Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Expression data from PBMC treated with rabbit anti-thymocyte globulin (rATG) or horse ATG (hATG)

ABSTRACT: We performed microarray to compare gene expression patterns of PBMC treated with rATG or hATG. Fold changes were compared using 2-way ANOVA tests for untreated, rATG- and hATG-treated PBMC. In PBMC treated with 10 ug/mL rATG, compared with untreated PBMC, 478 genes showed up-regulation, and 341 genes showed down-regulation at 24 hours using 10% FDR and 2-fold change cutoff. Immediately striking was that 10 ug/mL hATG had affected many fewer genes than did rATG: only 3 genes were up-regulated and 6 genes were down-regulated at 24 hours in hATG-treated PBMC. When we compared rATG with hATG, rATG induced up-regulation of 268 genes and down-regulation of 95 genes. These genes belong to the categories of immune response (64 genes), cytokine-cytokine receptor interaction (36 genes), regulation of cell proliferation (24 genes), cell cycle (23 genes), cell growth (8 genes), apoptosis (7 genes), and others. Keywords: different treatment

ORGANISM(S): Homo sapiens

PROVIDER: GSE10040 | GEO | 2008/11/10

SECONDARY ACCESSION(S): PRJNA108607

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Transcription profiling of human peripheral blood mononuclear cells treated with rabbit anti-thymocyte globulin (rATG) or horse ATG (hATG)

Project description:We performed microarray to compare gene expression patterns of PBMC treated with rATG or hATG. Fold changes were compared using 2-way ANOVA tests for untreated, rATG- and hATG-treated PBMC. In PBMC treated with 10 ug/mL rATG, compared with untreated PBMC, 478 genes showed up-regulation, and 341 genes showed down-regulation at 24 hours using 10% FDR and 2-fold change cutoff. Immediately striking was that 10 ug/mL hATG had affected many fewer genes than did rATG: only 3 genes were up-regulated and 6 genes were down-regulated at 24 hours in hATG-treated PBMC. When we compared rATG with hATG, rATG induced up-regulation of 268 genes and down-regulation of 95 genes. These genes belong to the categories of immune response (64 genes), cytokine-cytokine receptor interaction (36 genes), regulation of cell proliferation (24 genes), cell cycle (23 genes), cell growth (8 genes), apoptosis (7 genes), and others. Experiment Overall Design: PBMC from healthy controls were cultured with rATG or hATG (each at 10 ug/mL) in 10% FCS/RPMI 1640 at 37C for 24 hours, PBMC without drugs were used as controls. Total RNA was extracted with the RNeasy kit (Qiagen, Valencia, CA). RNA purity was assessed by spectrophotometry. Probes were prepared using standard Affymetrix protocols and hybridized to Affymetrix HG-U133A 2.0 arrays (Affymetrix, Santa Clara, CA)

2008-11-15 | E-GEOD-10040 | biostudies-arrayexpress

Ex vivo treatment of peripheral blood mononuclear cells (PBMC) with L-sulforaphane

Project description:Blood samples were collected from healthy volunteers, PBMC were collected using standard ficoll centrifugation. RNA was collected from untreated and PBMC treated with 15 µM L-sulforaphane for 24 hours. Libraries were prepared for mRNA-Seq.

2022-01-09 | GSE160353 | GEO

miRNA profiling of Hepa1-6-bearing mouse model

Project description:the Hepa1-6-bearing C57 BL/6 mouse model was utilized to explore the therapeutic efficacy of Ganoderma lucidum extract (GLE), documenting that it could effectively inhibit tumor growth. Furthermore, the microRNA (miRNA) profiles of GLE-treated and untreated mice were detected, and 25 differential expressed (DE) miRNAs were determined, including 24 up-expressed and one down-expressed miRNAs., documenting that it could effectively inhibit tumor growth. Furthermore, the microRNA (miRNA profiles of GLE-treated and untreated mice were detected, and 25 differential expressed (DE miRNAs were determined, including 24 up-expressed and one down-expressed miRNAs.

2019-12-29 | GSE142692 | GEO

Expression data from MCF-7 breast cancer cells treated with Wild Type Tomato fruit extract (WT) and transgenic lines tomato fruit extract (L6 and L7)

Project description:To investigate the effects of transgenic lines L6 and L7 tomato fruits on total expression profile of MCF-7 breast cancer cells, we treated MCF-7 cells with 1 ug/ml of tomato fruit extract for 24 hours and compare it with wild type tomato fruit extract Objectives for this study included the identification of genes that were up or down-regulated at the transcriptional level in MCF-7 cells treated with transgenic lines L6 and L7 tomatofruit extract and compare it to wild type tomato fruit extract.

2017-06-12 | GSE94548 | GEO

Unravelling the mechanism of action of Tofacitinib on immune cell trafficking through IBD-associated microvasculature

Project description:In order to investigate the effect of tofacitinib on leukocyte trafficking through primary HIMEC from patients with UC, we designed a pilot experiment with the aim to establish the most efficient JAK inhibiting dose. For this purpose, we performed a dose-dependent experiment on UC-derived HIMEC, assessing Peripheral Blood Mononuclear Cells (PBMC) transmigration and using a range between 10 and 300 nM (10, 50, 100, 300 nM), according to the literature. More in detail, in a Transwell system (Figure 1), 500.000 PBMC, in 3 replicates, have been plated on confluent monolayers of untreated or Tofacitinib pre-treated (24 hours) UC-HIMEC at the various concentrations. After 18 hours of incubation transmigrated PBMC have been counted and their phenotype characterized by FACS. In order to avoid any direct effect of Tofacitinib on PBMC, the 18 hour- long incubation has been performed in the absence of the drug.

