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microarray data analysis affymetrix expression console software version 1 4 1 46  (Thermo Fisher)


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    Thermo Fisher microarray data analysis affymetrix expression console software version 1 4 1 46
    Microarray Data Analysis Affymetrix Expression Console Software Version 1 4 1 46, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/expression+microarray+analysis/pm38674030-179-0-3
    Average 86 stars, based on 1 article reviews
    microarray data analysis affymetrix expression console software version 1 4 1 46 - by Bioz Stars, 2026-10
    86/100 stars

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    Related Articles

    other:

    Article Title: Exploration of microRNA Biomarkers in Blood Small Extracellular Vesicles for Enzootic Bovine Leukosis.
    Article Snippet: The obtained data were analyzed and normalized by robust multiarray average and detection above background algorithms (RMA-DABG) using the Expression Console Software version 1.4.1.46 (Affymetrix, Thermo Fisher Scientific).

    Article Title: The Microglial Transcriptome of Age-Associated Deep Subcortical White Matter Lesions Suggests a Neuroprotective Response to Blood–Brain Barrier Dysfunction
    Article Snippet: Affymetrix Expression Console software version 1.4.1.46 (Affymetrix ® , High Wycombe, UK) was employed to quality control the data and principal component analysis (PCA) in Qlucore Omics Explorer software version 3.9 (Qlucore, Lund, Sweden) was used to visually inspect the data and identify sample outliers.

    Article Title: Fear stress promotes glioma progression through inhibition of ferroptosis by enhancing FSP1 stability.
    Article Snippet: Purpose Patients diagnosed with cancer often suffer from emotional stressors, such as anxiety, depression, and fear of death.. However, whether fear stress could influence the glioma progression is still unclear.. Methods Xenograft glioma animal models were established in nude mice.

    Microarray:

    Article Title: The Microglial Transcriptome of Age-Associated Deep Subcortical White Matter Lesions Suggests a Neuroprotective Response to Blood-Brain Barrier Dysfunction.
    Article Snippet: Using the Fluidics Station 400 (Affymetrix®, High Wycombe, UK) and GeneChip Operating System (Affymetrix®, High Wycombe, UK), a series of washing steps followed to remove any unbound DNA, before each microarray was stained and scanned using the GeneChip 3000 scanner (Affymetrix®, High Wycombe, UK). .. Microarray Data Analysis Affymetrix Expression Console software version 1.4.1.46 (Affymetrix®, High Wycombe, UK) was employed to quality control the data and principal component analysis (PCA) in Qlucore Omics Explorer software version 3.9 (Qlucore, Lund, Sweden) was used to visually inspect the data and identify sample outliers. .. Transcriptome Analysis Console (TAC) software version 4.1.1 (Affymetrix®, High Wycombe, UK), was used to analyze and compare the gene expression profile of the 3 groups.

    Expressing:

    Article Title: The Microglial Transcriptome of Age-Associated Deep Subcortical White Matter Lesions Suggests a Neuroprotective Response to Blood-Brain Barrier Dysfunction.
    Article Snippet: Using the Fluidics Station 400 (Affymetrix®, High Wycombe, UK) and GeneChip Operating System (Affymetrix®, High Wycombe, UK), a series of washing steps followed to remove any unbound DNA, before each microarray was stained and scanned using the GeneChip 3000 scanner (Affymetrix®, High Wycombe, UK). .. Microarray Data Analysis Affymetrix Expression Console software version 1.4.1.46 (Affymetrix®, High Wycombe, UK) was employed to quality control the data and principal component analysis (PCA) in Qlucore Omics Explorer software version 3.9 (Qlucore, Lund, Sweden) was used to visually inspect the data and identify sample outliers. .. Transcriptome Analysis Console (TAC) software version 4.1.1 (Affymetrix®, High Wycombe, UK), was used to analyze and compare the gene expression profile of the 3 groups.

