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 expression of human samples of hepatoblastoma (HB) and normal and fetal liver

ABSTRACT: Forty-nine hepatoblastoma (HB) tumor specimens were profiled on a microarray containing 250human miRNA, in order to identify miR classifiers that could discriminate HBs with diverse prognosis, and to get insight on the functional mechanisms in which miRNAs are involved. Hierarchical unsupervised clustering of HB samples according to their miRNA expression profile identifies 2 tumor subgroups associated with different degree of differentiation, proliferation rate and invasive phenotype. As subset of these tumors is used as training set to build a mir classifier. When the signature is applied to an independent test set, an independent series of HB is classified patients into two groups associated with the clinical features identified in the first set of patients.

ORGANISM(S): Homo sapiens

SUBMITTER: stefano cairo

PROVIDER: E-GEOD-20971 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

MicroRNA profiling by array of older patients with cytogenetically normal AML with high or low BAALC- and ERG-related gene-expression signatures

Project description:microRNA expression microarray data for analysis of BAALC- and ERG-related miR-expression signatures in older patients with cytogenetically normal AML. The signal intensity was calculated for each spot making an adjustment for local background (i.e., mean foreground minus the median background). Signal intensities less than one were set equal to one and then log-transformed. Log-intensities from replicate spots were averaged. Quantile normalization was performed on arrays using all human and mouse microRNA probes represented on the array. For each microRNA probe, an adjustment was made for batch effects (ie, differences in expression related to the batch in which arrays were hybridized). The normalized data has not been submitted to ArrayExpress.

2011-09-08 | E-TABM-1071 | biostudies-arrayexpress

MicroRNA profiling of human hepatocellular carcinoma samples shows miR-221 overexpression contributes to liver tumorigenesis

Project description:We profiled miRNA expression in tissue samples (104 HCC, 90 adjacent cirrhotic livers, 21 normal livers) as well as in 35 HCC cell lines. A set of 12 miRNAs (including miR-21, miR-221/222, miR-34a, miR-519a, miR-93,miR-96, and let-7c) was linked to disease progression from normal liver through cirrhosis to full-blown HCC. miR-221/222, the most upregulated miRNAs in tumor samples, are shown to target the CDK inhibitor p27 and to enhance cell growth in vitro. Conversely, these activities can be efficiently inhibited by an antagomiR specific for miR-221. In addition, we show, using a mouse model of liver cancer, that miR-221 overexpression stimulates growth of tumorigenic murine hepatic progenitor cells.

2009-12-08 | E-TABM-866 | biostudies-arrayexpress

MicroRNA profiling of human glioblastoma cell lines and tissue samples identifies microRNAs whose expression is altered in glioblastoma multiforme

Project description:MicroRNAs are short non-coding RNA molecules playing regulatory roles in animals and plants by repressing translation or cleaving RNA transcripts. The specific modulation of several microRNAs has been recently associated to some forms of human cancer, suggesting that these short molecules can represent a new class of genes involved in oncogenesis. In our study, we examined by microarray the global expression levels of 245 microRNAs in glioblastoma multiforme (GBM), the most frequent and malignant of primary brain tumors. The analysis of both glioblastoma tissues and glioblastoma cell lines allowed us to identify a group of microRNAs whose expression is significantly altered in this tumor. The most interesting results came from miR-221, strongly upregulated in glioblastoma and a set of brain-enriched miRNAs, miR-128, miR-181a, miR-181b, miR-181c, which are down-regulated in glioblastoma.

2005-09-23 | E-TABM-37 | biostudies-arrayexpress

MicroRNA profiling of human cancer samples identifies ultraconserved regions encoding ncRNAs are altered in human leukemias and carcinomas.

Project description:A critical question in molecular oncology is how extensive is the involvement of non-codingRNAs (ncRNAs) in human tumorigenesis. Herein, we report that a large fraction of genomic ultraconserved regions (UCRs) are encoding a particular set of ncRNAs and are altered in human cancers. We show that UCRs are frequently located at fragile sites and genomic regions involved in cancers, and that genome-wide UCRs profiling reveals distinct signatures in human leukemias and carcinomas. We proved that the inhibition of an overexpressed UCR induces apoptosis in colon cancer cells, and we identified UCRs whose expression may be regulated by miRNAs abnormally expressed in human chronic lymphocytic leukemia (CLL). Our findings argue that non-coding genes are involved in tumorigenesis at a greater extent as thought before and offer the perspective of identification of signatures associated with diagnosis, prognosis and response to treatment composed by various categories of ncRNA genes.

