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    Results: 20

    1.
    Full record GDS2910

    Interspecies variations in response to environmental stresses: time course

    Analysis of four closely related yeast species subjected to various durations of one of several environmental stresses. Results provide insight into the mechanisms driving the evolution of gene expression.
    Organism:
    Saccharomyces cerevisiae; Saccharomyces paradoxus; Saccharomyces kudriavzevii; Saccharomyces mikatae
    Type:
    Expression profiling by array, log2 ratio, 4 species, 2 strain, 5 stress, 10 time sets
    Platform:
    GPL2910
    Series:
    GSE3406
    191 Samples
    Download data:
    GEO
    DataSet
    Accession:
    GDS2910
    ID:
    2910
    2.

    Expression patterns in stress conditions of 4 closely related yeast species from the Saccharomyces sensu stricto complex

    (Submitter supplied) We characterize the genome-wide transcription response of four related yeast species and two strains to equivalent environmental stresses. Keywords: Comparative analysis of gene expression across species.
    Organism:
    Saccharomyces cerevisiae; Saccharomyces kudriavzevii; Saccharomyces mikatae; Saccharomyces paradoxus
    Type:
    Expression profiling by array
    Dataset:
    GDS2910
    Platform:
    GPL2910
    191 Samples
    Download data:
    GEO
    Series
    Accession:
    GSE3406
    ID:
    200003406
    3.

    Comparative analysis of gene expression in two yeast species and their interspecific hybrid

    (Submitter supplied) We compared the genome-wide expression profiles of two yeast species (S. cerevisiae and S. paradoxus) using a two-species microarray that contain species-specific probes and can thus measure the expression levels of the two species simultaneosly. In Addition, we used the array to measure expression levels of the interspecific hybrid of these yeast species, while discriminating between the alleles that correspond to the two parental species. more...
    Organism:
    Saccharomyces paradoxus; Saccharomyces cerevisiae x Saccharomyces paradoxus; Saccharomyces cerevisiae
    Type:
    Expression profiling by array
    Platform:
    GPL8157
    20 Samples
    Download data:
    GEO (ZIP)
    Series
    Accession:
    GSE14708
    ID:
    200014708
    4.

    Mutation accumulation and the yeast transcriptome

    (Submitter supplied) Spontaneous mutations were accumulated in haploid strains of yeast. Expression profiling was performed on four MA lines and the ancestor in a complete loop design. Keywords: Gene expression profiling
    Organism:
    Saccharomyces cerevisiae
    Type:
    Expression profiling by array
    Platform:
    GPL5092
    10 Samples
    Download data:
    GEO
    Series
    Accession:
    GSE7537
    ID:
    200007537
    5.

    Divergence of Transcription Factor Binding Sites in Related Yeast Species

    (Submitter supplied) A fundamental problem in biology is the molecular basis for divergence among related organisms. We have investigated the level of divergence of transcription factor binding sites for two key factors that regulate developmental processes in the budding yeasts. The genomic binding locations for the Ste12 and Tec1 transcription factors in S. cerevisiae, S. mikatae and S. bayanus were mapped by chromatin immunoprecipitation combined with microarrays (chIP chip)1, 2 and compared to one another. more...
    Organism:
    Saccharomyces cerevisiae; Saccharomyces bayanus; Candida albicans; Saccharomyces mikatae
    Type:
    Genome binding/occupancy profiling by genome tiling array
    4 related Platforms
    27 Samples
    Download data:
    GEO
    Series
    Accession:
    GSE5421
    ID:
    200005421
    6.

    Expression data for whole adult tissue; Drosophila males of seven species

    (Submitter supplied) Co-expression of genes that physically cluster together is a common characteristic of eukaryotic transcriptomes. Identifying these groups of co-expressed genes is important to the functional annotation of genomes and understanding the evolutionary fates of the clustered genes. We used microarrays to measure gene expression in seven closely related Drosophila species, to identify domains clusters within a species of Drosophila (D. more...
    Organism:
    Drosophila sechellia; Drosophila teissieri; Drosophila melanogaster; Drosophila mauritiana; Drosophila simulans; Drosophila yakuba; Drosophila santomea
    Type:
    Expression profiling by array
    Platform:
    GPL72
    48 Samples
    Download data:
    GEO (CEL)
    Series
    Accession:
    GSE7873
    ID:
    200007873
    7.

    Significant and Systematic Expression Differentiation in Long-Lived Yeast Strains

    (Submitter supplied) The three yeast mutants sch9Δ, ras2Δ, tor1Δ show extended chronological life span up to three folds. This study aims to dissect the mechanisms that lead to the yeast life span extension. Keywords: Expression comparison between wild type and long-lived yeast mutant strain
    Organism:
    Schizosaccharomyces pombe; Saccharomyces cerevisiae
    Type:
    Expression profiling by array
    Platform:
    GPL2529
    12 Samples
    Download data:
    GEO (CEL)
    Series
    Accession:
    GSE13420
    ID:
    200013420
    8.

