Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

In planta expression of human polyQ-expanded huntingtin fragment reveals mechanisms to prevent disease-related protein aggregation.

ABSTRACT: We overexpressed eGFP, eGFP-SPP and pmRFP-Q74 construct in HEK93 cells. We made immunoprecipitation of GFP. We compare the interactome of eGFP and eGFP-SPP.

INSTRUMENT(S): Orbitrap Exploris 480

ORGANISM(S): Homo Sapiens (human)

SUBMITTER: Prerana Wagle

LAB HEAD: David Vilchez

PROVIDER: PXD044408 | Pride | 2023-08-11

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Similar Datasets

In planta expression of human polyQ-expanded huntingtin fragment reveals mechanisms to prevent disease-related protein aggregation

Project description:LiP-MS experiment was performed HEK293 cells which are expressing eGFP +mRFP-HTTQ74 or eGFP-SPP+mRFP-HTTQ74 to analyze structural changes in proteome level between these two conditions.

2023-08-11 | PXD044409 | Pride

In planta expression of human polyQ-expanded huntingtin fragment reveals mechanisms to prevent disease-related protein aggregation.

Project description:We have Q67 worms with overexpression of SPP construct or without overexpression of SPP construct. We compare whole proteome from control group with worms overexpressing of SPP construct

2023-08-11 | PXD044145 | Pride

Nucleotide-resolution, genome-wide, 5'-end maps of the transcriptome of Propionibacterium acnes (cultured with and without potassium downshift)

Project description:The differential RNA-seq data contained within this entry is complemented by global RNA-seq and microarray data, which is also deposited in GEO. Duplicate cultures of Propionibacterium acnes strain KPA171202 were grown exponentially in batch culture under anaerobic growth. Samples were taken following subculture with and without potassium downshift (i.e. removal from medium). This produced 4 samples; 2 replicates x 2 conditions. Aliquots of each of the 4 samples were then incubated with or without incubation TAP (tobacco acid pyrophosphatase) before library construction. Thus, 8 libraries were analysed. TAP treatment allows the cloning and sequencing of 5' ends that were originally triphosphorylated.

2013-05-10 | E-GEOD-46810 | biostudies-arrayexpress

Proteome expression profile of primary cilia deficient mIMCD3 cells

Project description:We characterized the protein expression profiles in ciliated kidney tubular epithelial cells and studied the changes upon loss of primary cilia.

2022-12-07 | PXD035290 | Pride

ABCB5+ limbal epithelial stem cells inhibit developmental, but promote inflammatory (lymph)angiogenesis while preventing corneal inflammation

Project description:ABCB5 is marker for Limbal epithilal stem cells. A comparison between ABCB5+ versus ABCB5- cultured human limbal epithelial cells was carried out to evaluate the properties of the limbal stem cell ABCB5+ with a special focus on their role in inflammation and angiogenesis.

2023-10-24 | PXD041004 | Pride

Gene expression of adipocyte and stromal-vascular fractions

Project description:In order to select mRNA transcripts strongly enriched in murine white adipocytes versus brown adipocytes or stromal-vascular fraction, gene expression data of the adipocyte and stromal-vascular fractions of the interscapular brown, inguinal subcutaneous as well as visceral epididymal adipose tissue depots of young adult male C57BL/6 mice housed at constant 23Â°C ambient temperature were obtained. 18 samples: 3 different adipose tissues separated into stromal-vascular fraction and adipocytes, analyzed in biological triplicates.

2013-04-27 | E-GEOD-44059 | biostudies-arrayexpress

Intracranial self-stimulation regulates gene expression in rat hippocampus

Project description:Transcriptional profiling of rat hippocampus 4.5h post intracranial self-stimulation (ICSS) show that this treatment, which improves learning and memory processes in a variety of paradigms of implicit and explicit memory, regulates gene expression of genes related to cAMP-mediated signaling and regulation of synaptic plasticity, among others. Rats were implanted with a monopolar stainless steel electrode aimed at the lateral hypothalamus in the right hemisphere. Hippocampal gene expression was analyzed 4.5h post treatment comparing rats subjected to acute self-stimulation (2500 stimulation trains; ICSS group) with sham-operated rats (with electrode placement but placed in the ICSS without stimulation during 40 min.; Sham group). Two-condition experiment, ICSS and Sham. Every sample consisted of pooled hippocampi ipsilateral to the electrode from three rats. Slices between Bregma levels -2 and -4 were used for dissections of the hippocampi. Common reference design, comparing every condition versus a brain pooled tissue consisting of pooled hippocampal tissue ipsilateral to the electrode of sham-operated (n=3) and stimulated (n=3) rats. Biological replicates: 4 DBS and 4 sham. One replicate per array.

2013-09-03 | E-GEOD-42793 | biostudies-arrayexpress

The effect of ethanol on the cultured human breast cancer line MCF-7

Project description:Alcohol consumption is a known risk factor for breast cancer in humans. We used the established breast cancer cell line MCF-7 to analyze the effects of ethanol on gene expression at the RNA level. In addition, we carried out studies on protein levels and the ability of cells to grow in an anchorage independent manner. The DNA microarray results are deposited here. We also provide the results of studies on microRNA levels as a separate data set. Cells grown in culture for 1 to 4 weeks were treated with 0-25 mM ethanol. RNA was extracted using the RNeasy Plus Micro kit and subjected to analysis by DNA microarray, using the Affymetrix human Gene 1.0 ST array (platform GPL19142). RNA samples from different treatments were analysed by the UCLA DNA Core lab. Data were returned as rma values. There are control experiments in which cells were grown without added ethanol, and there are experiments in which cells were grown in the presence of 25 mM ethanol for either 1 week or 4 weeks. One column shows the gene expression values for another cell line MCF12-A, which was established using non-malignant human breast cells and which was grown in the absence of ethanol. In this particular Affymetrix array, most genes are evaluated as a single Probe Set, but there are some which are included in the array as 2 or more Probe Sets.

2016-08-11 | E-GEOD-72010 | biostudies-arrayexpress

Transcription profiling of host response to root-knot nematode infection in Arabidopsis

Project description:During a compatible interaction, root-knot nematodes (Meloidogyne spp.) induce the redifferentiation of root cells into multinucleate nematode feeding cells giant cells. These hypertrophied cells result from repeated nuclear divisions without cytokinesis, are metabolically active and present features typical of transfer cells. Hyperplasia of the surrounding cells leads to formation of the typical root gall. We investigate here the plant response to root-knot nematodes.

2005-01-11 | E-MEXP-233 | biostudies-arrayexpress

High-frequency stimulation of the ventrolateral thalamus regulates gene expression in hippocampus, motor cortex and caudate-putamen

Project description:Transcriptional profiling of rat hippocampus comparing rats subjected to chronic (1 hour daily during 14 days) vetrolateral thalamus stimulation (DBS group) with sham operated rats (with electrode placement but without stimulation) and with naive rats. Three-condition experiment, DBS, sham and naive. Every sample consisted of pooled hippocampi from three rats. Slices between Bregma levels -2 and -4 were used for dissections of the hippocampi. Common reference design, comparing every condition versus a brain pooled tissue consisting of pooled hippocampal, thalamic and cortical brain tissue of the naive (n=4), sham-operated (n=5) and stimulated (n=4) rats. Biological replicates: 4 DBS, 4 sham and 3 naive. One replicate per array. Deep brain stimulation

2011-06-30 | E-GEOD-25860 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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