Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Proteomic analysis of supernatant from NHP heart slices

ABSTRACT: Proteomic analysis was performed on secreted proteins from non human primate (NHP) heart slices (from Macaca fascicularis) in presence or absence of Cardiac progenitors (CPs) 48 h after radiofrequency ablation (RFA) to mimic tissue damage.

INSTRUMENT(S): Q Exactive

ORGANISM(S): Homo Sapiens (human) Macaca Mulatta (rhesus Macaque)

TISSUE(S): Heart, Cardiac Muscle Tissue, Stem Cell

DISEASE(S): Cardiovascular System Disease

SUBMITTER: Marco Gaspari

LAB HEAD: Marco Gaspari

PROVIDER: PXD019521 | Pride | 2022-02-28

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	P-UMG-HED-21dec2019-CONT1.raw	Raw
	P-UMG-HED-21dec2019-CONT2.raw	Raw
	P-UMG-HED-21dec2019-CONT3.raw	Raw
	P-UMG-HED-21dec2019-CP1.raw	Raw
	P-UMG-HED-21dec2019-CP2.raw	Raw

Items per page:

1 - 5 of 7

Similar Datasets

A modular system regulates specialized metabolite pathway branch choice in the medicinal plant Catharanthus roseus.

Project description:This dataset belongs to a set of three RNA-Seq experiments that were carried out to study the regulation of monoterpenoid indole alkaloid production in the medicinal plant Catharanthus roseus. For this dataset, C. roseus hairy roots overexpressing the well-known MIA biosynthesis regulator ORCA3 were analyzed by RNA-Seq. As control, C. roseus hairy roots expressing GUS were used. Each analyzed sample consisted of an independent hairy root line; three hairy root lines per construct were analyzed.

2020-09-07 | E-MTAB-9514 | biostudies-arrayexpress

Ribo-Seq analysis of Col-0, nrf1-1 and nrf1-2 mutant under Fe sufficient and Fe deficiency condition

Project description:This study will reveal the importance of nrf1 in revealing the translational control of Fe homeostasis

2019-12-30 | E-MTAB-8158 | biostudies-arrayexpress

Proteomic profile of extracellular vesicles released by breast cancer cells

Project description:The objective of the experiment was to compare the proteomic profile of extracellular vesicles released by breast cancer cells in basal untreated condition (C1, C2, etc) or treated with the adipokine leptin (L1, L2 etc).

2023-03-11 | PXD037266 | Pride

Interactome analysis of C. elegans synapses by TurboID-based proximity labeling

Project description:Proximity labeling provides a powerful in vivo tool to characterize the proteome of subcellular structures and the interactome of specific proteins. Using the highly active biotin ligase TurboID, we optimize a proximity labeling protocol for C. elegans. We use this protocol to characterise the proteomes of the worm’s gut, muscle, skin, and nervous system. We express TurboID exclusively in the pair of AFD neurons and show we can identify known and previously unknown proteins expressed selectively in AFD. We knock TurboID into the endogenous elks-1 gene, which encodes a presynaptic active zone protein. We identify many known ELKS-1 interacting proteins as well as previously uncharacterised synaptic proteins. Versatile vectors, and the inherent advantage of C. elegans for biochemistry, make proximity labeling a valuable addition to the nematode’s armory.

2021-09-15 | PXD027068 | Pride

Transcriptomes From the Deep Cones During FIbroproliferative Cutaneous Healing in the Duroc/Yorkshire Porcine Model

Project description:The goal was to obtain the differential transcriptome in the deep cones between shallow and deep wounds and between the Yorkshire and Duroc breeds over time. We made shallow and deep wounds on the backs of 3 Yorkshire and 3 Duroc pigs, biopsied the wounds at 1 2 3 12 and 20 weeks, extracted and amplified the RNA from the deep cones, and hybridized the Affymetrix GeneChip®. We compared wound depth by breed over time; the system included 3 factors (depth, breed and time). The system also included repeated measures since the same pigs were used at each time. It also included paired data since the shallow and deep wounds compared were located on the same pig.

