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LFQ of DMXAA-treated Raw264.7 secretome

ABSTRACT: Raw264.7 cells were cultured in serum-free DMEM containing DMSO or DMXAA for 4 h, and the conditioned medium were collected. The precipitated proteins were directly digested with trypsin. Three biological replicates of the samples were individually prepared and analyzed by LC-MS/MS. Label-free quantification was performed using Proteome Discoverer 2.2 Software.

ORGANISM(S): Mus Musculus (mouse)

SUBMITTER: Hidetaka Kosako

PROVIDER: PXD009169 | JPOST Repository | Wed Apr 04 00:00:00 BST 2018

REPOSITORIES: jPOST

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Dataset's files

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			Action	DRS
	171013_motani_secretome_pd22_high.xlsx	Xlsx
	490_motani_secretome_1_minus.raw	Raw
	492_motani_secretome_3_minus.raw	Raw
	494_motani_secretome_5_minus.raw	Raw
	498_motani_secretome_2_plus.raw	Raw

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Publications

Activation of stimulator of interferon genes (STING) induces ADAM17-mediated shedding of the immune semaphorin SEMA4D.

Motani Kou K Kosako Hidetaka H

The Journal of biological chemistry 20180404 20

Stimulator of interferon genes (STING) is an endoplasmic reticulum-resident membrane protein that mediates cytosolic pathogen DNA-induced innate immunity and inflammatory responses in host defenses. STING is activated by cyclic di-nucleotides and is then translocated to the Golgi apparatus, an event that triggers STING assembly with the downstream enzyme TANK-binding kinase 1 (TBK1). This assembly leads to the phosphorylation of the transcription factor interferon regulatory factor 3 (IRF3), whi ...[more]

PMID: 29618514

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PRM of DMXAA-treated Raw264.7 secretome

Project description:Raw264.7 cells were cultured in serum-free DMEM containing DMSO or DMXAA for 4 h, and the conditioned media were collected. The precipitated proteins were directly digested with trypsin/Lys-C mix. Three biological replicates of the samples were individually prepared and analyzed by targeted LC-MS/MS using parallel reaction monitoring (PRM).

| PXD009170 | JPOST Repository

LFQ of biotinylated peptides from Raw264.7 cells expressing BioID-STING

Project description:The STING-null Raw264.7 cells expressing STING-BirA* were treated with DMSO or DMXAA for 15 min, and then biotin was added to the medium. After 8-h incubation, the cells were lysed and digested with trypsin. Biotinylated peptides were captured with tamavidin 2-REV magnetic beads and eluted with 2 mM biotin. The eluates were analysis by LC-MS/MS. Label-free quantification was performed using Proteome Discoverer 2.2 Software.

| PXD009873 | JPOST Repository

H. sapiens First trimester placental villous explant 0conditioned media; galectin-7/BSA treatment; 2% O2

Project description:Identification of factors in conditioned media of first-trimester placental villous explants. Explants were cultured under hypoxia (2% O2), 5% CO2 in serum-free DMEM/F12 and treated with recombinant galectin-7 (1ug/ml) or vehicle control (BSA) for 72h. Identification of factors in conditioned media of first-trimester placental villous explants. Explants were cultured under superoxia (20% O2), 5% CO2 in serum-free DMEM/F12 and treated with recombinant galectin-7 (1ug/ml) or vehicle control (BSA) for 72h.

2021-04-20 | PXD019331 | Pride

Neutrophil ifCAF conditioned media 18 samples bulk RNA-seq

Project description:Bone marrow-derived mouse neutrophils were cultured in vitro in conditioned media from pancreatic stellate cell (PSC) cultures where the PSCs were treated with the STING agonist DMXAA or vehicle control to induce an ifCAF phenotype.

2025-03-18 | E-MTAB-14934 | biostudies-arrayexpress

Gene expression profile of human fibroblasts stimulated by breast cancer cell lines secretome

Project description:Normal human dermal fibroblasts (NHDF) were treated under serum-free conditions with cell culture media conditioned by breast cancer cell lines (SkBr3, MDA-MB-468, T47D) for 72 hours and subjected to gene expression profiling with Illumina platform.

