Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Hot phenol

ABSTRACT: Determine differences between RNA isolation methods. Keywords: Comparison of RNA isolation techniques

ORGANISM(S): Saccharomyces cerevisiae

PROVIDER: GSE3684 | GEO | 2005/12/01

SECONDARY ACCESSION(S): PRJNA93825

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Hot phenol

Project description:Determine differences between RNA isolation methods. Total RNA was isolated from yeast cells in stationary-phase cultures using three different isolation methods. All experimental samples are over an common reference. There are two replicates for each sample.

2010-06-30 | E-GEOD-3684 | biostudies-arrayexpress

INTACT vs. FANS for cell-type-specific nuclei isolation: A comprehensive qualitative and quantitative comparison

Project description:In this study we used transgenic mouse model to comapre two isolation techniques INTACT and FANS for the isolation of activated neuronal nuclei. Comparison is perfomed on multiple levels like isolation efficiency, membrane integrity, transcriptional and epigenetic state using RNA-seq and ATAC-seq

2021-01-28 | GSE165644 | GEO

Comparison between conventionally-isolated and laser capture microdissected glomeruli

Project description:We compared the gene expression analysis of 2 different glomerular isolation techniques (laser capture microdissection with 2 rounds of RNA amplification and unamplified glomerular RNA after iron perfusion with glomerular sieving) and obtained different results depending on the glomerular isolation technique that was used Keywords: time course

2007-09-11 | GSE8998 | GEO

RNA Isolation Methods - Diverse Biofluids

Project description:RNA Isolation Methods - Diverse Biofluids

| PRJNA1013972 | ENA

Peptide-based capture-and-release purification of extracellular vesicles and statistical algorithm enabled quality assessment

Project description:Extracellular vesicles (EVs) have gained significant attention in the field of extracellular communication, holding promise as intercellular messengers and diagnostic biomarkers. However, the challenges in isolating and purifying EVs from complex biological samples have hindered their widespread utility. This study presents a novel EV isolation strategy leveraging bioinformatics, utilizing the pH-low insertion peptide (pHLIP) to capture and release EVs under controlled conditions. The pHLIP-magnetic bead approach was developed to achieve efficient EV isolation, addressing the persistent issue of EV isolation method comparability. EVs from human plasma were isolated and characterized using various techniques, offering insights into the proposed isolation method's efficacy. A data science-driven statistical metric integrating multiple characterizations was applied to enable direct comparisons between different isolation methods. Next generation sequencing was applied to examine how the observed RNA-population differences across isolated EVs may lead researchers to different conclusions. This research contributes to the advancement of reliable and rigorous EV isolation methods and their potential clinical applications.

2024-01-31 | GSE246925 | GEO

phenol degrading bacteria

Project description:Isolation and identification of phenol degrading bacteria

| PRJEB31471 | ENA

Comparison of EVs isolation methods for miRNAs sequencing

Project description:Comparison of EVs isolation methods for miRNAs sequencing

| PRJNA928492 | ENA

Differential gene expression profiles are dependent upon method of peripheral blood RNA isolation (direct, heparin)

Project description:RNA isolation and purification steps greatly influence the results of gene expression profiling. There are two commercially available products for whole blood RNA collection, PAXgene and Tempus blood collection tubes, and each comes with their own RNA purification method. We examined the impact of RNA isolation methods on gene expression profiles. We demonstrated that peripheral blood RNA isoaltion can critically impact differential expression results, particularly in the clinical setting where fold-change differences are typically small and there is inherent variability within biological corhorts Keywords: micorarray quality assurance

2008-10-30 | GSE12710 | GEO

Differential gene expression profiles are dependent upon method of peripheral blood RNA isolation (PHA)

2008-10-30 | GSE12709 | GEO

An optimized ribodepletion approach for C. elegans RNA-sequencing libraries

Project description:Advances over the past decade have allowed for increasingly fine-grained labeling and isolation of rare cell samples for transcriptomic analysis, providing new insights into cell function and gene regulation. These samples often contain very little RNA for sequencing, and so have required new techniques to capture and amplify transcripts of interest. However, as new tools are developed, they are often optimized for mammalian samples. Thus, it is unclear for invertebrate samples what the best practices are for library preparation, and how differences in library preparation approaches affect final results. Here we compared two commercially available techniques: a commonly used polyA selection approach, and a newly developed ribodepletion approach, for which we designed a unique C. elegans-specific probe set. We performed a detailed comparison on multiple RNA samples and developed novel analysis methods to compare the results. Our analysis identifies clear strengths and weaknesses for both of these approaches in building libraries from low abundance RNA samples in C. elegans. We find that the polyA approach is superior in both percent reads mapped and rRNA removal, while the ribodepletion approach provides better detection for long and noncoding RNAs along with increased certainty of calling expression for low abundance transcripts. These insights will help guide researchers in designing future experiments in transcriptomics and provide a model for comparative analysis of library-building techniques.

2021-01-30 | GSE165793 | GEO

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