Similar studies for GEO DataSets (Select 200031757) - GEO DataSets

Select item 2000317571.

A Systematic Comparison and Evaluation of High Density Exon Arrays and RNA-seq technology in Unraveling the Peripheral Blood Transcriptome of Sickle Cell Disease.

(Submitter supplied) Sickle cell transcriptome was analyzed using whole blood clinical specimens on the Affymetrix Human Exon 1.0 ST arrays and Illumina’s deep sequencing technologies. Data analysis indicated a strong concordance (R=0.64) between exon array and RNA-seq in both gene level and exon level expression of transcripts. The magnitude of fold changes in the expression levels for the differentially expressed genes (p<0.05) was found to be higher in RNA-seq than microarrays. more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL5188
10 Samples

Download data: CEL

Series

Accession:: GSE31757

ID:: 200031757

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Select item 2000130722.

Gene Expression and Isoform Variation Analysis using Affymetrix Exon Arrays

(Submitter supplied) Background:Alternative splicing and isoform level expression profiling is an emerging field of interest within genomics. Splicing sensitive microarrays, with probes targeted to individual exons or exon-junctions, are becoming increasingly popular as a tool capable of both expression profiling and finer scale isoform detection. Despite their intuitive appeal, relatively little is known about the performance of such tools, particularly in comparison with more traditional 3’ targeted microarrays. more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Platforms:: GPL5175 GPL5188
40 Samples

Download data: CEL

Series

Accession:: GSE13072

ID:: 200013072

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Select item 2000130693.

Gene Expression and Isoform Variation: Exon-level Analysis

(Submitter supplied) Background:Alternative splicing and isoform level expression profiling is an emerging field of interest within genomics. Splicing sensitive microarrays, with probes targeted to individual exons or exon-junctions, are becoming increasingly popular as a tool capable of both expression profiling and finer scale isoform detection. Despite their intuitive appeal, relatively little is known about the performance of such tools, particularly in comparison with more traditional 3’ targeted microarrays. more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL5188
20 Samples

Download data: CEL

Series

Accession:: GSE13069

ID:: 200013069

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Select item 2000130664.

Gene Expression and Isoform Variation: Gene-level Analysis

(Submitter supplied) Background:Alternative splicing and isoform level expression profiling is an emerging field of interest within genomics. Splicing sensitive microarrays, with probes targeted to individual exons or exon-junctions, are becoming increasingly popular as a tool capable of both expression profiling and finer scale isoform detection. Despite their intuitive appeal, relatively little is known about the performance of such tools, particularly in comparison with more traditional 3’ targeted microarrays. more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL5175
20 Samples

Download data: CEL

Series

Accession:: GSE13066

ID:: 200013066

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Select item 2000847885.

Compared performance of Affymetrix HTA arrays and Illumina RNAseq for the analysis of tumours

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Homo sapiens

Type:: Expression profiling by array; Expression profiling by high throughput sequencing

Platforms:: GPL17585 GPL11154
36 Samples

Download data: CEL

Series

Accession:: GSE84788

ID:: 200084788

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Select item 2000847846.

Compared performance of Affymetrix HTA arrays and Illumina RNAseq for the analysis of tumours [Affymetrix]

(Submitter supplied) Here we compared the performance of Affymetrix HTA 2.0 microarray and Illumina 2000 RNA-sequencing techniques on the clinical samples collected from patients with lung squamous cell carcinoma.

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL17585
18 Samples

Download data: CEL

Series

Accession:: GSE84784

ID:: 200084784

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Select item 2000847767.

Compared performance of Affymetrix HTA arrays and Illumina RNAseq for the analysis of tumours [RNA-seq]

(Submitter supplied) Here we compared the performance of Affymetrix HTA 2.0 microarray and Illumina 2000 RNA-sequencing techniques on the clinical samples collected from patients with lung squamous cell carcinoma.

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL11154
18 Samples

Download data: TXT

Series

Accession:: GSE84776

ID:: 200084776

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Select item 2000156668.

Using high-density exon arrays to profile gene expression in closely related species

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Homo sapiens; Macaca mulatta; Pan troglodytes

Type:: Expression profiling by array

Platforms:: GPL8444 GPL5175
15 Samples

Download data: CEL

Series

Accession:: GSE15666

ID:: 200015666

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Select item 2000156659.

Using high-density exon arrays to profile gene expression in closely related species (HJAY)

(Submitter supplied) Global comparisons of gene expression profiles between species provide significant insight into gene regulation, evolutionary processes, and disease mechanisms. In this work, we describe a flexible and intuitive approach for global expression profiling of closely related species, using high-density exon arrays designed for a single reference genome. The high-density probe coverage of exon arrays allows us to select the identical set of perfect-match probes for measuring expression levels of orthologous genes. more...

Organism:: Pan troglodytes; Macaca mulatta; Homo sapiens

Type:: Expression profiling by array

Platform:: GPL8444
9 Samples

Download data: CEL

Series

Accession:: GSE15665

ID:: 200015665

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Select item 20001562610.

Using high-density exon arrays to profile gene expression in closely related species (Exon 1.0 ST)

(Submitter supplied) Global comparisons of gene expression profiles between species provide significant insight into gene regulation, evolutionary processes, and disease mechanisms. In this work, we describe a flexible and intuitive approach for global expression profiling of closely related species, using high-density exon arrays designed for a single reference genome. The high-density probe coverage of exon arrays allows us to select the identical set of perfect-match probes for measuring expression levels of orthologous genes. more...

