Browse
Submit Data
Databases
API
Help

Dataset Information

435 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

SHOTGUN PROTEOMIC ANALYSIS TO STUDY THE DECREASE OF XENOGRAFT TUMOR GROWTH AFTER ROSEMARY EXTRACT TREATMENT

ABSTRACT: In the present work, the effects of rosemary extract on xenograft tumor growth has been studied and, for the first time, a shotgun proteomic analysis based on nanoliquid chromatography−tandem mass spectrometry (nano-LC−MS/MS) together with stable isotope dimethyl labeling (DML) has been applied to investigate the global protein changes in vivo.

INSTRUMENT(S): LTQ Orbitrap Velos

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Colonic Cancer Cell Line, Epithelial Cell

DISEASE(S): Colon Adenocarcinoma

SUBMITTER: Alberto Valdés

LAB HEAD: Alejandro Cifuentes

PROVIDER: PXD005853 | Pride | 2017-04-10

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	C1S5-1.raw	Raw
	C1S5-2.raw	Raw
	C1S5-3.raw	Raw
	C1S5-4.raw	Raw
	C2S3-1.raw	Raw

Items per page:

1 - 5 of 22

Publications

Shotgun proteomic analysis to study the decrease of xenograft tumor growth after rosemary extract treatment.

Valdés Alberto A García-Cañas Virginia V Pérez-Sánchez Almudena A Barrajón-Catalán Enrique E Ruiz-Torres Verónica V Artemenko Konstantin A KA Micol Vicente V Bergquist Jonas J Cifuentes Alejandro A

Journal of chromatography. A 20170327

The antiproliferative activity of Rosemary (Rosmarinus officinalis) has been widely studied in different in vitro and in vivo models, which demonstrate that rosemary extracts inhibit the cellular proliferation due to its ability to interact with a wide spectrum of molecular targets. However, a comprehensive proteomics study in vivo has not been carried out yet. In the present work, the effects of rosemary extract on xenograft tumor growth has been studied and, for the first time, a shotgun prote ...[more]

PMID: 28389096

Similar Datasets

Heat shock: genomic run-on (GRO) analysis

Project description:This SuperSeries is composed of the following subset Series: GSE24483: TR heat-shock GSE24484: RA heat-shock Refer to individual Series

2011-04-19 | E-GEOD-24488 | biostudies-arrayexpress

TR heat-shock

Project description:Within a GRO experiment, samples for Transcription rate (TR) analysis were taken at 0, 4, 11, 16, 26 and 40 minutes after heat stress (from 25ºC to 37ºC) and subjected to run-on. Analysis was done in filters also used for RA analysis of aliquots from the same cultures. The analysis includes 3 repeats of stress treatment of the W3030-1a strain. The same times were used for sampling in each repeat of the experiment. A single genomic DNA hybridization on every one of the filters is used for normalization between gene probes.

2011-04-19 | E-GEOD-24483 | biostudies-arrayexpress

RA heat-shock

Project description:Within a GRO experiment, samples for mRNA amount (RA) were taken at 0, 4, 11, 16, 26 and 40 minutes after heat stress (from 25ºC to 37ºC). Analysis was done in filters also used for Transcription rate (TR) analysis of aliquots from the same cultures. The analysis includes 3 repeats of stress treatment of the W3030-1a strain. The same times were used for sampling in each repeat of the experiment. A single genomic DNA hybridization on every one of the filters is used for normalization between gene probes.

2011-04-19 | E-GEOD-24484 | biostudies-arrayexpress

Comprehensive proteomic study of the antiproliferative activity of a polyphenol-enriched rosemary extract on colon cancer cells using nano-liquid chromatography-Orbitrap MS/MS

Project description:A proteomics strategy based on nano-liquid chromatography-tandem mass spectrometry (nano-LC-MS/MS) using an Orbitrap high-resolution mass spectrometer together with stable isotope dimethyl labeling (DML) is applied to quantitatively examine relative changes in the protein fraction of HT-29 human colon cancer cells treated with different concentrations of a polyphenol-enriched rosemary extract over the time. The objectives of this study were (i) to detect changes in amplitude and kinetics of proteins altered by the treatment over the time; and (ii) to identify proteomic differences between the cytostatic and cytotoxic effect of the natural extract tested in order to gain insights into the antiproliferative mechanisms induced by rosemary polyphenols.

