Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

41 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Identification of microRNAs involved in pathways characterizing the expression subtypes of NSCLC

ABSTRACT: Identification of microRNAs involved in pathways characterizing the expression subtypes of NSCLC

ORGANISM(S): Homo sapiens

SUBMITTER: Ann Rita Halvorsen

PROVIDER: E-MTAB-7958 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Identification of microRNAs involved in pathways characterizing the expression subtypes of NSCLC

Project description:The aim of this project was to identify microRNAs associated with the expression subtypes in patients diagnosed with non-small cell lung cancer. Based on mRNA expression data the samples were assign to a gene expression subtype based on 506 gene centroid classifier. The patients enrolled in this study underwent curatively intended surgical resection. Subtype-specific microRNA expression was correlated to gene set enrichment scores in order to identify associated pathways that the microRNAs may be regulating, characterizing the expression subtypes. In order to assess if the subtype-specific microRNA signal originate from the lung cancer cells or from infiltrating immune cells, we compared our subtype-specific microRNAs with the results from a study investigating human cell-specific microRNA expression. In this project the authors sequenced microRNAs from 46 primary cell types, 42 cancer cell lines and tissues (McCall MN, Kim MS, Adil M, Patil AH, Lu Y, Mitchell CJ, Leal-Rojas P, Xu J, Kumar M, Dawson VL et al: Toward the human cellular microRNAome. Genome Res 2017, 27(10):1769-1781). The results were further validated in independent NSCLC cohorts (LUAD and LUSC) from The Cancer Genome Atlas (TCGA). In this study we identified subtype specific microRNAs associated with essential processes characterizing the expression subtypes of ADs and SCCs.

2019-11-01 | E-MTAB-7954 | biostudies-arrayexpress

Baseline NSCLC cell lines compared to a reference mix consisting of 45 NSCLC cell lines

Project description:34 NSCLC cell lines were transcriptionally profiled against a reference mix of 45 NSCLC cell lines to look subtype specific differential gene expression 34 individual cell lines were compared to a reference mix consiting of 45 NSCLC cell lines

2013-01-18 | E-GEOD-43567 | biostudies-arrayexpress

Dicer knockout NSCLC RNAseq and miRseq

Project description:Dicer knockout NSCLC mRNAseq profiles the transcriptome, Dicer knockout NSCLC miRseq profiles the miRnome DicerHet and DicerKO NSCLC, 2 biological reps each genotype for mRNAseq, 1 biological rep each for miRseq

2014-04-25 | E-GEOD-57043 | biostudies-arrayexpress

Human NSCLC DIA proteomics validation cohort 2

Project description:In this project, one NSCLC cohorts were analyzed by Data Independent Acquisition (DIA-MS). A cohort of early stage NSCLC samples (207) with the aim to demonstrate utility of MS for subtyping and treatment prediction in a clinical setting. Further, six identified NSCLC proteome subtypes were investigated in relation to cancer driver pathways and immune phenotypes based on the generated MS-data.

2021-09-13 | PXD025560 | Pride

Characterizing protein-DNA binding event subtypes in ChIP-exo data

Project description:Characterizing protein-DNA binding event subtypes in ChIP-exo data

| PRJNA433873 | ENA

Dicer knockout NSCLC RNAseq and miRseq

Project description:Dicer knockout NSCLC mRNAseq profiles the transcriptome, Dicer knockout NSCLC miRseq profiles the miRnome

2014-04-25 | GSE57043 | GEO

Baseline NSCLC cell lines compared to a reference mix consisting of 45 NSCLC cell lines

Project description:34 NSCLC cell lines were transcriptionally profiled against a reference mix of 45 NSCLC cell lines to look subtype specific differential gene expression

2013-01-18 | GSE43567 | GEO

Transcriptome of human NSCLC tissues

Project description:RNA from patient samples was isolated to examine the TGFb pathway expression between matching pairs of tumor-free lung and NSCLC specimen RNA from patient samples was isolated to examine the TGFb pathway expression between matching pairs of tumor-free lung and NSCLC specimen

2016-05-18 | E-GEOD-74706 | biostudies-arrayexpress

DNA copy number profiles of NSCLC tumors

Project description:Whole genome tiling path array CGH was used to measure the copy number profiles of 271 NSCLC tumors 271 microdissected NSCLC tumors

2011-09-11 | E-GEOD-31798 | biostudies-arrayexpress

Gene expression profiles of NSCLC tumors

Project description:A custom microarray was used to measure the gene expression of NSCLC tumors. This represents a subset of samples which also have matched DNA copy number profiles from array CGH experiments 49 microdissected NSCLC tumor samples

2011-09-11 | E-GEOD-31799 | 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