    Article Title: Estrogen-Inducible LncRNA BNAT1 Functions as a Modulator for Estrogen Receptor Signaling in Endocrine-Resistant Breast Cancer Cells.
    Article Snippet: Microarray analysis was performed using human Clariom D array (Thermo Fisher Scientific) based on the manufacturer’s instructions. .. Data were analyzed using Affymetrix Expression Console software build 1.4.1.46 (Thermo Fisher Scientific). .. Pathway analyses were performed using Gene Set Enrichment Analysis 3.0 (GSEA) developed by the GSEA/MSigDB Team consisting of members from the Broad Institute (Cambridge, MA, USA) and University of California, San Diego, (CA, USA) [https://www.gsea-msigdb. org/gsea/index.jsp, accessed on 20 November 2017] and the DAVID Functional Annotation Clustering Tool 2021 developed by Laboratory of Human Retrovirology and Immunoinformatics (Frederick National Laboratory for Cancer Research, Frederick, MD, USA) [http://david.abcc.ncifcrf.gov/summary.jsp, accessed on 14 June 2022].

    Article Title: Matrix Gla Protein drives stemness and tumor initiation in ovarian cancer
    Article Snippet: Each pool was labeled and hybridized to Affymetrix® Human Gene 2.1 ST according to the manufacturer instructions (Affymetrix). .. Quality control and normalization of Affymetrix.CEL files using the Robust Multi-array Average (RMA) were performed by Expression Console software (Affymetrix; version: 1.4.1.46). ..

    Article Title: Systems genetics uncover new loci containing functional gene candidates in Mycobacterium tuberculosis -infected Diversity Outbred mice
    Article Snippet: .. The CEL files were also normalized using Expression Console (build 1.4.1.46) and the default probesets defined by Affymetrix to assess array quality using an AUC metric computed from sets of negative and positive control probes; all samples used in this analysis had an AUC > 0.8. ..

    Article Title: Matrix Gla Protein drives stemness and tumor initiation in ovarian cancer.
    Article Snippet: Each pool was labeled and hybridized to Affymetrix® Human Gene 2.1 ST according to the manufacturer instructions (Affymetrix). .. Quality control and normalization of Affymetrix.CEL files using the Robust Multi-array Average (RMA) were performed by Expression Console software (Affymetrix; version: 1.4.1.46). ..

    Software:

    Article Title: The Microglial Transcriptome of Age-Associated Deep Subcortical White Matter Lesions Suggests a Neuroprotective Response to Blood-Brain Barrier Dysfunction.
    Article Snippet: Using the Fluidics Station 400 (Affymetrix®, High Wycombe, UK) and GeneChip Operating System (Affymetrix®, High Wycombe, UK), a series of washing steps followed to remove any unbound DNA, before each microarray was stained and scanned using the GeneChip 3000 scanner (Affymetrix®, High Wycombe, UK). .. Microarray Data Analysis Affymetrix Expression Console software version 1.4.1.46 (Affymetrix®, High Wycombe, UK) was employed to quality control the data and principal component analysis (PCA) in Qlucore Omics Explorer software version 3.9 (Qlucore, Lund, Sweden) was used to visually inspect the data and identify sample outliers. .. Transcriptome Analysis Console (TAC) software version 4.1.1 (Affymetrix®, High Wycombe, UK), was used to analyze and compare the gene expression profile of the 3 groups.

    Article Title: Estrogen-Inducible LncRNA BNAT1 Functions as a Modulator for Estrogen Receptor Signaling in Endocrine-Resistant Breast Cancer Cells.
    Article Snippet: Microarray analysis was performed using human Clariom D array (Thermo Fisher Scientific) based on the manufacturer’s instructions. .. Data were analyzed using Affymetrix Expression Console software build 1.4.1.46 (Thermo Fisher Scientific). .. Pathway analyses were performed using Gene Set Enrichment Analysis 3.0 (GSEA) developed by the GSEA/MSigDB Team consisting of members from the Broad Institute (Cambridge, MA, USA) and University of California, San Diego, (CA, USA) [https://www.gsea-msigdb. org/gsea/index.jsp, accessed on 20 November 2017] and the DAVID Functional Annotation Clustering Tool 2021 developed by Laboratory of Human Retrovirology and Immunoinformatics (Frederick National Laboratory for Cancer Research, Frederick, MD, USA) [http://david.abcc.ncifcrf.gov/summary.jsp, accessed on 14 June 2022].

