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ath1 genechip microarrays  (Thermo Fisher)


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    Thermo Fisher ath1 genechip microarrays
    Ath1 Genechip Microarrays, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/ath1+genechip+microarrays/pmc02147653-170-1-0
    Average 90 stars, based on 1 article reviews
    ath1 genechip microarrays - by Bioz Stars, 2026-10
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    other:

    Article Title: Genomic Survey of Gene Expression Diversity in Arabidopsis thaliana
    Article Snippet: Affymetrix ATH1 GeneChip microarrays representing 22,810 genes were used to survey the transcriptome of seven Arabidopsis thaliana accessions in the presence and absence of exogenously applied salicylic acid (SA).

    Article Title: Comparison of Transcriptional Changes to Chloroplast and Mitochondrial Perturbations Reveals Common and Specific Responses in Arabidopsis
    Article Snippet: In this way 2384 genes were selected and in total 2183 probe sets represented genes in this list on the Affymetrix ATH1 GeneChip microarrays.

    Transgenic Assay:

    Article Title: A Systems Biology Approach Identifies a R2R3 MYB Gene Subfamily with Distinct and Overlapping Functions in Regulation of Aliphatic Glucosinolates
    Article Snippet: .. Affymetrix ATH1 genechip microarrays were used to measure transcript accumulation in wild-type and the two selected transgenic lines for each 35S:MYB transgene. ..

    Purification:

    Article Title: Natural Variation of Transcriptional Auxin Response Networks in Arabidopsis thaliana
    Article Snippet: Microarray Experiments and qRT-PCR Analyses RNA was extracted from the homogenized plant material of whole seedlings (7 d) of seven accessions grown in liquid culture in three biological replicates for each time point (with the exception of only two replicates for the 3-hpi Fei-0 sample) using the Qiagen RNeasy Plant Mini Kit with an on-column DNase treatment. .. Further processing of purified RNA and hybridization to whole genome Affymetrix ATH1 GeneChip microarrays was performed by the Nottingham Arabidopsis Stock Centre’s International Affymetrix Service ( http://affymetrix.arabidopsis.info/ ). ..

    Hybridization:

    Article Title: Natural Variation of Transcriptional Auxin Response Networks in Arabidopsis thaliana
    Article Snippet: Microarray Experiments and qRT-PCR Analyses RNA was extracted from the homogenized plant material of whole seedlings (7 d) of seven accessions grown in liquid culture in three biological replicates for each time point (with the exception of only two replicates for the 3-hpi Fei-0 sample) using the Qiagen RNeasy Plant Mini Kit with an on-column DNase treatment. .. Further processing of purified RNA and hybridization to whole genome Affymetrix ATH1 GeneChip microarrays was performed by the Nottingham Arabidopsis Stock Centre’s International Affymetrix Service ( http://affymetrix.arabidopsis.info/ ). ..

    Expressing:

    Article Title: Genome-Wide Identification of Potential Plant E2F Target Genes
    Article Snippet: .. Therefore, we performed a new transcriptome analysis of plants ectopically expressing E2Fa-DPa using the Affymetrix ATH1 GeneChip microarrays that represent nearly all genes in the Arabidopsis genome. ..

    Article Title: Disruption of glycosylphosphatidylinositol-anchored lipid transfer protein 15 affects seed coat permeability in Arabidopsis.
    Article Snippet: .. In the present study, phylogenetic tree of 34 Arabidopsis LTPG genes was analyzed and their mRNA expression patterns in various Arabidopsis organs and tissues were examined using Affymetrix ATH1 GeneChip microarrays (http://bar.utoronto.ca/, Winter et al., 2007). ..