    Expression data from mouse SCN after 30-min light pulse

    (Submitter supplied) The transmission of information about the photic environment to the circadian clock involves a complex array of neurotransmitters, receptors, and second messenger systems. Using laser capture microscopy and microarray analysis, a population of genes rapidly induced by light in the suprachiasmatic nucleus is identified. Keywords: comparative expression analysis
    Organism:
    Mus musculus
    Type:
    Expression profiling by array
    Dataset:
    GDS3107
    Platform:
    GPL8321
    6 Samples
    Download data:
    GEO (CEL)
    Series
    Accession:
    GSE6904
    ID:
    200006904
    9.
    Full record GDS3107

    Suprachiasmatic nucleus response to a light pulse

    Analysis of suprachiasmatic nuclei (SCNs) of animals exposed to a 30 minute light pulse 1 hour after lights off. Circadian rhythms in mammals are driven by a clock located in the SCN. Results provide insight into the molecular events governing the response of the SCN to photic input.
    Organism:
    Mus musculus
    Type:
    Expression profiling by array, count, 2 protocol sets
    Platform:
    GPL8321
    Series:
    GSE6904
    6 Samples
    Download data:
    GEO (CEL)
    10.

    Evolution of Translation Regulation in budding Yeast

    (Submitter supplied) Comparison of translation efficiency in S. cerevisiae, S. paradoxus, and their F1 hybrid.
    Organism:
    Saccharomyces cerevisiae; Saccharomyces paradoxus; Saccharomyces cerevisiae x Saccharomyces paradoxus
    Type:
    Expression profiling by high throughput sequencing; Other
    Platforms:
    GPL17601 GPL17602 GPL13821
    12 Samples
    Download data:
    GEO (BED, BEDGRAPH, TXT), SRA SRP028552
    Series
    Accession:
    GSE52119
    ID:
    200052119
    11.

    [E-MTAB-5] Dynamic repertoire of a eukaryotic transcriptome surveyed at single nucleotide resolution

    (Submitter supplied) Recent data from several organisms indicate that the transcribed portions of genomes are larger and more complex than expected, and many functional properties of transcripts are not based on coding sequences but on regulatory sequences in untranslated regions or non-coding RNAs. Alternative start and polyadenylation sites and regulation of intron splicing add additional dimensions to the rich transcriptional output. more...
    Organism:
    Schizosaccharomyces pombe
    Type:
    Expression profiling by high throughput sequencing
    Platform:
    GPL9854
    31 Samples
    Download data:
    GEO (TXT)
    Series
    Accession:
    GSE25003
    ID:
    200025003
    12.

    cis sequence effects on gene expression

    (Submitter supplied) Sequence and transcriptional variability within and between individuals are typically studied independently. The joint analysis of sequence and gene expression variation provides insight into biological mechanisms that underlie gene regulation and function. We investigated the role of sequence variation in cis on gene expression (cis sequence effects) in a group of genes frequently studied in cancer research. more...
    Organism:
    Homo sapiens
    Type:
    Expression profiling by array
    Platform:
    GPL5089
    30 Samples
    Download data:
    GEO (CSV)
    Series
    Accession:
    GSE8394
    ID:
    200008394
    13.

    Integrative Genome-wide Analysis of Glioblastoma.

    (Submitter supplied) Glioblastoma multiforme shows multiple chromosomal aberrations, the impact of which on gene expression remains unclear. To investigate this relationship and to identify putative initiating genomic events, we integrated a paired copy number and gene expression survey in glioblastoma using whole human genome arrays. Loci of recurrent copy number alterations were combined with gene expression profiles obtained on the same tumor samples. more...
    Organism:
    Homo sapiens
    Type:
    Genome variation profiling by genome tiling array; Expression profiling by genome tiling array
    Platforms:
    GPL6480 GPL2879
    60 Samples
    Download data:
    GEO (TXT)
    Series
    Accession:
    GSE10878
    ID:
    200010878
    14.

    Gene expression quantitative trait loci (eQTL) study using the HB3×Dd2 genetic cross progeny of P. falciparum

    (Submitter supplied) The determinants of transcriptional regulation in malaria parasites remain elusive. The presence of a well-characterized gene expression cascade shared by different Plasmodium falciparum strains could imply that transcriptional regulation and its natural variation do not contribute significantly to the evolution of parasite drug resistance. To clarify the role of transcriptional variation as a source of stain-specific diversity in the most deadly malaria species and to find genetic loci that dictate variations in gene expression, we examined genome-wide expression level polymorphisms (ELPs) in a genetic cross between phenotypically distinct parasite clones. more...
    Organism:
    Plasmodium falciparum
    Type:
    Expression profiling by array
    Platform:
    GPL7189
    36 Samples
    Download data:
    GEO (GPR)
    Series
    Accession:
    GSE12515
    ID:
    200012515
    15.

