GEO DataSets

(Submitter supplied) Set up and modification of Agilent standard protocols for a new custom 60-mer array for C. acetobutylicum. Keywords: Test of platform and protocols

Organism:

Clostridium acetobutylicum; Clostridium acetobutylicum ATCC 824

Type:

Expression profiling by array

Platform:

GPL4029

10 Samples

Download data: TXT

(Submitter supplied) Several custom made Agilent arrays were hybridized to select the best 60-mers for the transcriptional profiling of C. acetobutylicum strains. Keywords: Test of 60-mer performance

Organism:

Clostridium acetobutylicum; Clostridium acetobutylicum ATCC 824

Type:

Expression profiling by array

Platforms:

GPL4030 GPL4029 GPL3820

12 Samples

Download data: TXT

(Submitter supplied) Both spotted long oligonucleotide arrays and Affymetrix GeneChips were used to measure differential gene expression in two RNA samples (K562 erythroleukemia RNA and the Stratagene Universal Human Reference RNA). For Affymetrix technology, the two RNAs were analyzed separately. There are two replicates for K562 RNA (GSM4843 and GSM4844) and three for the Stratagene Universal reference (GSM4845-GSM4847). more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Datasets:

GDS222 GDS223

Platforms:

GPL274 GPL273 GPL8300

23 Samples

Download data: CEL

Part of a comparison of spotted long oligonucleotide arrays with in situ synthesized 25-mer arrays. Examination of amplified and unamplified K562 erythroleukemia RNA and Stratagene Universal Human Reference RNA.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 2 cell type sets

Platform:

GPL8300

Series:

GSE344

5 Samples

Download data: CEL

Part of a comparison of spotted long oligonucleotide arrays with in situ synthesized 25-mer arrays. Examination of amplified and unamplified K562 erythroleukemia RNA and Stratagene Universal Human Reference RNA.

Organism:

Homo sapiens

Type:

Expression profiling by array, log ratio, 3 protocol sets

Platform:

GPL273

Series:

GSE344

14 Samples

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(Submitter supplied) See Talla et al. 2003 (PMID : 14499002)

Organism:

Saccharomyces cerevisiae

1 Series

22 Samples

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(Submitter supplied) See Talla et al. 2003 (PMID : 14499002)

Organism:

Saccharomyces cerevisiae

1 Series

18 Samples

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(Submitter supplied) The yeast 5803 ORFs MicroArray is composed of 32 subgrids, which follow a pattern of 8 metarows and 4 metacolumns. Each subgrid contains 20 columns and 20 rows with a dot spacing of 200 µm. Probes are spotted as closed duplicates. In order to provide a friendly environment, the first subgrid row on each array metarow contains all the normalization controls, which include the controls with serial dilution of the Renilla LuxA cDNA PCR product. more...

Organism:

Saccharomyces cerevisiae

3 Series

16 Samples

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(Submitter supplied) The yeast 5803 ORFs MicroArray is composed of 32 subgrids, which follow a pattern of 8 metarows and 4 metacolumns. Each subgrid contains 20 columns and 20 rows with a dot spacing of 200 µm. Probes are spotted as closed duplicates. In order to provide a friendly environment, the first subgrid row on each array metarow contains all the normalization controls, which include the controls with serial dilution of the Renilla LuxA cDNA PCR product. more...

Organism:

Saccharomyces cerevisiae

1 Series

6 Samples

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(Submitter supplied) Transcriptomic profiling of gene expression in EA 2018 relative to that of ATCC824 revealed several key genes related to solvent formation. For example, spo0A and adhEII have higher expression level, and most of the acid formation related genes have lower expression level in EA 2018.

Organism:

Clostridium acetobutylicum ATCC 824; Clostridium acetobutylicum; Clostridium acetobutylicum EA 2018

Type:

Expression profiling by array

Platform:

GPL10678

12 Samples

Download data: TXT

(Submitter supplied) DNA microarray technology allows the analysis of genome structure and dynamics at genome-wide scale. Expression microarrays (EMA) contain probes for annotated open reading frames (ORF) and are widely used for the analysis of differential gene expression. By contrast, tiling microarrays (TMA) have a much higher probe density and provide unbiased genome-wide coverage. The purpose of this study was to develop a protocol that would take advantage of the high resolution of TMAs for quantitative measurement of DNA strand-specific differential expression of annotated and non-annotated transcripts. more...

