GEO DataSets

(Submitter supplied) We examined gene expression profiling of native mussels that were sampled in early summer 2003 from sites of the Venice lagoon area known to be differently affected by chemical pollution: Sites 1 and 2 close to the industrial district of Marghera and Site 3 close to the Lido lagoon outlet. Site 4, a current mussel farm located offshore, has been chosen as source of reference targets for microarray hybridizations. more...

Organism:

Mytilus galloprovincialis

Type:

Expression profiling by array

Platform:

GPL1799

6 Samples

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(Submitter supplied) We examined gene expression profiling of mussels treated with two chemical mixtures composed by heavy metals or organic compounds, both including genotoxic agents (cadmium, benzo[a]pyrene, 1-nitro/amino-pyrene) and other contaminants (cupper, mercury, fluoranthene, TCDD). For digestive gland one RNA sample from control mussels and one from each treatment group (7 mussels) were competitively hybridized on the MytArray 1.0. more...

Organism:

Mytilus galloprovincialis

Type:

Expression profiling by array

Platform:

GPL1799

4 Samples

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(Submitter supplied) We examined tissue specificity of gene expression in control mussels. Total RNA was isolated from gills (G), digestive gland (DG), tissues involved in contraction/motility (FML: foot/adductor muscles/ligaments) and reproduction (GM: gonads and mantle) producing four tissue-specific samples. Total RNA was reverse-transcribed and labeled using a Cy3-dCTP and Cy5-dCTP direct incorporation. Each sample was hybridized in competition with the total pool (equal RNA amounts from G, DG, GM and FML) and the relative abundance of each gene was measured by directly comparing fluorescent signals for each probe. more...

Organism:

Mytilus galloprovincialis

Type:

Expression profiling by array

Platform:

GPL1799

8 Samples

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(Submitter supplied) MytArray 1.0 is a cDNA platform, that consists of 1,712 different clones obtained from systematic sequencing of multiple Mytilus galloprovincialis tissues cDNA library and 46 unrelated controls (ESTs from Coffea and bacterial species) printed in duplicate and twice per slide. This library was produced using a strategy that allows the selection of a short 3’-end region of mRNAs and the tagging of each transcript with an unique probe. more...

Organism:

Mytilus galloprovincialis

6 Series

68 Samples

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(Submitter supplied) A zebra mussel byssus cDNA microarray was used to identify the differentially expressed genes between attachment and detachment. Keywords: Gene differential expression

Organism:

Dreissena polymorpha

Type:

Expression profiling by array

Platform:

GPL6586

4 Samples

Download data: GPR

(Submitter supplied) 716 E.coli clones were selected from thirty-four 96-well plates and re-arranged into eight new 96-well plates. The overnight cultures from the eight 96-well plates were used to prepare the PCR templates. 10 μl of each bacterial culture was taken to mix with 90 μl sterile double distilled water. Then the mixture was incubated at 100 ℃ for 10 minutes followed by 15 minutes 1200g centrifuge. The supernatant was used as PCR templates. more...

Organism:

Dreissena polymorpha

3 Series

62 Samples

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(Submitter supplied) The invasive marine mussel Mytilus galloprovincialis has displaced the native congener Mytilus trossulus from central and southern California, but the native species remains dominant at more northerly sites that have high levels of freshwater input. To determine the extent to which interspecific differences in physiological tolerance to low salinity might explain limits to the invasive species’ biogeography, we used an oligonucleotide microarray to compare the transcriptional responses of these two species to an acute decrease in salinity. more...

Organism:

Mytilus californianus; Mytilus trossulus; Mytilus galloprovincialis

Type:

Expression profiling by array

Platform:

GPL11156

36 Samples

Download data: TXT

(Submitter supplied) Microarrays have been widely used for the analysis of gene expression and several commercial platforms are available. The combined use of multiple platforms can overcome the inherent biases of each approach, and may represent an alternative that is complementary to RT-PCR for identification of the more robust changes in gene expression profiles. In this paper, we combined statistical and functional analysis for the cross platform validation of two oligonucleotide-based technologies, Affymetrix (AFFX) and Applied Biosystems (ABI), and for the identification of differentially expressed genes. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL1426 GPL570

12 Samples

Download data: CEL

(Submitter supplied) This series represents a very deep survey of all transcripts expressed in a wide range of human tissues and cells by Massively Parallel Signature Sequencing (MPSS). These datasets have been generated and donated to the scientific community by Lynx Therapeutics, Inc in Hayward, CA. The data contained in this submission is described in the following publication: 'C. Victor Jongeneel, Mauro Delorenzi, Christian Iseli, Daixing Zhou, Christian D. more...

Organism:

Homo sapiens

Type:

Expression profiling by MPSS

Platform:

GPL1443

32 Samples

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(Submitter supplied) Acute lymphoblastic leukemia (ALL) is an heterogeneous disease comprising several subentities that differ for both immunophenotypic and molecular characteristics. Over the years, the biologic understanding of this neoplasm has largely increased. Gene expression profiling has recently allowed to identify specific signatures for the different ALL subsets and permitted identification of pathways deregulated by a given lesion. more...