    Article Title: Matrix Gla Protein drives stemness and tumor initiation in ovarian cancer
    Article Snippet: Each pool was labeled and hybridized to Affymetrix® Human Gene 2.1 ST according to the manufacturer instructions (Affymetrix). .. Quality control and normalization of Affymetrix.CEL files using the Robust Multi-array Average (RMA) were performed by Expression Console software (Affymetrix; version: 1.4.1.46). ..

    Article Title: Matrix Gla Protein drives stemness and tumor initiation in ovarian cancer.
    Article Snippet: Each pool was labeled and hybridized to Affymetrix® Human Gene 2.1 ST according to the manufacturer instructions (Affymetrix). .. Quality control and normalization of Affymetrix.CEL files using the Robust Multi-array Average (RMA) were performed by Expression Console software (Affymetrix; version: 1.4.1.46). ..

    Control:

    Article Title: The Microglial Transcriptome of Age-Associated Deep Subcortical White Matter Lesions Suggests a Neuroprotective Response to Blood-Brain Barrier Dysfunction.
    Article Snippet: Using the Fluidics Station 400 (Affymetrix®, High Wycombe, UK) and GeneChip Operating System (Affymetrix®, High Wycombe, UK), a series of washing steps followed to remove any unbound DNA, before each microarray was stained and scanned using the GeneChip 3000 scanner (Affymetrix®, High Wycombe, UK). .. Microarray Data Analysis Affymetrix Expression Console software version 1.4.1.46 (Affymetrix®, High Wycombe, UK) was employed to quality control the data and principal component analysis (PCA) in Qlucore Omics Explorer software version 3.9 (Qlucore, Lund, Sweden) was used to visually inspect the data and identify sample outliers. .. Transcriptome Analysis Console (TAC) software version 4.1.1 (Affymetrix®, High Wycombe, UK), was used to analyze and compare the gene expression profile of the 3 groups.

    Article Title: Matrix Gla Protein drives stemness and tumor initiation in ovarian cancer
    Article Snippet: Each pool was labeled and hybridized to Affymetrix® Human Gene 2.1 ST according to the manufacturer instructions (Affymetrix). .. Quality control and normalization of Affymetrix.CEL files using the Robust Multi-array Average (RMA) were performed by Expression Console software (Affymetrix; version: 1.4.1.46). ..

    Article Title: Matrix Gla Protein drives stemness and tumor initiation in ovarian cancer.
    Article Snippet: Each pool was labeled and hybridized to Affymetrix® Human Gene 2.1 ST according to the manufacturer instructions (Affymetrix). .. Quality control and normalization of Affymetrix.CEL files using the Robust Multi-array Average (RMA) were performed by Expression Console software (Affymetrix; version: 1.4.1.46). ..

    Positive Control:

    Article Title: Systems genetics uncover new loci containing functional gene candidates in Mycobacterium tuberculosis -infected Diversity Outbred mice
    Article Snippet: .. The CEL files were also normalized using Expression Console (build 1.4.1.46) and the default probesets defined by Affymetrix to assess array quality using an AUC metric computed from sets of negative and positive control probes; all samples used in this analysis had an AUC > 0.8. ..



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    Agilent technologies microarray-based gene expression analysis guide
    NAC61 expression analysis. (A) NAC61 expression behavior in grapevine organs throughout development (bar plot) and compared in the heatmap (logarithmic value) with that of NAC60 and NAC33. The data were retrieved from the atlas transcriptomic dataset of cv. ‘Corvina’ ( Fasoli et al ., 2012 ). Each value represents the mean ±SD of three biological replicates. (B) Correlation between NAC61 expression level and sugar content in grape berries sampled from fruit set to maturity in cv. ‘Cabernet Sauvignon’ and cv. ‘Pinot noir’ ( Fasoli et al ., 2018 ). The black line represents the trend of the averaged values of the two varieties. The R 2 values shown correspond to the fitting of different polynomial regressions to each corresponding group of samples (orange for cv. ‘Cabernet Sauvignon’ samples, blue for cv. ‘Pinot noir’ samples, and black for the entire set of samples). (C) Correlation between NAC61 expression level and sugar content in grape berries sampled during post-harvest dehydration in six different varieties ( Zenoni et al ., 2016 ). (D) Correlation between NAC61 expression level and berry weight loss in cv. ‘Corvina’ berries sampled during traditional long and forced short post-harvest dehydration processes ( Zenoni et al ., 2020 ). Expression values were determined by <t>microarray</t> analysis and each value represents the mean ±SD from three biological replicates. (E) NAC61 GCNs based on berry, leaf, and tissue-independent (TI) datasets. Left, Venn diagram showing exclusive and shared genes based on the three datasets; right, three-dimensional plot of co-expressed genes in which NAC, WRKY, and ZIP family members already described as having involvement in berry ripening and/or stress responses are indicated.
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    Image Search Results


