

REPOSITORIES: MassIVE

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

GPX4 immunoprecipitation in Huh7 cells

Project description:Huh7 cells with expression of Flag-GPX4 were treated with IGF1. An immunoprecipitation assay was performed, and immunoprecipitates were subjected to masspec analysis.

2023-02-22 | MSV000091343 | MassIVE

ADSL promotes autophagy and liver tumor growth through fumarate-mediated Beclin1 dimethylation

Project description:Huh7 cells with expression of Flag-Beclin1 were treated with lipid depletion. An immunoprecipitation assay was performed, and immunoprecipitates were subjected to masspec analysis.

2024-12-24 | PXD057286 | Pride

Immunoprecipitation of INSIG1/2 and mass spectrometry analysis

Project description:Huh7 cells with or without expression of Flag-INSIG1/2 were treated with or without high glucose for 2 h. An immunoprecipitation assay was performed using anti-Flag antibody, and immunoprecipitates of Flag-INSIG1 were eluted with Flag peptide, separated using SDS-PAGE and stained with Coomassie Brilliant Blue. Selected peptide hits of proteins associated with Flag-INSIG1/2.

2025-12-26 | PXD054753 | Pride

Arabidopsis Circadian Clock RVE8 LNK1 LNK2 Interactome LC-MS

Project description:The timing of many molecular and physiological processes in plants occurs at a specific time of day. The circadian MYB-like transcription factor REVEILLE 8 (RVE8) interacts with its transcriptional coactivators NIGHT LIGHT INDUCIBLE AND CLOCK REGULATED 1 (LNK1) and LNK2 to promote the expression of evening-phased clock genes and cold tolerance factors. While genetic approaches have commonly been used to discover new connections within the clock and between other pathways, here we use affinity purification coupled with mass spectrometry to discover time-of-day-specific protein interactors of the RVE8-LNK1/2 complex. Our clock proteins are tagged with a 6X-His-3X-FLAG C-terminal (HFC) affinity tag and purified through anti-FLAG immunoprecipitation and His-tag isolation affinity purification. We also performed affinity purification-mass spectrometry of 35S::YFP-COR27 and 35S::GFP-COR28, which were immunoprecipitated with anti-GFP TRAP beads. Experiment was performed on 10-day-old seedlings grown under 12 hours light: 12 hours dark 22 degrees Celsius.

2023-04-24 | PXD034089 | Pride

Immunoprecipitation of STING/ADSL and mass spectrometry analysis

Project description:BT-549 cells with or without expression of Flag-STING were treated with or without hypoxia for 6 h. An immunoprecipitation assay was performed using anti-Flag antibody, and immunoprecipitates of Flag-STING were eluted with Flag peptide, separated using SDS-PAGE and stained with Coomassie Brilliant Blue. Selected peptide hits of proteins associated with Flag-STING identified through mass spectrometry are shown.Bacterially purified His-ADSL proteins on Ni-NTA agarose beads were incubated with or without active GST-IKKβ in the presence of ATP for an in vitro kinase assay;Then the protein samples were digested using GluC and analyzed using LC-MS/MS with the Orbitrap Elite mass spectrometer.

2025-02-15 | PXD059420 | Pride

SPANX immunoprecipitation analysis by mass spectrometry

Project description:A375 cells transduced with empty pLVX or pLVX-SPANXA-FLAG were subjected to immunoprecipitation using Flag beads. Elution from beads was performed by incubation with 3XFlag peptide for 1h at 4 C and eluates were subjected to tryptic digestion followed by LC-MS/MS, as described previously (PMID: 30992132). Raw data were analyzed using MaxQuant (v1.6.0.1) with default settings.

2019-11-24 | MSV000084617 | MassIVE

Novel transcriptional networks regulated by CLOCK in human neurons

Project description:The molecular mechanisms underlying human brain evolution are not fully understood; however, previous work suggested that expression of the transcription factor CLOCK in the human cortex might be relevant to human cognition and disease. In this study, we investigated this novel transcriptional role for CLOCK in human neurons by performing chromatin-immunoprecipitation sequencing for endogenous CLOCK in adult neocortex and RNA-sequencing following CLOCK knockdown in differentiated human neurons in vitro. These data suggested that CLOCK regulates expression of genes involved in neuronal migration, and a functional assay showed that CLOCK knockdown increased neuronal migratory distance. Furthermore, dysregulation of CLOCK disrupts co-expressed networks of genes implicated in neuropsychiatric disorders, and the expression of these networks are driven by hub genes with human-specific patterns of expression. Thus, these data support a role for CLOCK-regulated transcriptional cascades involved in human brain evolution and function.

2018-03-15 | GSE96659 | GEO

Interactome of the circadian clock protein PERIOD2 in human U2OS osteosarcoma cells after the resetting of the circadian clock

Project description:Circadian rhythms are a series of endogenous autonomous 24-hour oscillations generated by the circadian clock. At the molecular level, the circadian clock is generated by a transcription-translation feedback loop, where BMAL1 and CLOCK transcription factors of the positive arm activate the expression of CRYPTOCHROME and PERIOD (PER) genes of the negative arm as well as the circadian clock-regulated genes. In this project, we aimed at finding the interactome of PER2 protein in human U2OS osteosarcoma cell line using proximity-dependent biotin identification (BioID) technique. U2OS clones overexpressing PER2-BioID2 or BioID2 were treated with dexamethasone in order to reset the circadian rhythm, and cells were then incubated in biotin-containing media for 12 hours to label the proteins in close proximity of PER2-BioID2. Samples were collected after 36 and 48 hours of the resetting to identify the labeled proteins by mass spectrometry. In addition to known interactors such as CRY1 and CRY2, many novel interactors were identified. In summary, we obtained a network of PER2 interactome and confirmed some of the novel interactions using classical the co-immunoprecipitation method.

2022-04-22 | PXD025179 | Pride

PSAT1 impairs ferroptosis and reduces immunotherapy efficacy via GPX4 hydroxylation

Project description:MDA-MB-231 cells with expression of Flag-GPX4 were treated with IFNg. An immunoprecipitation assay was performed, and immunoprecipitates were subjected to masspec analysis.

2025-03-01 | PXD061373 |

Identifying METTL5-bound RNA by crosslinking-assisted immunoprecipitation

Project description:To identify the substrates of METTL5, we used crosslinking-assisted immunoprecipitation of overexpressed, FLAG-METTL5 followed by high throughput sequencing.

2021-05-14 | GSE174435 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data