Organism:

Homo sapiens

Type:

Expression profiling by array; Non-coding RNA profiling by array

Platforms:

GPL570 GPL8191

39 Samples

Download data: CEL, XLS

(Submitter supplied) We aimed to exemplify early and late transcriptional response of M. galloprovincialis to live Vibrio cells. Hemolymph was collected at 3 and 48 hours after the injection of 10 to 7 cells Vibrio splendidus LGP32 into the posterior adductor muscle. Hemolymph samples were similarly collected from paired control mussels injected with PBS-NaCl. The purified RNAs were successfully amplified, labelled and competitively hybridized to the new mussel oligoarray Immunochip 1.0. more...

Organism:

Mytilus galloprovincialis

Type:

Expression profiling by array

Platform:

GPL10758

8 Samples

Download data: TXT

(Submitter supplied) Immunochip 1.0 includes 1820 spotted oligonucleotides representing putative immune-related transcripts of M. galloprovincialis. The probe ID also indicates the related transcript sequence available at http://mussel.cribi.unipd.it. For instance, MGO_00175 relates to MGC00175 in Mytibase, a dynamic knowledgebase of expressed mussel sequences described in BMC Genomics 2009 Feb 9;10:72. Probes were designed with OligoArray 2.1. more...

Organism:

Mytilus galloprovincialis

1 Series

8 Samples

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(Submitter supplied) A manila clam oligo microarray platform (GPL10900) was used to profile gene expression in digestive gland of R. philippinarum sampled in four seasons in 4 different areas of Venice Lagoon. For each tissue, total RNA was extracted from four (4) independent biological replicates of digestive gland, each consisting of tissue pools of five (5) animals.

Organism:

Ruditapes philippinarum

Type:

Expression profiling by array

Platform:

GPL10900

64 Samples

Download data: TXT

(Submitter supplied) Development of a new low density stress response microarray to evaluate biological effects of contaminants in Mytilus sp: laboratory validation. Background: Despite the increasing use of mussels in environmental monitoring, their genome and gene functions remain weakly explored. Recently several cDNA microarrays were proposed in Mytilussp, however partial putatively identified transcripts are provided rendering very difficult the generation of robust transcriptional responses in term of pathwaysidentification. more...

Organism:

Magallana gigas; Mytilus galloprovincialis; Mytilus californianus; Mytilus edulis

Type:

Expression profiling by array

Platform:

GPL22172

24 Samples

Download data: GPR

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

Organism:

Mytilus galloprovincialis

Type:

Expression profiling by array

Platform:

GPL10269

88 Samples

Download data: TXT

(Submitter supplied) Direct comparison of the transcriptional patterns between male and female in the digestive gland of a natural population of the marine mussel Mytilus galloprovincialis sampled in the Bizerta Lagoon, Tunisia, across November 2007 -February March 2008 (four stages, winter peak). Background: Seasonal environmental changes may affect the physiology of Mytilus galloprovincialis (Lam.), an intertidal filter-feeder bivalve occurring commonly in Mediterranean and Atlantic coastal areas. more...

Organism:

Mytilus galloprovincialis

Type:

Expression profiling by array

Platform:

GPL10269

16 Samples

Download data: TXT

(Submitter supplied) Transcriptional profiling of the mantle tissue across the four stages of male gonads development (winter peak) in a natural population of the marine mussel Mytilus galloprovincialis sampled in the Bizerta Lagoon, Tunisia, across November 2007 -March 2008. Background: Seasonal environmental changes may affect the physiology of Mytilus galloprovincialis (Lam.), an intertidal filter-feeder bivalve occurring commonly in Mediterranean and Atlantic coastal areas. more...

Organism:

Mytilus galloprovincialis

Type:

Expression profiling by array

Platform:

GPL10269

16 Samples

Download data: TXT

(Submitter supplied) Transcriptional profiling of the mantle tissue across the four stages of female gonads development (winter peak) in a natural population of the marine mussel Mytilus galloprovincialis sampled in the Bizerta Lagoon, Tunisia, across November 2007 -March 2008. Background: Seasonal environmental changes may affect the physiology of Mytilus galloprovincialis (Lam.), an intertidal filter-feeder bivalve occurring commonly in Mediterranean and Atlantic coastal areas. more...

Organism:

Mytilus galloprovincialis

Type:

Expression profiling by array

Platform:

GPL10269

16 Samples

Download data: TXT

(Submitter supplied) Transcriptional profiling of natural population of mussels (Mytilus galloprovincialis) -digestive gland tissue- comparing female individuals sampled in the Bizerta Lagoon, Tunisia, across May 2007 - April 2008. Background: Seasonal environmental changes may affect the physiology of Mytilus galloprovincialis (Lam.), an intertidal filter-feeder bivalve occurring commonly in Mediterranean and Atlantic coastal areas. more...

Organism:

Mytilus galloprovincialis

Type:

Expression profiling by array

Platform:

GPL10269

40 Samples

Download data: TXT

(Submitter supplied) The freshwater pearl mussel Margaritifera margaritifera is one of the most threatened freshwater bivalves worldwide. In this study, we aimed (i) to study the processes by which water quality might affect freshwater mussels in situ and (ii) to provide insights into the ecotoxicological significance of water pollution to natural populations in order to provide necessary information to enhance conservation strategies. more...

Organism:

Pinctada margaritifera; Margaritifera margaritifera

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23031

32 Samples

Download data: CSV, FA