    University of Washington - Rathod Lab - Plasmodium falciparum - 7665 - v1.0

    (Submitter supplied) Microarrays contained 7665 70mer oligonucleotide probes representing 5150 Plasmodium falciparum ORFs kindly provided by Dr. Joseph DeRisi (University of California, San Francisco; San Francisco, California). The majority of the oligonucleotides for printing the array corresponded to the Qiagen Operon set (Operon Biotechnologies, Inc.; Huntsville, Alabama), but some additional sequences matched ORFs in the original P. more...
    Organism:
    Plasmodium falciparum
    1 Series
    36 Samples
    Download data:
    GEO
    Platform
    Accession:
    GPL7189
    ID:
    100007189
    16.

    Cross species comparison of expression patterns

    (Submitter supplied) Comparison of expression in liver samples of human, chimp, orang and rhesus, by using a novel multi-species cDNA array Keywords: other
    Organism:
    Macaca mulatta; Homo sapiens; Pan troglodytes; Pongo pygmaeus
    Type:
    Expression profiling by array
    Platform:
    GPL1714
    16 Samples
    Download data:
    GEO
    Series
    Accession:
    GSE2009
    ID:
    200002009
    17.

    Mating response of three yeast species (S. cerevisiae, S. paradoxus and S. mikatae)

    (Submitter supplied) We examined the mating response of three yeast species, by subjecting a-type cells from each of them to alpha-factor (6uM). The expression of cells before and after (60min) addition of alpha-factor were compared using S. cerevisiae cDNA microarrays. In addition, we verified our results with a true mating experiment: the expression of a-type and alpha-type cells from S. cerevisiae were compared before and after mixing them for 90 minutes (i.e. more...
    Organism:
    Saccharomyces cerevisiae; Saccharomyces mikatae; Saccharomyces paradoxus
    Type:
    Expression profiling by array
    Platform:
    GPL4567
    13 Samples
    Download data:
    GEO (SRR)
    Series
    Accession:
    GSE7525
    ID:
    200007525
    18.

    Evolution at two regulatory levels in yeast

    (Submitter supplied) Ribosome profiling performed on interspecific hybrids of Sacharromyces cerevisiae and S. paradoxus in order to identify allele-specific expression indicative of cis-regulatory divergence at the level of mRNA abundance and protein translation.
    Organism:
    Saccharomyces cerevisiae; Saccharomyces cerevisiae x Saccharomyces paradoxus; Saccharomyces paradoxus
    Type:
    Expression profiling by high throughput sequencing
    Platforms:
    GPL17601 GPL13821 GPL17602
    10 Samples
    Download data:
    GEO (TXT, XLSX), SRA SRP028614
    Series
    Accession:
    GSE50049
    ID:
    200050049
    19.

    Expression evolution in gene groups: Inferring non-neutral regulatory change in pathways from transcriptional profiling data

    (Submitter supplied) We profiled the transcriptomes of four Saccharomyces species, as well as pairwise hybrids between three of the species with S. cerevisiae
    Organism:
    Saccharomyces paradoxus; Saccharomyces cerevisiae x Saccharomyces paradoxus; Saccharomyces mikatae; Saccharomyces cerevisiae x Saccharomyces bayanus; Saccharomyces bayanus; Saccharomyces cerevisiae; Saccharomyces cerevisiae x Saccharomyces mikatae
    Type:
    Expression profiling by high throughput sequencing
    7 related Platforms
    18 Samples
    Download data:
    GEO (TXT), SRA SRP013862
    Series
    Accession:
    GSE38875
    ID:
    200038875
    20.

    Cross species differential gene expression

    (Submitter supplied) AB SOLID sequencing of ribosome-depleted RNA from S. Cerevisiae, S. Paradoxus, S. Mikatae, and S. Bayanus These four yeast species were grown in complete media and total RNA was sequenced.
    Organism:
    Saccharomyces mikatae IFO 1815; Saccharomyces cerevisiae S288c; Saccharomyces paradoxus NRRL Y-17217; Saccharomyces uvarum MCYC 623
    Type:
    Expression profiling by high throughput sequencing
    4 related Platforms
    8 Samples
    Download data:
    GEO (XLS), SRA SRP008736
    Series
    Accession:
    GSE32679
    ID:
    200032679

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