2021-12-09 | GSE165636 | GEO

Transcriptome analysis using RNA sequencing conducted for wild type (Col-0), ahl10-1 and rrp6l1-2 mutant under control conditions and after 96 h at moderate low water potential (-0.7 MPa)

Project description:RNA sequencing was used to identify genes differentially expressed (DEG) in ahl10-1 mutants and rrp6l1-2 mutant compared to Col-0 wild type. Two treatments were analyzed for each genotype: unstressed control and a 96 hour low water potential (-0.7 MPa) treatment. Approximately 2000-3000 genes were found to be significantly up and down-regulated in the wild type stress versus control treatment using . rrp6l1-2 mutant shows around 500 and 250 genes up and down regulated respectively in control treated seedlings while 10 or less than 10 found in ahl10-1. In the stress treatment, rrp6l1-2 and ahl10-1 have less and 60 genes up and downregulated. ahl10-1 and rrp6l-2 have a common set of downregulated genes (24 genes) at stress treatment.

2022-07-15 | GSE101197 | GEO

RNA sequencing of mouse myoblast cells C2C12 with and without lenvatinib treated after 4 days differentiated.

Project description:Transcriptome were compared between lenvatinib-treated and untreated C2C12 cells. 145 up-regulated genes and 285 down-regulated genes were identified by setting a 2-fold change and p < 0.05 threshold.

2024-04-15 | GSE249627 | GEO

GM00156 EMETINE TIME COURSE

Project description:GM00156 (Coriell) cells were treated with and without 100?g/ml Emetine Dihydrochloride Hydrate (Fluka, Buchs, Swizerland). Both Emetine-treated and untreated control cells were then incubated at 37°C for 10 hours. After the incubation, the first time point (0 min) was harvested for both treated and untreated cells. Simultaneously, Actinomycin D (Sigma-Aldrich, St Louis, MO) with the final concentration of 5ug/ml, was added to the remaining treated and untreated cells to stop new transcription. Time points of 10min, 30min, 1h, and 8h were harvested in both groups for most of the cell lines. Cell pellets were snap-frozen and mRNA extracted by using FastTrack kit (Invitrogen) according to the manufacturer’s instructions. For each time point, the untreated sample was hybridized against the Emetine-treated equivalent. Four ug of untreated mRNA was labeled with Cy5-dUTP and four ug of Emetine-treated mRNA with Cy3-dUTP (Amersham Biosciences, Piscataway, NJ) as previously described (Mousses et al, 2000). Image analysis was done by DeArray software. Average intensities of the tumor samples were divided by the average intensities of the reference sample at each microarray spot after background intensity subtraction. Within-slide normalization was performed with ratio statistics method using housekeeping genes as described previously (Chen et al, 1997). The data were quality filtered with ratio quality method (Chen et al, 2002), which computes a quality value for each ratio. The scale for the quality values is from zero (poor quality) to one (good quality). Here, all ratios having quality value below 0.5 were discarded from the subsequent analysis. Keywords: time-course

2004-06-24 | GSE1490 | GEO

Gene expression profiling of MRC-5 cells treated with 100 ug/mL regular-length pristine SWCNTs for 72 h

Project description:A total of 30 genes were up-regulated and 19 genes were down-regulated > 1.5-fold following 100 ug/mL regular-length pristine SWCNTs treatment

2016-11-23 | GSE89375 | GEO

LNCaP EMETINE TIME COURSE

Project description:LNCaP prostate cancer cells were treated with and without 100?g/ml Emetine Dihydrochloride Hydrate (Fluka, Buchs, Swizerland). Both Emetine-treated and untreated control cells were then incubated at 37°C for 10 hours. After the incubation, the first time point (0 min) was harvested for both treated and untreated cells. Simultaneously, Actinomycin D (Sigma-Aldrich, St Louis, MO) with the final concentration of 5ug/ml, was added to the remaining treated and untreated cells to stop new transcription. Time points of 10min, 30min, 1h, 2h, and 4h were harvested in both groups for most of the cell lines. Cell pellets were snap-frozen and mRNA extracted by using FastTrack kit (Invitrogen) according to the manufacturer’s instructions. For each time point, the untreated sample was hybridized against the Emetine-treated equivalent. Four ug of untreated mRNA was labeled with Cy5-dUTP and four ug of Emetine-treated mRNA with Cy3-dUTP (Amersham Biosciences, Piscataway, NJ) as previously described (Mousses et al, 2000). Image analysis was done by DeArray software. Average intensities of the tumor samples were divided by the average intensities of the reference sample at each microarray spot after background intensity subtraction. Within-slide normalization was performed with ratio statistics method using housekeeping genes as described previously (Chen et al, 1997). The data were quality filtered with ratio quality method (Chen et al, 2002), which computes a quality value for each ratio. The scale for the quality values is from zero (poor quality) to one (good quality). Here, all ratios having quality value below 0.5 were discarded from the subsequent analysis. Keywords: time-course

2004-06-24 | GSE1488 | GEO

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