Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

MiRNA signatures of intracellular and extracellular fractions from cancer cell lines

ABSTRACT: For the purpose of finding a novel tumor marker, we conducted microRNA profiling analysis in fractions of cells, exosomes, and culture medium from seven cancer cell lines. Ranking data of the intracellular and extracellular microRNAs obtained by microarray analysis, we found that let-7 microRNA family are rich in all fractions from AZ-P7a cells, a metastatic gastric cancer cell line. miRNA profiling in fractions of cells, exosomes, and culture medium were conducted by miRNA microarray analysis. Two replicates of intra-samples were performed.

ORGANISM(S): Homo sapiens

SUBMITTER: Keiichi HATAKEYAMA

PROVIDER: E-GEOD-21350 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

Let-7 microRNA family is selectively secreted into the extracellular environment via exosomes in a metastatic gastric cancer cell line.

Ohshima Keiichi K Inoue Kanako K Fujiwara Akemi A Hatakeyama Keiichi K Kanto Kaori K Watanabe Yuko Y Muramatsu Koji K Fukuda Yorikane Y Ogura Shun-ichiro S Yamaguchi Ken K Mochizuki Tohru T

PloS one 20101008 10

<h4>Background</h4>Exosomes play a major role in cell-to-cell communication, targeting cells to transfer exosomal molecules including proteins, mRNAs, and microRNAs (miRNAs) by an endocytosis-like pathway. miRNAs are small noncoding RNA molecules on average 22 nucleotides in length that regulate numerous biological processes including cancer pathogenesis and mediate gene down-regulation by targeting mRNAs to induce RNA degradation and/or interfering with translation. Recent reports imply that mi ...[more]

PMID: 20949044

Similar Datasets

Effect of iron-limitation, elevated temperature and florfenicol antibiotics on the subcellular proteomes and the vesiculation of the fish pathogen Aeromonas salmonicida

Project description:Here we analyzed the proteomic response of the important Gram-negative fish pathogen A. salmonicida to iron-limitation, the antibiotic florfenicol and an elevated incubation temperature. Proteins of different subcellular fractions (cytosol, inner membrane, outer membrane, extracellular and outer membrane vesicles) were enriched and analyzed.

2022-08-30 | PXD034641 | Pride

Proteome analysis of Renibacterium salmoninarum reveals putative role of membrane vesicles in virulence

Project description:This study used subcellular fractionation combined with proteomics for a comprehensive overview of the protein localizations of R. salmoninarum proteins within enriched subcellular fractions of cytosolic, membrane, extracellular and membrane vesicle (MV) proteins. With this approach, 1,674 protein groups were label-free quantified and the abundance of proteins involved in virulence processes were compared between the subcellular fractions.

2022-02-24 | PXD025586 | Pride

Detect circulating miRNA Expression change after exposure to hexavalent chromium (an carcinogen) among occuaptional workers

Project description:We profiled plasma miRNA expression in workers exposed to Cr(VI), and assessed genetic damage on chromosome and DNA to compare the sensitivity between epigenetic changes and genetic damage for biomarkers We screened differently expressed plasma miRNAs between high and low Cr(VI) exposed workers using Agilent miRNA microarray. low exposure : <5.49 ng/ml; high exposure >5.49 ng/ml

2014-08-01 | E-GEOD-53135 | biostudies-arrayexpress

miRNA expression profile of cells and exosomes

Project description:We hypothesized that miRNAs in the bone maroow mesenchymal stem cells (BM-MSC)-derived exosomes contributed to the phenotype change of breast cancer cells through exosome transfer. We analyzed the miRNA expression signature in BM-MSC-derived exosomes. We compared the miRNA expression levels in exosomes between BM-MSCs and adult fibroblasts (as a control). In this study, miRNA expression including in bone-marrow mesenchymal cell (BM-MSC)-derived exosomes was examined, and compared with that of exosomes derived from adult fibroblast cells or the BM-MSC cells. In addition, miRNA expression of BM-MSC exosomes was also compared with that of breast cancer cells with or without cancer stem cell marker.