2016-09-01 | GSE80035 | GEO

Secretome analysis to elucidate metalloprotease-dependent ectodomain shedding of glycoproteins during neuronal cells differentiation

Project description:N1E-115 cells were seeded two days before sample preparation, and cultured in fresh medium containing 2% fetal bovine serum for 12 h before sample preparation. Cells were washed with serum-free medium for three times, and cultured in fresh serum-free DMEM with or without 50 μM GM6001 for 9 h. The conditioned media were collected and centrifuged to remove cell debris, and concentrated up to ~45-fold. Concentrated media were acidified by acetate acidic buffer, and oxidized by NaIO4. Proteins were precipitated with methanol and chloroform, reduced, alkylated, and digested by trypsin. Digested peptides were purified using C18 column, concentrated, diluted with coupling buffer (Biorad), and incubated with Aff-Gel Hydrazide Gel (Biorad). N-glycosylated peptides were eluted and labeled with 18O by treatment with PNGase F (NEB). Eluted peptides were labeled with CH2O (light, DMSO-treated samples) or 13CD2O (heavy, GM6001-treated samples). Each sample was divided into two parts and subjected to LC-MS/MS analysis respectively.

2017-01-15 | PXD004699 | JPOST Repository

RAW264.7 cells: RANKL vs Bone Metastasis Tumor Cell Condidtioned Media

Project description:Transcriptional profiling of differential miRNA expression in mouse RAW264.7 preosteoclast cells comparing control untreated cells with RAW264.7 cells treated for 6 days. Treatment conditiones tested included 50ng/mL RANKL or indicated bone metastasis tumor cell conditioned media from 4T1, 4T1.2, TSU-PR1, and TSU-PR1-B2 cell lines. Two-condition experiment, Control cells vs. treated cells.

2013-10-14 | E-GEOD-44936 | biostudies-arrayexpress

LC-MSMS of Brucella infected RAW264.7 cells

Project description:The RAW264.7 cells (2x105 cells/ml) were seeded in 100 mm cell culture dishes in DMEM containing 10% FBS. When the cell density reached 70%, cells were infected with B. abortus A19 (MOI=200) for 4 h, and the cell medium then was changed to DMEM containing 10% FBS with gentamicin (50 ng/μl) for 1 h. The medium subsequently was changed to DMEM containing 10% FBS with gentamicin (25 ng/μl) for 24 h at which time cells were harvested and placed at -80°C. Subsequently, the cells lysates were analyzed by protein liquid chromatography-mass spectrometry (LC-MS/MS)

2025-07-10 | PXD063435 | Pride

RAW264.7 cells: RANKL vs Bone Metastasis Tumor Cell Condidtioned Media

2013-10-14 | GSE44936 | GEO

Bone marrow LysM-Cre mediated TFEB overexpression significantly affected the response of bone marrow-derived macrophages to tumor material, decreasing both the expression of typical M2-like macrophage associated genes and inflammatory response genes.

Project description:In order to examine the effects of TFEB overexpression in macrophages on anti-tumor immunity, 8 week-old, female LysM-Double-Cre x TFEB transgene+ (TFEBtg) and LysM-Double-Cre x TFEB transgene- (WT) mice were sacrificed and their bone marrow was differentiated into macrophages using recombinant M-CSF. After one week of differentiation, macrophages were replated and treated with either DMEM only or DMEM supplemented with tumor-conditioned medium (serum-free DMEM supernatant exposed to EO771 tumor cells) and tumor lysate for 24 hours. Macrophages were then collected and gene expression was analyzed using whole genome microarray. TFEBtg macrophages expressed significantly less typical M2-like macrophage genes, such as Arg1 and IL-10, than WT macrophages when exposed to tumor-conditioned medium and lysate. TFEB overexpression also decreased the expression of pro-inflammatory genes such as IL-1β, IL-6, and NLRP3 as well as genes involved in PGE2 synthesis, such as COX2, HIF-1α, MIF, and cPLA2. RT-qPCR was used to confirm the expression of the genes listed and many others. Ingenuity Pathway Analysis was also performed in order to analyze the expression of genes clustered by functional relationships. Mice treated to increase TFEB expression demonstrated decreased breast tumor growth.

2020-03-31 | GSE139554 | GEO