Organism:: Pan troglodytes; Homo sapiens

Type:: Expression profiling by array

Platform:: GPL5175
6 Samples

Download data: CEL

Series

Accession:: GSE15626

ID:: 200015626

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Select item 20010497411.

Comparison of RNA-seq and Microarray Platforms for Splice Event Detection using a Cross-Platform Algorithm

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Homo sapiens

Type:: Expression profiling by array; Expression profiling by high throughput sequencing

Platforms:: GPL24082 GPL11154
60 Samples

Download data: CEL

Series

Accession:: GSE104974

ID:: 200104974

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Select item 20010497312.

Comparison of RNA-seq and Microarray Platforms for Splice Event Detection using a Cross-Platform Algorithm [RNA-Seq]

(Submitter supplied) In this study, we compare the performance of RNA-seq (Illumina HiSeq) and junction arrays (Affymetrix Human Transcriptome array) for the analysis of splicing events. Three different cell lines were treated with CX-4945, a drug that severely affects splicing. To make a fair comparison, we developed EventPointer, an algorithm that detects and labels alternative splicing events in both junction arrays and RNA-seq. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL11154
30 Samples

Download data: TXT

Series

Accession:: GSE104973

ID:: 200104973

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Select item 20010461013.

Comparison of RNA-seq and Microarray Platforms for Splice Event Detection using a Cross-Platform Algorithm [Junction Arrays]

(Submitter supplied) In this study, we compare the performance of RNA-seq (Illumina HiSeq) and junction arrays (Affymetrix Human Transcriptome array) for the analysis of splicing events. Three different cell lines were treated with CX-4945, a drug that severely affects splicing. To make a fair comparison, we developed EventPointer, an algorithm that detects and labels alternative splicing events in both junction arrays and RNA-seq. more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL24082
30 Samples

Download data: CEL

Series

Accession:: GSE104610

ID:: 200104610

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Select item 20003624414.

Transcriptomic response to benzo[a]pyrene treatment in HepG2 cells

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Homo sapiens

Type:: Expression profiling by array; Expression profiling by high throughput sequencing

Platforms:: GPL9052 GPL13695
16 Samples

Download data: CEL, TXT

Series

Accession:: GSE36244

ID:: 200036244

Select item 20003624315.

Transcriptomic response to benzo[a]pyrene treatment in HepG2 cells (Affymetrix)

(Submitter supplied) Whole-genome transcriptome measurements are pivotal for characterizing carcinogenic mechanisms of chemicals and predicting toxic classes, such as genotoxicity, from in vitro and in vivo assays. DNA microarrays have evolved as the gold standard for this purpose. In recent years deep sequencing technologies have been developed that hold the promise of measuring the transcriptome with RNA-seq in a more accurate and unbiased manner than microarrays. more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL13695
8 Samples

Download data: CEL, TXT

Series

Accession:: GSE36243

ID:: 200036243

Select item 20003624216.

Transcriptomic response to benzo[a]pyrene treatment in HepG2 cells (RNA-Seq)

(Submitter supplied) Whole-genome transcriptome measurements are pivotal for characterizing carcinogenic mechanisms of chemicals and predicting toxic classes, such as genotoxicity, from in vitro and in vivo assays. DNA microarrays have evolved as the gold standard for this purpose. In recent years deep sequencing technologies have been developed that hold the promise of measuring the transcriptome with RNA-seq in a more accurate and unbiased manner than microarrays. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL9052
8 Samples

Download data: TXT

Series

Accession:: GSE36242

ID:: 200036242

Select item 20002611817.

A human transcriptome array for high-throughput clinical studies (with a comparison to RNA-seq technology)

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Homo sapiens

Type:: Expression profiling by array; Expression profiling by high throughput sequencing

Platforms:: GPL11320 GPL9052 GPL11319
24 Samples

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Series

Accession:: GSE26118

ID:: 200026118

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Select item 20002610918.

A human transcriptome array for high-throughput clinical studies (with a comparison to RNA-seq technology) [RNA-Seq]

(Submitter supplied) A new high-density oligonucleotide array of the human transcriptome (GG-H array) has been developed for high-throughput and cost-effective analyses in clinical studies. This array allows comprehensive examination of gene expression and genome-wide identification of alternative splicing, as well as detection of coding SNPs and non-coding transcripts. The GG-H array was validated using samples from multiple independent preparations of human liver and muscle, and compared with results obtained from mRNA sequencing analysis. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL9052
8 Samples

Download data: TXT

Series

Accession:: GSE26109

ID:: 200026109

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Select item 20002607219.

A human transcriptome array for high-throughput clinical studies (with a comparison to RNA-seq technology) [expression array]

(Submitter supplied) A new high-density oligonucleotide array of the human transcriptome (GG-H array) has been developed for high-throughput and cost-effective analyses in clinical studies. This array allows comprehensive examination of gene expression and genome-wide identification of alternative splicing, as well as detection of coding SNPs and non-coding transcripts. The GG-H array was validated using samples from multiple independent preparations of human liver and muscle, and compared with results obtained from mRNA sequencing analysis. more...