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TranscriptomicsSystematic meta-analysis and replication of genome-wide expression studies of Parkinson's disease: 3
Systematic meta-analysis and replication of genome-wide expression studies identifies molecular pathways of Parkinson's disease. Analysis of substantia nigrae from postmortem brains of 6 patients with Parkinson's disease (PD). Results provide insight into the molecular processes perturbed in the PD ...
ORGANISM(S): Homo sapiens 
2011-01-20 | E-GEOD-20164 | biostudies-arrayexpress
ProteomicsEarly Cardiac Proteomic Profiling in a Long-Latency Doxorubicin Cardiomyopathy Model Exhibits Sexual Dimorphism for Cardioprotection
In this study, we employed large-scale data-independent acquisition (DIA) proteomics in a long-latency rat model of doxorubicin-induced cardiomyopathy to characterize early cardiac proteomic remodeling prior to overt functional decline. Male and female Sprague-Dawley rats received a cumulative low d...
ORGANISM(S): Rattus norvegicus (Rat) 
2026-09-14 | PXD076815 | Pride
Doxorubicin Dia Proteomics Female Long latency Male Data-independent acquisition Cardiomyopathy 
GenomicsMultiscale representation of genomic signals
Genomic information is encoded on a wide range of distance scales, ranging from tens of base pairs to megabases. We developed a multiscale framework to analyze and visualize the information content of genomic signals. Different types of signals, such as GC content or DNA methylation, are characteriz...
ORGANISM(S): Mus musculus 
2014-04-13 | E-GEOD-54414 | biostudies-arrayexpress
TranscriptomicsComparative Genome-Wide Transcriptional Analysis of Bilateral Internal Mammary Arteries
In Coronary Artery Bypass Grafting (CABG), the combined use of Left or Right Internal Mammary Artery (LIMA or RIMA) -collectively known as Bilateral IMAs (BIMAs)- provides a survival advantage over the LIMA alone. Several studies analyzed the gene expression in LIMAs and other conduits, however they...
ORGANISM(S): Homo sapiens 
2012-10-31 | E-GEOD-41036 | biostudies-arrayexpress
TranscriptomicsRNA immunoprecipitation to identify RHA-binding transcripts in HEK293 cells
Given that RHA regulates translation by binding a PCE located at the 5’ UTR of the target transcripts a genome-wide screen was performed to identify mRNAs that bind RHA in vivo. The results from four experiments with samples obtained in four independent RNA immunoprecipitations identified 375 transc...
ORGANISM(S): Homo sapiens 
2010-08-19 | E-GEOD-23688 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of Arabidopsis to assess spiking
Transcript profiling is crucial to study biological systems and various platforms have been implemented to survey mRNAs at the genome scale. We have assessed the characteristics of the CATMA microarray designed for Arabidopsis thaliana transcriptome analysis, and compared it with two commercial plat...
ORGANISM(S): Arabidopsis thaliana 
2004-11-23 | E-MEXP-197 | biostudies-arrayexpress
TranscriptomicsEffects of a short-term exposure to the fungicide prochloraz on endocrine function and gene expression in female fathead minnows (Pimephales promelas)
Prochloraz is a fungicide known to cause endocrine disruption through effects on the hypothalamic-pituitary-gonadal (HPG) axis. To determine the short-term impacts of prochloraz on gene expression and steroid production, adult female fathead minnows (Pimephales promelas) were exposed to the chemical...
ORGANISM(S): Pimephales promelas 
2011-02-03 | E-GEOD-26958 | biostudies-arrayexpress
TranscriptomicsTranscription Response by sulfur chemolithoautotroph Thiomicrospira crunogenato dissolved inorganic carbon and ammonia limitation
The hydrothermal vent gammaproteobacterium Thiomicrospira crunogena inhabits an unstable environment and must endure dramatic sweeps in habitat chemistry. This sulfur chemolithoautotroph responds to changes in dissolved inorganic carbon (DIC; = CO2 + HCO3- + CO3-2) availability with a carbon concent...
ORGANISM(S): Thiomicrospira crunogena 
2012-03-04 | E-GEOD-36254 | biostudies-arrayexpress
TranscriptomicsMethylation profiling of Low-Risk Myelodysplastic Syndromes (MDSs)
Genome-wide expression and methylation profiling identifies novel targets with aberrant hypermethylation and reduced expression in low-risk myelodysplastic syndromes (MDSs). Gene expression profiling signatures may be used to classify the subtypes of Myelodysplastic syndrome (MDS) patients. However,...
ORGANISM(S): Homo sapiens 
2012-09-28 | E-GEOD-41215 | biostudies-arrayexpress
TranscriptomicsChIP-on-chip from multiple donors of BM-MSCs with H3K4me3 and H3K27me3
Bone marrow-derived multipotent stromal cells (BM-MSCs) exhibit therapuetically valuable properties, including the capacity to differentiate into skeletal tissues and modulate immune system activity. These properties depend on proper regulation of dynamic gene expression in response to environmental...
ORGANISM(S): Homo sapiens 
2015-02-09 | E-GEOD-64172 | biostudies-arrayexpress
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