2011-12-31 | E-GEOD-26095 | biostudies-arrayexpress

Gene Expression in Three Early Human Hypertrophic Scar Samples

Project description:The goal was to obtain expression data from the deep cones in early human hypertrophic scars to be used to confirm expression data obtained in a porcine model. Three samples of early human hypertrophic scar were obtained and processed with the Affymetrix Human GeneChip® Human Genome U133 plus 2.0. Sample demographics were Black 2, White 1; upper extremity 2, neck 1; times since injury 6.7 months and 10.8 months; and patient ages were 19 and 54.

2011-12-31 | E-GEOD-26213 | biostudies-arrayexpress

TSAR1 and TSAR2 activate triterpene saponin production in Medicago truncatula

Project description:We identified two novel transcription factors ‘Triterpene Saponin Activation Regulator’ (TSAR) 1 and 2 that each activate a specific branch of saponin synthesis in M. truncatula. Therefore we generated three independent TSAR1 and three independent TSAR2 overexpression (OE) hairy root lines. As a control we raised three independent hairy root lines expressing a non-functional GUS gene. By qRT-PCR analyses and metabolite profiling of these lines, we found that TSAR1 OE leads to accumulation of non-haemolytic saponins whereas TSAR2 instigates accumulation of haemolytic saponins. To identify additional targets of TSAR1 and TSAR2 we carried out a genome-wide transcript profiling study by RNA-Seq.

2017-02-15 | E-MTAB-3532 | biostudies-arrayexpress

Genome-wide and experimental resolution of relative translation elongation speed at individual gene level in human cells

Project description:In the process of translation, ribosomes first bind to mRNAs (translation initiation) and then move along the mRNA (elongation) to synthesize proteins. Elongation pausing is deemed highly relevant to co-translational folding of nascent peptides and the functionality of protein products, which positioned the evaluation of elongation speed as one of the central questions in the field of translational control. By employing three types of RNA-seq methods, we experimentally and computationally resolved elongation speed at individual gene level and under physiological condition in human cells. We proposed the elongation velocity index (EVI) as a relative measure and successfully distinguished slow-translating genes from the background translatome. The proteins encoded by the low-EVI genes are more stable than the proteome background. In normal cell and lung cancer cell comparisons, we found that the relatively slow-translating genes are relevant to the maintenance of malignant phenotypes. In addition, we identified cell-specific slow-translating codons, which may serve as a causal factor of elongation deceleration. We sequenced mRNA, translating mRNA (RNC-mRNA) and ribosome footprints in normally growing HeLa cells.

2016-02-09 | E-GEOD-46613 | biostudies-arrayexpress

RNA-Seq analysis of Medicago truncatula hairy root lines treated with methyl jasmonate

Project description:In hairy roots of the model legume Medicago truncatula the saponin production can be elicited by methyl jasmonate treatment. To identify genes potentially involved in saponin biosynthesis or its regulation we carried out transcript profiling by RNA-Seq of M. truncatula hairy roots treated with 100 μM of methyl jasmonate (dissolved in ethanol) for two or 24 hours. As control, M. truncatula hairy roots treated with an equivalent amount of ethanol were profiled.

2020-01-27 | E-MTAB-8697 | biostudies-arrayexpress

A modular system regulates specialized metabolite pathway branch choice in the medicinal plant Catharanthus roseus

Project description:This dataset belongs to a set of three RNA-Seq experiments that were carried out to study the regulation of monoterpenoid indole alkaloid production in the medicinal plant Catharanthus roseus. For this dataset, C. roseus flower petals were infiltrated with Agrobacterium tumefaciens C58C1 or infiltration buffer as control. For each sample, flower petals from four to five flowers, each from a different individual plant were infiltrated.

2020-09-07 | E-MTAB-9517 | 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