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    <t>Microarray</t> expression of genes in Arabidopsis Col-0 and Ws-2 plants exposed to As stress. (a) Venn diagram of regulated As-responsive genes extracted by comparing microarray probe sets of the 2 Arabidopsis accessions. The number of overlapping and non-overlapping genes early (1.5 to 3 h) after treatment with 100 or 200 μM As is shown. The probe sets were selected on the basis of an adjusted P-value of <0.05 and a >2-fold change in gene expression. The area of the diagram is proportional to the number of genes that are up- or downregulated in response to As stress. To clearly differentiate As-regulated genes in Col-0 from that in Ws-2, the Col-0-specific set contains only those genes with both >2-fold change in abundance (compared with control treatment) in Col-0 and <1.4-fold change in Ws-2. Likewise, the Ws-2-specific set contains genes with both > 2-fold change in abundance in Ws-2 and < 1.4-fold change in Col-0. The general As-regulated gene set contains genes displaying > 2-fold change in abundance in Col-0 or Ws-2 and >1.4-fold change in another accession. (b) Displayed are genes associated with ubiquitin pathways and abiotic stress responses using MapMan software. Both sets of material were harvested from roots tissues treated with or without As stress (100 and 200 μM for Ws-2 and Col-0, respectively). Red and blue signals represent a decrease and increase in transcript abundance, respectively, relative to water-treated control samples. The scale used for coloration of signals (log 2 ratios) is presented. (c) Validation of representative As-induced genes by semi-quantitative RT-PCR analysis. Total RNA was extracted from root tissues of Arabidopsis plants with different accessions with As treatment. The As-treated roots were harvested at 1 and 3 h. The samples were pooled together. The transcript level of actin served as an equal loading control.
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    Microarray expression of genes in Arabidopsis Col-0 and Ws-2 plants exposed to As stress. (a) Venn diagram of regulated As-responsive genes extracted by comparing microarray probe sets of the 2 Arabidopsis accessions. The number of overlapping and non-overlapping genes early (1.5 to 3 h) after treatment with 100 or 200 μM As is shown. The probe sets were selected on the basis of an adjusted P-value of <0.05 and a >2-fold change in gene expression. The area of the diagram is proportional to the number of genes that are up- or downregulated in response to As stress. To clearly differentiate As-regulated genes in Col-0 from that in Ws-2, the Col-0-specific set contains only those genes with both >2-fold change in abundance (compared with control treatment) in Col-0 and <1.4-fold change in Ws-2. Likewise, the Ws-2-specific set contains genes with both > 2-fold change in abundance in Ws-2 and < 1.4-fold change in Col-0. The general As-regulated gene set contains genes displaying > 2-fold change in abundance in Col-0 or Ws-2 and >1.4-fold change in another accession. (b) Displayed are genes associated with ubiquitin pathways and abiotic stress responses using MapMan software. Both sets of material were harvested from roots tissues treated with or without As stress (100 and 200 μM for Ws-2 and Col-0, respectively). Red and blue signals represent a decrease and increase in transcript abundance, respectively, relative to water-treated control samples. The scale used for coloration of signals (log 2 ratios) is presented. (c) Validation of representative As-induced genes by semi-quantitative RT-PCR analysis. Total RNA was extracted from root tissues of Arabidopsis plants with different accessions with As treatment. The As-treated roots were harvested at 1 and 3 h. The samples were pooled together. The transcript level of actin served as an equal loading control.

    Journal: BMC Plant Biology

    Article Title: Transcriptome profiling of genes and pathways associated with arsenic toxicity and tolerance in Arabidopsis

    doi: 10.1186/1471-2229-14-94

    Figure Lengend Snippet: Microarray expression of genes in Arabidopsis Col-0 and Ws-2 plants exposed to As stress. (a) Venn diagram of regulated As-responsive genes extracted by comparing microarray probe sets of the 2 Arabidopsis accessions. The number of overlapping and non-overlapping genes early (1.5 to 3 h) after treatment with 100 or 200 μM As is shown. The probe sets were selected on the basis of an adjusted P-value of <0.05 and a >2-fold change in gene expression. The area of the diagram is proportional to the number of genes that are up- or downregulated in response to As stress. To clearly differentiate As-regulated genes in Col-0 from that in Ws-2, the Col-0-specific set contains only those genes with both >2-fold change in abundance (compared with control treatment) in Col-0 and <1.4-fold change in Ws-2. Likewise, the Ws-2-specific set contains genes with both > 2-fold change in abundance in Ws-2 and < 1.4-fold change in Col-0. The general As-regulated gene set contains genes displaying > 2-fold change in abundance in Col-0 or Ws-2 and >1.4-fold change in another accession. (b) Displayed are genes associated with ubiquitin pathways and abiotic stress responses using MapMan software. Both sets of material were harvested from roots tissues treated with or without As stress (100 and 200 μM for Ws-2 and Col-0, respectively). Red and blue signals represent a decrease and increase in transcript abundance, respectively, relative to water-treated control samples. The scale used for coloration of signals (log 2 ratios) is presented. (c) Validation of representative As-induced genes by semi-quantitative RT-PCR analysis. Total RNA was extracted from root tissues of Arabidopsis plants with different accessions with As treatment. The As-treated roots were harvested at 1 and 3 h. The samples were pooled together. The transcript level of actin served as an equal loading control.

    Article Snippet: Microarray analysis involved Affymetrix microarrays (GeneChip Arabidopsis ATH1 genome array) containing 22,810 probe sets on a single chip.

    Techniques: Microarray, Expressing, Software, Quantitative RT-PCR