Organism:

Schizosaccharomyces pombe; Schizosaccharomyces pombe 972h-

Type:

Expression profiling by array; Expression profiling by genome tiling array

Platforms:

GPL9671 GPL9672

8 Samples

Download data: CEL

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

Organism:

Arthrobacter sp.; Clostridium acetobutylicum DSM 1731; Clostridium acetobutylicum

Type:

Expression profiling by array

Platforms:

GPL19013 GPL19020

16 Samples

Download data: TXT

(Submitter supplied) Immobilization of Clostridium acetobutylicum B3 onto fibrous matrix by surface-adsorption was developed and applied to biobutanol production. The immobilized C. acetobutylicum B3 cells formed biofilm and showed dramatically improved butanol tolerance and production rate. DNA array-based transcriptional analysis of C.acetobutylicum B3 biofilm cells was conducted to elucidate the gene expression profile of the biofilm cells. more...

Organism:

Arthrobacter sp.; Clostridium acetobutylicum DSM 1731; Clostridium acetobutylicum

Type:

Expression profiling by array

Platform:

GPL19020

8 Samples

Download data: TXT

(Submitter supplied) Immobilization of Clostridium acetobutylicum B3 onto fibrous matrix by surface-adsorption was developed and applied to biobutanol production. The immobilized C. acetobutylicum B3 cells formed biofilm and showed dramatically improved butanol tolerance and production rate. DNA array-based transcriptional analysis of C.acetobutylicum B3 biofilm cells was conducted to elucidate the gene expression profile of the biofilm cells. more...

Organism:

Arthrobacter sp.; Clostridium acetobutylicum

Type:

Expression profiling by array

Platform:

GPL19013

8 Samples

Download data: TXT

(Submitter supplied) Transcriptomic analysis was applied to acidogenic, solventogenic and alcohologenic steady-state C. acetobutylicum cells for understanding the regulation of the metabolism of this organism. Used microarray is Clostridium acetobutylicum ATCC824 transcriptional 44k v4, correspondance to GPL10908

Organism:

Clostridium acetobutylicum ATCC 824

Type:

Expression profiling by array

Platform:

GPL10908

9 Samples

Download data: TXT

(Submitter supplied) Transcriptomic analysis was applied to acidogenic, solventogenic and alcohologenic steady-state C. acetobutylicum cells for understanding the regulation of the metabolism of this organism. Used microarray is Clostridium acetobutylicum ATCC824 transcriptional 44k v4, correspondance to GPL10908

Organism:

Clostridium acetobutylicum ATCC 824

Type:

Expression profiling by array

Platform:

GPL10908

36 Samples

Download data: TXT

(Submitter supplied) We present a novel method of using commercial oligonucleotide expression microarrays for aCGH, enabling DNA copy number measurements and expression profiles to be combined using the same platform. This method yields aCGH data from genomic DNA without complexity reduction at a median resolution of approximately 17,500 base pairs. Due to the well-defined nature of oligonucleotide probes, DNA amplification and deletion can be defined at the level of individual genes and can easily be combined with gene expression data. more...

Organism:

Homo sapiens

Type:

Genome variation profiling by array

Platform:

GPL570

8 Samples

Download data: CEL

(Submitter supplied) A maize array was fabricated with 5,376 unique expressed sequence tag (EST) clones sequenced from 4-day-old roots, immature ears and adult organ cDNA libraries. To elucidate organ relationships, relative mRNA levels were quantified by hybridization with embryos, three maize vegetative organs (leaf blades, leaf sheaths and roots) from multiple developmental stages, husk leaves and two types of floral organs (immature ears and silks). more...

Organism:

Zea mays

Type:

Expression profiling by array

Platform:

GPL12

24 Samples

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(Submitter supplied) A maize array fabricated with 5,376 unique expressed sequence tag (EST) clones sequenced from 4-day-old roots, immature ears and adult organ cDNA libraries. mRNA source: Zea mays strain with genetic background K55 (75%), W23 (20%), Robertson's Mutator (5%).

Organism:

Zea mays

1 Series

24 Samples

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(Submitter supplied) BACKGROUND: Microarray comparative genomic hybridization (CGH) is currently one of the most powerful techniques to measure DNA copy number in large genomes. In humans, microarray CGH is widely used to assess copy number variants in healthy individuals and copy number aberrations associated with various diseases, syndromes and disease susceptibility. In model organisms such as Caenorhabditis elegans (C. more...

Organism:

Caenorhabditis elegans; Homo sapiens

Type:

Genome variation profiling by genome tiling array

Platforms:

GPL7085 GPL7084

3 Samples

Download data: PAIR