    NAC61 expression analysis. (A) NAC61 expression behavior in grapevine organs throughout development (bar plot) and compared in the heatmap (logarithmic value) with that of NAC60 and NAC33. The data were retrieved from the atlas transcriptomic dataset of cv. ‘Corvina’ ( Fasoli et al ., 2012 ). Each value represents the mean ±SD of three biological replicates. (B) Correlation between NAC61 expression level and sugar content in grape berries sampled from fruit set to maturity in cv. ‘Cabernet Sauvignon’ and cv. ‘Pinot noir’ ( Fasoli et al ., 2018 ). The black line represents the trend of the averaged values of the two varieties. The R 2 values shown correspond to the fitting of different polynomial regressions to each corresponding group of samples (orange for cv. ‘Cabernet Sauvignon’ samples, blue for cv. ‘Pinot noir’ samples, and black for the entire set of samples). (C) Correlation between NAC61 expression level and sugar content in grape berries sampled during post-harvest dehydration in six different varieties ( Zenoni et al ., 2016 ). (D) Correlation between NAC61 expression level and berry weight loss in cv. ‘Corvina’ berries sampled during traditional long and forced short post-harvest dehydration processes ( Zenoni et al ., 2020 ). Expression values were determined by microarray analysis and each value represents the mean ±SD from three biological replicates. (E) NAC61 GCNs based on berry, leaf, and tissue-independent (TI) datasets. Left, Venn diagram showing exclusive and shared genes based on the three datasets; right, three-dimensional plot of co-expressed genes in which NAC, WRKY, and ZIP family members already described as having involvement in berry ripening and/or stress responses are indicated.

    Journal: Journal of Experimental Botany

    Article Title: NAC61 regulates late- and post-ripening osmotic, oxidative, and biotic stress responses in grapevine

    doi: 10.1093/jxb/erad507

    Figure Lengend Snippet: NAC61 expression analysis. (A) NAC61 expression behavior in grapevine organs throughout development (bar plot) and compared in the heatmap (logarithmic value) with that of NAC60 and NAC33. The data were retrieved from the atlas transcriptomic dataset of cv. ‘Corvina’ ( Fasoli et al ., 2012 ). Each value represents the mean ±SD of three biological replicates. (B) Correlation between NAC61 expression level and sugar content in grape berries sampled from fruit set to maturity in cv. ‘Cabernet Sauvignon’ and cv. ‘Pinot noir’ ( Fasoli et al ., 2018 ). The black line represents the trend of the averaged values of the two varieties. The R 2 values shown correspond to the fitting of different polynomial regressions to each corresponding group of samples (orange for cv. ‘Cabernet Sauvignon’ samples, blue for cv. ‘Pinot noir’ samples, and black for the entire set of samples). (C) Correlation between NAC61 expression level and sugar content in grape berries sampled during post-harvest dehydration in six different varieties ( Zenoni et al ., 2016 ). (D) Correlation between NAC61 expression level and berry weight loss in cv. ‘Corvina’ berries sampled during traditional long and forced short post-harvest dehydration processes ( Zenoni et al ., 2020 ). Expression values were determined by microarray analysis and each value represents the mean ±SD from three biological replicates. (E) NAC61 GCNs based on berry, leaf, and tissue-independent (TI) datasets. Left, Venn diagram showing exclusive and shared genes based on the three datasets; right, three-dimensional plot of co-expressed genes in which NAC, WRKY, and ZIP family members already described as having involvement in berry ripening and/or stress responses are indicated.

    Article Snippet: The cDNA synthesis, labelling, hybridization, and washing steps were performed according to the Agilent Microarray-Based Gene Expression Analysis Guide ( https://www.agilent.com/cs/library/usermanuals/Public/G4140-90040_GeneExpression_OneColor_6.9.pdf ).

    Techniques: Expressing, Microarray