2016-06-08 | PXD003623 | Pride

Nano-liquid chromatography-orbitrap MS/MS-based quantitative proteomics reveals differences between the mechanisms of action of carnosic acid and carnosol in colon cancer cells

Project description:A shotgun proteomics study based on stable isotope dimethyl labeling (DML) and nano liquid chromatography-tandem mass spectrometry (nano-LC-MS/MS) has been performed to identify the relative changes in proteins and to gain some light on the specific molecular targets and mechanisms of action of CA and CS in HT-29 colon cancer cells.

2016-12-23 | PXD004253 | Pride

Determination by ChIP-chip of the binding sites of the developmental transcription regulator BldC in the genome of Streptomyces venezuelae ATCC 10712

Project description:BldC is a transcriptional regulator essential for morphological development Streptomyces venezuelae. Although bldC deletion strain is unable to produce aerial hyphae, electron microscopy reveals that almost all of the colony biomass is in the form of spores rather than undifferentiated vegetative hyphae. This ChIP-chip experiment was carried out to determine the binding sites, and thence the regulon, of BldC in Streptomyces venezuelae. Cy3(IP):Cy5(Total) signal ratios in the wild type were compared to those in a bldC knockout strain.

2017-11-01 | E-MTAB-6129 | biostudies-arrayexpress

A comparison of the effects of duplex-specific nuclease, antisense oligonucleotides, and riboZero rRNA depletion on ribo-Seq data from mouse

Project description:Ribosome profiling is a technique that permits genome-wide, quantitative analysis of translation and has found broad application in recent years. A key step is the depletion of ribosomal RNA that allows sufficient depth of sequencing of the mRNA undergoing ribosomal translation. These data are designed to compare four strategies for ribosomal depletion; a novel strategy based on duplex-specific nuclease using either one or two cycles, the antisense oligonucleotides described in Ingola et al (2012) and the commercially available RiboZero kit (with a no treatment control).

2015-10-16 | E-MTAB-3583 | biostudies-arrayexpress

Identification by ChIP-Seq of the binding sites of the developmental protein BldC in the genome of Streptomyces venezuelae

Project description:The BldC gene is required for the formation of aerial hyphae Streptomyces venezuelae. It is 68 amino acid DNA-binding protein related to the MerR family of transcription factors. BldC deletion strains are bald because they initiate sporulation prematurely, omitting the formation of aerial hyphae altogether. This ChIP-Seq experiment was carried out to determine all the binding sites BldC binds to in the genome of Streptomyces venezuelae. Anti-BldC antibodies were used for ChIP-Seq of the wild type (WT) strain after 10 and 14 hours of growth in shaken cultures. A BldC deletion strain was made and anti-BldC antibodies were used for ChIP-Seq in the deletion strain after 14 hours of growth in shaken cultures. This was used as the negative control and enrichment in this ChIP-Seq was subtracted from the enrichment in the WT strain.

2019-01-14 | E-MTAB-7450 | biostudies-arrayexpress

Transcription profiling of wild type and arp8 mutant yeast after hyperosmolarity stress treatment

Project description:Hyperosmolarty stress treatment of wild type and arp8 mutant Saccharomyces cerevisiae cells

2008-07-15 | E-MEXP-1445 | biostudies-arrayexpress

Transcription profiling of wild type and Pdr1 and Pdr3 knock-out yeast treated with detergents DCP (2-4-dichlorophenol) and POELE (polyoxyethylen-9-laurylether)

Project description:DCP (2-4-dichlorophenol; 0,3mM) and POELE (polyoxyethylen-9-laurylether; 0,1mM)treatment on Saccharomyces cerevisiae W303-1A wild-type cells. Further investigation of the involvement of the transcripton factors Pdr1 and Pdr3 in DCP treated cells. Cells were growing in early exponential phase in rich medium.

2007-10-09 | E-MEXP-865 | biostudies-arrayexpress

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