Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

65 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Analysis of differentially expressed genes in MDA-MB-453 after treatment with the compound sulforaphene

ABSTRACT: This study aimed to identify differential expressed genes before and after treatment with the compound sulforaphene, using the MDA-MB-453 breast cancer cell line as a model. There were a total of 2 samples examined.

ORGANISM(S): Homo sapiens

SUBMITTER: Wendi Teng

PROVIDER: E-GEOD-77566 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Shared Molecules

Only show the datasets with similarity scores above: 0.5

Threshold

0.5

Similar Datasets

Analysis of differentially expressed genes in A549 after treatment with Sulforaphene

Project description:This study aimed to identify differential expressed genes before and after treatment with Sulforaphene, using the A549 lung cancer cell line as a model. There were a total of 4 samples examined. Two replicates have been included (2 control samples and 2 test samples).

2015-07-14 | E-GEOD-48899 | biostudies-arrayexpress

Genome-wide maps of the total and lysine methylated enriched pools of peroxisome proliferating activated receptor gamma (pparg) co-activator 1 alpha (ppargc1a) in Hepa 1-6 cells

Project description:We report the application of single nucleotide sequencing technology for high-throughput profiling of ppargc1a in mouse hepatome cells (Hepa1-6). By obtaining 1.2 billion bases of sequence from chromatin immunoprecipitated DNA, we generated genome-wide maps of ppargc1a sin mouse hepatoma cells. We identify novel non- coding sites of ppargc1a occupation in hepatic cells for Sirt5, Idh3b, Pfkl, and Hmox2 strongly corresponds with the enrichment of enhancer -associated RNAs. Examination of the genomic disttribution of the total pool of ppargc1a and the lysine methylated (K779me) enriched pool of ppargc1a in mouse Hepa1-6 hepatoma cells.

2017-05-01 | E-GEOD-57852 | biostudies-arrayexpress

Global expression profile difference of hiPSCs between hESCs and human Urine-Derived Cells

Project description:Compare difference Global expression profile of hiPSCs between hESCs and human Somatic cells, showing that hiPSCs and hESCs is consistent in lineages and indicated that the induce method is safe and reliable. There are three groups of samples, each group has two repeated samples, hiPSCs respectively compared with hESCs and human Urine-Derived Cells.

2016-08-23 | E-GEOD-85885 | biostudies-arrayexpress

Expression data from human placental derived mesenchymal stem cells (PDMSCs)

Project description:When PDMSCs were induced to heptocytes in vitro, cells mophology, stem cell markers, mitochondrial metabolism will change according to the differentiated status.But dedifferentiation reverses differentiated cells to a more primitive phenotype and PDMSCs will retain the multilineage potency. Furthermore, it will leads to the alteration of gene expression pattern. We used microarrays to detail the global programme of gene expression underlying dedifferentiation and hepatogenic differentiation prcocesses, we intend to identify distinct classes of differentiated genes during these processes. Human PDMSCs at passage 5 were induced to hepatocytes for 11 days, then the inductive medium was replaced by general culture medium for 1 day. Then human PDMSCs, hepatogenic PDMSCs at 11 days, dedifferentiated PDMSCs were selected for RNA extraction and hybridization on Affymetrix microarrays. To that end, we hand-selected cells at three time-points: before hepatogenic induction (P), hepatogenic PDMSCs at 11 days (H) and dedifferentiated PDMSCs for 1 day (DH) .

2016-03-30 | E-GEOD-79693 | biostudies-arrayexpress

Genome-wide evaluation of change in lncRNA expression in non-functioning pituitary adenoma using formalin-fixed and paraffin-embedded tissue specimens

Project description:Long noncoding RNAs (lncRNAs) have been implicated in the formation of many different types of tumors. However, expression profiles and potential functions of lncRNAs in non-functioning pituitary adenomas (NFPAs) have not been systematically evaluated. We evaluated the expression profiles and potential functions of lncRNAs in non-functioning pituitary adenomas (NFPAs). 10 formalin-fixed and paraffin-embedded (FFPE) tissue specimens (5 non-functioning pituitary adenomas (NFPAs) and 5 normal pituitaries(NPs)) were selected for RNA extraction and hybridization on Affymetrix microarrays. The NFPAs team was designed as the Tumor group (T), while the NPs team was designed as Normal group (N).

2016-02-06 | E-GEOD-77517 | biostudies-arrayexpress

Expression data from human osteosarcoma bone primaries or lung metastases

Project description:The high concentration of Well5 cells was resuspended into 20Î¼l PBS, the needle along the tibia direction, before reaching in a breakthrough sense, direct injection cells. At 7 days after injection, proximal tibia was able to reach mass production. At 20 days after injection, the proximal tibia mass increased.If prolonging exposure by BLI,this stage displayedthat tumor cell signalsbegan to lung metastasis. Osteosarcoma orthotopic lung metastasis model was successfully constructed. Total RNA was extracted from sorted osteosarcoma cells of the primary site and lung metastases using Trizol (Invitrogen). We used microarrays to detail the global programme of gene expression underlying cellularisation and identified distinct classes of up-regulated genes during osteosarcoma lung metastasis. In support of the notion that fibrosis marks the lung metastasis, the expression of numerous fibrosis-related genes such as FN1, COLs, and MMPs were upregulated from the primary site to lung metastasis in Well5-luc orthotopic inoculation model. Total RNA was extracted from sorted osteosarcoma cells using Trizol (Invitrogen). Gene expression profiling was conducted by Shanghai Biotechnology Corporation using Affymetrix U133 plus 2.0 arrays (Affymetrix, Santa Clara, CA). All data were analyzed according to the manufacturerâ??s protocol. Raw data generated from Affymetrix CEL files were normalized by RMA background correction; values were log2 transformed. For the enrichment of P values of each GO term, we used Fisherâ??s exact test to calculate P values and R package stats to calculate FDR (q value) by BH method (www.r-project.org).

2016-08-13 | E-GEOD-85537 | biostudies-arrayexpress

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

Expression data from stably-transfected KYSE150, transfected with shlncRNA625 or shscramble

Project description:To delineate the putative biological functions for lncRNA625, We performed expression profile from stably-transfected KYSE150 transfected with shlncRNA625 or shscramble for functions of lncRNA625 in ESCC Stably-transfected KYSE150, transfected with shlncRNA625 or shscramble, were collected and lysed in TRIzol (Life technologies). Microarray experiments were performed following the Affymetrix protocol at the Shanghai Biotechnology Corporation.

2015-11-10 | E-GEOD-74707 | biostudies-arrayexpress

Expression data from EP300 was subjected to knockdown by siRNA interference

Project description:We knocked down EP300 and examined the expression of lncRNA625 target genes. Gene expression profiling of knockdown samples on cDNA microarrays indicated that EP300 affected expression of several lncRNA625 downstream target genes Stably-transfected KYSE150, transfected with shlncRNA625 or shscramble, were collected and lysed in TRIzol (Life technologies). Microarray experiments were performed following the Affymetrix protocol at the Shanghai Biotechnology Corporation.

2015-11-10 | E-GEOD-74742 | biostudies-arrayexpress

Methylation profiling in various human cell lines and tissues by mDIP - methylated DNA precipitation with antibodies against methylated cytosine

Project description:Finding the methylation state of DNA promoters in various cell lines and tissues by mDIP - methylated DNA precipitation with antibodies against methylated cytosine.

2006-02-01 | E-MEXP-520 | 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