GEO DataSets

(Submitter supplied) We developped a new oligo microarray platform to analyse flax transcriptome. Here, we validated this microarray on several tissues of flax, at different developmental stages.

Organism:

Linum usitatissimum

Type:

Expression profiling by array

Platform:

GPL10419

30 Samples

Download data: CALLS, PAIR

(Submitter supplied) Technical replicates, consisting of four independent hybridizations of the same labelled cRNA, were performed to determine array-to-array reproducibility. After normalization, correlation index between all replicates exceeded 98%.

Organism:

Sparus aurata

Type:

Expression profiling by array

Platform:

GPL6467

4 Samples

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(Submitter supplied) Two different early developmental stages of gilthead sea bream: i) larvae at 24 hours post-hatching ( Stage 1), and ii) larvae at 96 hours post-hatching (Stage 4), were used for gene expression analysis. For each stage, total RNA was extracted from five (5) independent biological replicates, each consisting of pools of approximately 40-50 larvae. Based on SAM analysis, 1518 genes were differentially expressed between the two stages with a FDR (False Discovery Rate) of 0.0.

Organism:

Sparus aurata

Type:

Expression profiling by array

Platform:

GPL6467

10 Samples

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(Submitter supplied) GE 4x44k oligo microarray that covers 19,715 unique transcripts of the gilthead sea bream (Sparus aurata). Oligonucleotides, 60-mer plus a “linker”, are synthesized directly on glass slide using the Agilent’s SurePrint Tecnology; oligo design was carried out by Agilent and two non overlapping probes were designed for each ESTs cluster. The number of transcripts represented by two probes is 19,664 while 51 targets have only one probe; the total number of target probes in the platform is 39379. more...

Organism:

Sparus aurata

6 Series

1 Related Platform

66 Samples

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(Submitter supplied) Transcription profiling of Brassica rapa, Brassica oleracea and Brassica napus I and II The nuclear genomes of the resynthesised B. napus lines should be identical but, as one (B. napus I) involved a cross of B. oleracea onto B. rapa, and the other (B. napus II) involved a cross of B rapa onto B. oleracea, they differ in cytoplasm, and hence contain different chloroplast and mitochondrial genomes.

Organism:

Brassica napus; Brassica; Brassica oleracea; Brassica rapa

Type:

Expression profiling by array

Platform:

GPL8513

16 Samples

Download data: TXT

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

Organism:

Linum usitatissimum

Type:

Expression profiling by array

Platform:

GPL19181

22 Samples

Download data: TXT

(Submitter supplied) Comparison of whole genome transcriptomics between stem outer tissues from flax lignified bast fiber mutant1 (lbf1) and wild-type

Organism:

Linum usitatissimum

Type:

Expression profiling by array

Platform:

GPL19181

11 Samples

Download data: TXT

(Submitter supplied) Comparison of whole genome transcriptomics between stem inner tissues from flax lignified bast fiber mutant1 (lbf1) and wild-type

Organism:

Linum usitatissimum

Type:

Expression profiling by array

Platform:

GPL19181

11 Samples

Download data: TXT

(Submitter supplied) We used our previously described gene expression platform (Fenart et al., 2010) to assess gene expression along the stem of flax, both in inner and outer tissues.

Organism:

Linum usitatissimum

Type:

Expression profiling by array

Platform:

GPL10419

32 Samples

Download data: CALLS, PAIR

(Submitter supplied) A sea bass oligo microarray platform was used to profile gene expression in whole heads of 38 days-old sea bass affected by prognathism, a skeletal malformation that strongly affects sea bass production. Two different conditions: i) prognathous individuals, and ii) normal individuals were analyzed. For each condition, total RNA was extracted from three (3) independent biological replicates, each consisting of pools of five (5) heads. more...

Organism:

Dicentrarchus labrax

Type:

Expression profiling by array

Platform:

GPL9663

6 Samples

Download data: TXT

(Submitter supplied) A sea bass oligo microarray platform was used to profile gene expression in mandibles of 58 days-old sea bass affected by prognathism, a skeletal malformation that strongly affects sea bass production. Two different conditions: i) protruding jaws, and ii) normal jaws were used for gene expression analysis. For each condition, total RNA was extracted from four (4) independent biological replicates, each consisting of pools of five (5) jaws. more...

Organism:

Dicentrarchus labrax

Type:

Expression profiling by array

Platform:

GPL9663

8 Samples

Download data: TXT

(Submitter supplied) Performances of flax gene expression analyses were compared in two categories of Nimblegen microarrays (short 25-mers oligonucleotides and long 60-mers oligonucleotides) Results obtained in this study are described in Intra-platform comparison of flax (Linum usitatissimum L.) high-density Nimblegen DNA microarrays submitted to Journal of Computational Biology

Organism:

Linum usitatissimum

Type:

Expression profiling by array

Platforms:

GPL15571 GPL15570

12 Samples

Download data: PAIR

(Submitter supplied) Sunflower is an important source of vegetable oil worlwide. A differential organ-specific sunflower ESTs was previously generated by a subtractive hybridization method, including a considerable number of abiotic stress associated sequences. The objective of this work is to analyze the sunflower gene expression of previously identified candidate genes under a comprehensive microarray analysis of the leaf transcriptoma under cold and salinity stresses, considering the impacts of these abiotic stresses on sunflower yield in many productive areas. more...

Organism:

Helianthus annuus

Type:

Expression profiling by array

Platform:

GPL4366

18 Samples

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(Submitter supplied) For decades the tobacco plant has served as a model organism in plant biology to answer fundamental biological questions in the areas of plant development, physiology, and genetics. Due to the lack of sufficient coverage of genomic sequences, however, none of the expressed sequence tag (EST)-based chips developed to date cover gene expression from the whole genome. The availability of Tobacco Genome Initiative (TGI) sequences provides a useful resource to build a whole genome exon array, even if the assembled sequences are highly fragmented. more...

Organism:

Nicotiana tabacum

Type:

Expression profiling by array

Platform:

GPL16290

21 Samples

Download data: CEL

(Submitter supplied) The rice OneArray® 60-mer, oligonucleotide microarray consists of a total of 21,179 probes covering 20,806 genes of japonica and 13,683 genes of indica. Through a validation study, total RNA isolated from rice shoots and roots were used for comparison of gene expression profiles via microarray examination. A list of significantly differentially expressed genes was generated; 438 shoot-specific genes were identified among 3,138 up-regulated genes, and 463 root-specific genes were found among 3,845 down-regulated genes.

Organism:

Oryza sativa Japonica Group; Oryza sativa

Type:

Expression profiling by array

Platform:

GPL13702

10 Samples

Download data: GPR

(Submitter supplied) Alfalfa, [Medicago sativa (L.) sativa], a widely-grown perennial forage has potential for development as a cellulosic ethanol feedstock. The application of genomic approaches would advance development of alfalfa as a cellulosic feedstock. However, the genomics of alfalfa, a non-model species, is still in its infancy. The recent advent of RNA-Seq, a massively parallel sequencing method for transcriptome analysis, provides an opportunity to expand the identification of alfalfa genes and polymorphisms, and conduct in-depth transcript profiling. more...

Organism:

Medicago sativa

Type:

Expression profiling by high throughput sequencing; Genome variation profiling by high throughput sequencing; Other

Platforms:

GPL11627 GPL11643

6 Samples

Download data: FASTA, TXT