2014-07-03 | E-GEOD-58027 | biostudies-arrayexpress

Characterization of the small RNA content of Trypanosoma cruzi extracellular vesicles

Project description:A growing body of evidence in mammalian cells indicates that secreted vesicles can be used to mediate intercellular communication processes by transferring various bioactive molecules, including mRNAs and microRNAs. Based on these findings, we decided to analyze whether T. cruzi-derived extracellular vesicles contain RNA molecules and performed a deep sequencing and genome-wide analysis of a size-fractioned cDNA library (16M-bM-^@M-^S40 nt) from extracellular vesicles secreted by noninfective epimastigote and infective metacyclic trypomastigote forms. Our data show that the small RNAs contained in these extracellular vesicles originate from multiple sources, including tRNAs. In addition, our results reveal that the variety and expression of small RNAs are different between parasite stages, suggesting diverse functions. Taken together, these observations call attention to the potential regulatory functions that these RNAs might play once transferred between parasites and/or to mammalian host cells. Small RNAs profiles (16-40 nt) of epimastigote-derived extracellular vesicles, metacyclic trypomastigote-derived extracellular vesicles and metacyclic trypomastigote parental cells.

2014-07-15 | E-GEOD-54111 | biostudies-arrayexpress

Transcriptome dynamics of the dormancy - growth transition in Douglas-fir needles

Project description:We report sequencing the transcriptome of Douglas-fir (Pseudotsuga menziesii (Mirb.) Franco) during spring bud burst. Samples from needle tissue of two half-sibs from two families each, nested within three seed sources, were sequenced (total of six families and 12 individuals). Samples were taken at seven time points with the failure of one library, resulting in 83 total sequenced samples. Three time points were used for transcriptome assembly and 4 time point were analyzed for differential expression across time and within seed sources.

2013-06-05 | E-GEOD-44058 | biostudies-arrayexpress

Global Genome Analysis of the Downstream Binding Targets of Testis Determining Factor SRY and SOX9 [SOX9 ChIP]

Project description:A major event in mammalian male sex determination is the induction of the testis determining factor Sry and its downstream gene Sox9. The current study provides one of the first genome wide analyses of the downstream gene binding targets for SRY and SOX9 to help elucidate the molecular control of Sertoli cell differentiation and testis development. A modified ChIP-Chip analysis using a comparative hybridization was used to identify 71 direct downstream binding targets for SRY and 109 binding targets for SOX9. Interestingly, only 5 gene targets overlapped between SRY and SOX9. In addition to the direct response element binding gene targets, a large number of atypical binding gene targets were identified for both SRY and SOX9. Bioinformatic analysis of the downstream binding targets identified gene networks and cellular pathways potentially involved in the induction of Sertoli cell differentiation and testis development. The specific DNA sequence binding site motifs for both SRY and SOX9 were identified. Observations provide insights into the molecular control of male gonadal sex determination. The current study provides one of the first genome wide analyses of the downstream gene binding targets for SRY and SOX9 to help elucidate the molecular control of Sertoli cell differentiation and testis development. At embryonic day 13 (E13) of pregnancy rats were euthanized and embryonic gonads were collected for chromatin. A modified ChIP-Chip analysis using a comparative hybridization was used to identify direct downstream binding targets for SRY and for SOX9. Then, bioinformatic analysis of the downstream binding targets was done to identify gene networks and cellular pathways that are potentially involved in the induction of Sertoli cell differentiation and testis development.

2014-12-05 | E-GEOD-63855 | biostudies-arrayexpress

Global Genome Analysis of the Downstream Binding Targets of Testis Determining Factor SRY and SOX9 [SRY ChIP]

2014-12-05 | E-GEOD-63854 | biostudies-arrayexpress

Global Genome Analysis of the Downstream Binding Targets of Testis Determining Factor SRY and SOX9

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

2014-12-05 | E-GEOD-63856 | biostudies-arrayexpress

MicroRNA profile of exosome from serum samples of Kawasaki disease

Project description:To further development of our miRNA diagnostic approach to Kawasaki disease(KD), we have employed microRNA microarray expression profiling as a discovery platform to identify microRNAs as the potential biomarkers to rapidly diagnose Kawasaki disease. Pooled exosome of serum in equal amount from 5 healthy children, 5 KD patients and 5 KD patients after Intravenous immunoglobulin (IVIG) therapy were used for microRNA microarray analysis. MicroRNA profile of exosome from Kawasaki disease(KD) was analyzed by microRNA microarray analysis in 5 healthy children, 5 KD patients and 5 KD patients after IVIG therapy.

2014-09-03 | E-GEOD-60965 | 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