Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

7 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Expression and epigenetic profiling during mouse ESC neural differentiation

ABSTRACT: This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

ORGANISM(S): Mus musculus

SUBMITTER: Naihe Jing

PROVIDER: E-GEOD-66027 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Gene expression analysis in differentiated day 3 cells from mouse ESC under the treatment of DMSO and histone deacetylase inhibitors (TSA) [expression array]

Project description:Based on the cDNA microarrays performed with the RNAs prepared from the differentiated cells at day 3 with or without 24 hrs TSA treatment initiated at day 2, we reveal that the upregulated gene sets were highly enriched for biological functions related to mesoderm development, mesoderm morphogenesis and others. Three independent experiments were performed at each treatment (DMSO or TSA).

2015-02-19 | E-GEOD-66026 | biostudies-arrayexpress

Mining potential serum biomarkers for gastric adenocarcinoma using quantitative proteomics

Project description:Serum is a valuable body fluid to diagnose cancer as it can be accessed with minimal invasive techniques. Studying the cancer serum proteome provides valuable insights into the pathophysiology of tumor progression. Gastric adenocarcinoma is an aggressive cancer resulting in poor prognosis, mainly due to the lack of specific early diagnostic biomarkers. To this end, we used an iTRAQ-based quantitative proteomic approach to identify differentially expressed proteins in the sera of patients diagnosed with gastric cancer. Our study resulted in the identification of 643 proteins in the serum, of which 48 proteins were found to be overexpressed and 11 proteins underexpressed in gastric cancer when compared with healthy controls. We used multiple reaction monitoring assays to validate the overexpression of potential biomarkers. This catalog of serum-based biomarkers will aid in diagnosis and prognosis of gastric cancer.

2015-07-27 | PXD001265 | Pride

CGH analysis of monkey PG-haESCs (parthenogenic haploid embryonic stem cells)

Project description:The genomic DNA sample of monkey PG-haESCs were compared to the female adipose cells by comparative genomic hybridization. The data confirmed that these haploid cells sustained genome integrity. The analysis was performed on a Agilent aCGH G3 Rhesus Macaque 4x180K array to analyse the copy number variations in monkey PG-haESCs, and the genomic DNA of femal monkey adipose was used as control, which had the same background with haploid ESCs.

2013-06-26 | E-GEOD-43979 | biostudies-arrayexpress

Derivation of monkey parthenogenetic haploid embryonic stem cells

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2013-06-26 | E-GEOD-43980 | biostudies-arrayexpress

compare of expression between IA and MMA

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2013-04-25 | E-GEOD-46338 | biostudies-arrayexpress

Differentially expressed genes in metallopanstimulin-1 knockdown cells

Project description:To identify the differentially expressed genes in metallopanstimulin-1 (MPS-1) knockdown gastric cancer cells compared with negative control ones, we employed the microarray profiling analysis. MPS-1 was knockdown by retroviral interfering system in human gastric adenocarcinoma originated cell SGC7901 and the transfectants named P4, while the negative control named NC. Genes with greater than 1.5-fold change and P-value ?0.05 were identified as differentially expressed genes between NC and P4 cells. Among those, apoptotic related gene (Gadd45?, cIAP2, Bcl2, CAD, Bid, etc) and adhesive related genes (integrin beta 4, ECM2, etc) were quantified by real-time PCR as well as western blotting. The two groups of negative control (NC) and MPS-1 knockdown gastric cancer cells (P4) were harvested after puromycin screening. Three independent experiments were performed for each group.

2011-04-27 | E-GEOD-28877 | biostudies-arrayexpress

SRL1 encodes a putative GPI-anchored protein and modulates rice leaf rolling by regulating the differentiation of bulliform cells

Project description:To identify genes involved in the differentiation of bulliform cells, genome-wide analysis of gene expression profiles was performed in cells to be differentiated into bulliform cells in srl1-1 but epidermal cells in Nip. The seedlings of Nip and srl1-1 were fixed at 5 DAG (day after germination), and cells to be differentiated into bulliform cells in srl1-1 but epidermal cells in Nip were isolated by LCM (laser capture microdissection). Then total RNA were extracted from two independent biological replicates.

2012-09-05 | E-GEOD-37140 | biostudies-arrayexpress

Genes and miRNAs regulated by Gadd45a during somatic cell reprogramming

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2014-04-22 | E-GEOD-56944 | biostudies-arrayexpress

Plasma miRNA profile as a predictor for early virological response of interferon treatment in chronic hepatitis B patients

Project description:To find novel circulating markers associated with prognosis of interferon therapy,We performed microarray analysis of plasma samples in 94 chronic hepatitis B patients Ninety four HBV patients, who underwent PEG-IFN or conventional interferon treatment were enrolled. Their plasma samples before treatment were collected and subject to miRNA array analysis. miRNA profiles from 13 formalin fixed formaldehyde embedded liver biopsy samples were also analyzed to evaluate the correlation between liver and plasma.

2011-09-19 | E-GEOD-29911 | biostudies-arrayexpress

Identification of genes that are differentially expressed in alt1 and WT

Project description:we characterized the rice alkaline tolerant mutant, alt1. Map-based cloning revealed that alt1 harbors a mutation in a putative chromatin remodeling ATPase gene. ALT1-RNAi transgenic plants mimicked the alt1 phenotype, exhibiting tolerance to alkali stress in a transcript dosage-dependent manner. We found that the predicted ALT1 protein belonged to the Ris1 subgroup of the Snf2 family and was localized in the nucleus. qRT-PCR analysis showed that ALT1 was predominantly expressed in leaf blades and sheaths, and that ALT1 transcription was rapidly suppressed after alkaline treatment. These results support the notion that ALT1 is a negative regulator of alkaline tolerance. Roots of two-leaf stage alt1 and WT seedlings grown under normal conditions were sampled for microarray analysis. The transcriptomic profiles were investigated using an Agilent-015241 Rice Gene Expression 4×44 K Microarray (Agilent Technology) containing 32,325 probes corresponding to cDNA, 6,934 probes corresponding to expressed sequence tags (ESTs), and 2,612 probes corresponding to gene predicted loci, respectively, with three independent biological replicates. Roots of two-leaf stage alt1 and WT seedlings grown under normal conditions were sampled for microarray analysis

2014-09-27 | E-GEOD-61788 | 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