Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Peripheral blood transcriptome profiles derived from parallel venipuncture (PAXgene and mononuclear cell; PBMC) and dried blood spot (DBS) samples.

ABSTRACT: Comparison of transcript abundance estimates and bioinformatic inferences derived from DBS vs PAXgene vs peripheral blood mononuclear cell (PBMC) samples.

ORGANISM(S): Homo sapiens

PROVIDER: GSE75511 | GEO | 2016/05/18

SECONDARY ACCESSION(S): PRJNA304453

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Peripheral blood transcriptome profiles derived from parallel venipuncture (PAXgene and mononuclear cell; PBMC) and dried blood spot (DBS) samples.

Project description:Comparison of transcript abundance estimates and bioinformatic inferences derived from DBS vs PAXgene vs peripheral blood mononuclear cell (PBMC) samples. Gene expression profiling was conducted using parallel collection and assay of venipuncture samples (PAXgene and PBMC) and DBS samples. Data come from 83 community dwelling adults recruited from the Chicago metropolitan area. In addition to basic demographic characteristics (age, sex, race/ethnicity), participants were also assessed on health-related characteristics (body mass index/BMI; history of smoking or heavy alchol consumption), and educational attainment (z-score transformed). Categorial variables were coded 0=no/absent and 1=yes/present.

2016-05-18 | E-GEOD-75511 | biostudies-arrayexpress

Transcriptome profiles derived from parallel venipuncture, dried blood spot (DBS), and saliva samples

Project description:Comparison of transcript abundance estimates derived from DBS vs saliva vs gold standard peripheral blood mononuclear cell (PBMC) samples.

2016-07-27 | GSE79269 | GEO

Transcriptome profiles derived from parallel venipuncture, dried blood spot (DBS), and saliva samples

Project description:Comparison of transcript abundance estimates derived from DBS vs saliva vs gold standard peripheral blood mononuclear cell (PBMC) samples. Gene expression profiling was conducted using parallel collection and assay of venipuncture blood samples (PBMC), DBS samples, and saliva. Data come from 58 community dwelling adults recruited from the Los Angeles metropolitan area. Analyzed data include basic demographic characteristics (age, sex, race/ethnicity) and body mass index (BMI) as well as RNA indicators of major leukocyte subset prevalence (i.e., estimated abundance of mRNA for CD3, CD4, CD8, CD19, FCGR3A/CD16, NCAM1/CD56, and CD14; all provided here as log2-transformed values of normalized gene expression data). Categorial variables were coded 0=no/absent and 1=yes/present.

2016-07-27 | E-GEOD-79269 | biostudies-arrayexpress

High Field Asymmetric Waveform Ion Mobility Spectrometry in Non-targeted Bottom-up Proteomics of Dried Blood Spot

Project description:Dried Blood Spots samples are a rich source of proteins and have therefore great potential for proteomics biomarker discovery studies. Only a few articles have used DBS samples for non-targeted bottom-up protein analysis, probably due to the complexity of the DBS samples. Gas-phase separation by ion mobility spectrometry such as Field Asymmetric Waveform Ion Mobility (FAIMS) could be useful in analysis of DBS samples as FAIMS has previously shown to be advantageous for bottom-up protein analysis of complex samples. The aim of this project was therefore to evaluate FAIMS in non-targeted analysis of Dried Blood Spots.

2018-05-03 | PXD007926 | Pride

Integrating Hepatitis C Screening With Dried Blood Spot Testing Into Colorectal Cancer Screening

Project description:The main purpose of the study is to compare the acceptance and viability of three strategies aimed to screen hepatitis C virus (HCV) infection in a birth cohort by: a) invitation letter offering HCV screening with dried blood spot (DBS) testing at the primary care center, b) invitation letter offering both HCV and colorectal cancer (CCR) screening with faecal occult test (FOT) at the primary care center, and c) invitation letter offering self-collected screening at home for HCV and CCR.

| 2312242 | ecrin-mdr-crc

DIA proteomics of dried blood spot proteins by sodium carbonate

Project description:We developed a simple and sensitive analysis method for dried blood spot (DBS) proteins by sodium carbonate precipitation (SCP). We aimed to removing large amounts of hydrophilic blood proteins such as hemoglobin, albumin, fibrinogen and transferrin in DBS using a simple pretreatment with sodium carbonate solution, which concentrates membrane proteins. We evaluated the performance of the SCP method by comparing the LC-MS/MS results obtained for proteins prepared by SCP with those obtained by sodium dodecanate (SoDod) extract as total protein solubilized from DBS.

2020-01-20 | PXD017185 | JPOST Repository

Genome-wide analysis of the effect of long-term freezing of PAXgene Blood RNA tubes

Project description:Analysis of long-term freezing on the stability of transcriptome profiles in PAXgene stabilized whole blood samples. In the present study it was tested if long-term freezing of PAXgene RNA tubes (up to one year) has an influence on the transcriptome profile of peripheral whole blood samples. Results indicated that gene expression profiles of whole blood samples stabilized with PAXgene RNA tubes remain stable for at least 1 year.

2011-07-22 | GSE24757 | GEO

MicroRNA sequencing of BIBINS HIE dried blood spot

Project description:Able to seqence microRNA from 2 x 6 mm dired blood spot chads from the BIBINS study. Samples are from newborns with moderate-severe HIE undergoing therapeutic hypothermia at around 16-24 h post insult, mild HIE without therapeutic hypothermia, and umbilical cord blodd from normal pregnancies.

2021-08-05 | GSE181127 | GEO

Gene expression in matched samples of peripheral whole blood collected and processed using the PAXgene vs Tempus system

Project description:To compare gene expression in whole blood samples collected in PAXgene RNA or Tempus collection tubes, and processed using the PAXgene Blood RNA Kit or Tempus Spin RNA isolation Kit, respectively.

2016-11-15 | GSE89021 | GEO

Transcription profiling of Paxgene collected human whole blood and hematopoietic lineages

Project description:Assessment of transcriptome stability in Paxgene collected whole blood and representation of hematopoietic lineages of whole blood transcriptome using single primer isothermal amplification probes without globin reduction protocols. As well as the stability assessment of Paxgene collected samples we investigated whether expression profiling of whole blood RNA (without globin reduction procedures) using the NuGEN single-primer isothermal amplification methods (which generate single stranded cDNA) allows faithful representation of individual lineages. ie. are we losing a lot of information by looking at whole blood rather than PBMCs or individual lineages. These 7 cell lineages were not stored in Paxgene tubes and are only for the purpose of querying the data generated from the Paxgene/sscDNA dataset (12 samples) in order to determine the representation of individual lineage transcriptomes in that dataset.

2008-06-30 | E-MEXP-1600 | 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