2007-12-01 | E-TABM-184 | biostudies-arrayexpress

MicroRNA profiling of human papillary thyroid carcinoma and normal thyroid to assess the role of miRNA genes in papillary thyroid carcinoma

Project description:Apart from alterations in the RET/PTC-RAS-BRAF pathway, comparatively little is known about the genetics of papillary thyroid carcinoma (PTC). We show that numerous miRNAs are transcriptionally up-regulated in PTC tumors compared with unaffected thyroid tissue. A set of 5 miRNAs including the 3 most upregulated ones (miRs 221, 222, 146) distinguished unequivocally between PTC and normal thyroid. Additionally, miR-221 was upregulated in unaffected thyroid tissue in several PTC patients, presumably an early event in carcinogenesis. Tumors in which the upregulation (11-19 fold) of miRs 221, 222 and 146 was strongest showed dramatic loss of KIT transcript and Kit protein. In five of 10 such cases this was associated with germline single nucleotide changes in the two recognition sequences in KIT for these miRNAs. We conclude that upregulation of several miRs and down regulation of KIT are involved in PTC pathogenesis, and that sequence changes in genes targeted by miRNAs can contribute to their downregulation.

2005-02-28 | E-TABM-68 | biostudies-arrayexpress

MicroRNA profiling of human THP-1 cells following 14 hours of resveratrol treatment

Project description:We studied the role of microRNAs specifically upregulated in THP-1 cells following a 14 hours resveratrol treatment (50 micromolar).

2010-02-28 | E-TABM-780 | biostudies-arrayexpress

Transcription profiling by array of human acute myeloid leukemia samples

Project description:AML

2010-05-10 | E-TABM-972 | biostudies-arrayexpress

MicroRNA profiling of human normal prostate and prostate cancer samples to investigate the role of miRNA involvement in prostate carcinogenesis

Project description:MicroRNA (miRNA) expression profiles for prostate cancers were examined to investigate the miRNA involvement in prostate carcinogenesis. miRNA microarray analysis identified statistical unique profiles, which could discriminate prostate cancers from noncancerous prostate tissues.

2005-12-31 | E-TABM-49 | biostudies-arrayexpress

MicroRNA profiling of patients with acute myeloid leukemia to identify microRNA signatures associated with cytogenetics and prognosis

Project description:MicroRNA signatures associated with cytogenetics and prognosis in acute myeloid leukemia

2008-01-10 | E-TABM-405 | biostudies-arrayexpress

MicroRNA profiling of human acute myeloid leukemia samples from patients characterized for subcellular localization/mutation status of NPM1 and FLT3 mutations

Project description:Acute myeloid leukemia (AML) carrying NPM1 mutations and cytoplasmic nucleophosmin (NPMc+ AML) accounts for about one-third of adult AML and shows distinct features, including a unique gene expression profile. MicroRNAs (miRNAs) are small noncoding RNAs of 19-25 nucleotides in length that have been linked to the development of cancer. Here, we investigated the role of miRNAs in the biology of NPMc+ AML. The miRNA expression was evaluated in 85 adult de novo AML patients characterized for subcellular localization/mutation status of NPM1 and FLT3 mutations using a custom microarray platform. Data were analyzed by using univariate t test within BRB tools. We identified a strong miRNA signature that distinguishes NPMc+ mutated (n = 55) from the cytoplasmic-negative (NPM1 unmutated) cases (n = 30) and includes the up-regulation of miR-10a, miR-10b, several let-7 and miR-29 family members. Many of the down-regulated miRNAs including miR-204 and miR-128a are predicted to target several HOX genes. Indeed, we confirmed that miR-204 targets HOXA10 and MEIS1, suggesting that the HOX up-regulation observed in NPMc+ AML may be due in part by loss of HOX regulators-miRNAs. FLT3-ITD+ samples were characterized by up-regulation of miR-155. Further experiments demonstrated that the up-regulation of miR-155 was independent from FLT3 signaling. Our results identify a unique miRNA signature associated with NPMc+ AML and provide evidence that support a role for miRNAs in the regulation of HOX genes in this leukemia subtype. Moreover, we found that miR-155 was strongly but independently associated with FLT3-ITD mutations.

2008-03-14 | E-TABM-429 | 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