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two-color gene expression microarray platform  (Agilent technologies)


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    Structured Review

    Agilent technologies two-color gene expression microarray platform
    Eight fragments of Stylophora pistillata were incubated in calcium seawater (SW) concentrations of seawater plus 100 mg/L calcium (SW + 100) and plus 200 mg/L calcium (SW + 200) during daytime (11:00) and during night-time (23:00). In each sampling time, four replicates were analyzed for calcification rates and four replicates from SW and SW+100 treatments, for <t>microarray</t> analysis.
    Two Color Gene Expression Microarray Platform, supplied by Agilent technologies, 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/two-color+microarray+platform/pmc05522607-99-13-12
    Average 90 stars, based on 1 article reviews
    two-color gene expression microarray platform - by Bioz Stars, 2026-09
    90/100 stars

    Images

    1) Product Images from "Identifying genes and regulatory pathways associated with the scleractinian coral calcification process"

    Article Title: Identifying genes and regulatory pathways associated with the scleractinian coral calcification process

    Journal: PeerJ

    doi: 10.7717/peerj.3590

    Eight fragments of Stylophora pistillata were incubated in calcium seawater (SW) concentrations of seawater plus 100 mg/L calcium (SW + 100) and plus 200 mg/L calcium (SW + 200) during daytime (11:00) and during night-time (23:00). In each sampling time, four replicates were analyzed for calcification rates and four replicates from SW and SW+100 treatments, for microarray analysis.
    Figure Legend Snippet: Eight fragments of Stylophora pistillata were incubated in calcium seawater (SW) concentrations of seawater plus 100 mg/L calcium (SW + 100) and plus 200 mg/L calcium (SW + 200) during daytime (11:00) and during night-time (23:00). In each sampling time, four replicates were analyzed for calcification rates and four replicates from SW and SW+100 treatments, for microarray analysis.

    Techniques Used: Incubation, Sampling, Microarray

    Related Articles

    Incubation:

    Article Title: Dynamics of Membrane Potential Variation and Gene Expression Induced by Spodoptera littoralis , Myzus persicae , and Pseudomonas syringae in Arabidopsis
    Article Snippet: Then, 825 ng of control Cy3-RNAs and 825 ng of treated Cy5-RNAs were pooled together and hybridized using the Gene Expression Hybridization Kit (Agilent Technologies) onto 4×44 K Arabidopsis (v3) Oligo Microarray (Agilent Technologies), satisfying Minimum Information About a Microarray Experiment (MIAME) requirements . .. After a 17 h incubation at 65°C and 10 rpm, microarrays were first washed with Gene Expression Wash buffer 1 for 1 min, then with Gene Expression Wash buffer 2 for 1 min, then with 100% acetonitrile for 30 s, and finally washed in the Stabilization and Drying Solution for 30 s. Microarrays were scanned with the Agilent Microarray G2505B Scanner (with the extended dynamic range (XDR) scan mode to scan the same slide at two different levels and data were extracted and normalized from the resulting images using Agilent Feature Extraction (FE) software (v.9.5.1) Agilent Arabidopsis (v3) Gene Expression Microarray (44 K) was used for expression profiling treatments. ..

    Gene Expression:

    Article Title: Dynamics of Membrane Potential Variation and Gene Expression Induced by Spodoptera littoralis , Myzus persicae , and Pseudomonas syringae in Arabidopsis
    Article Snippet: Then, 825 ng of control Cy3-RNAs and 825 ng of treated Cy5-RNAs were pooled together and hybridized using the Gene Expression Hybridization Kit (Agilent Technologies) onto 4×44 K Arabidopsis (v3) Oligo Microarray (Agilent Technologies), satisfying Minimum Information About a Microarray Experiment (MIAME) requirements . .. After a 17 h incubation at 65°C and 10 rpm, microarrays were first washed with Gene Expression Wash buffer 1 for 1 min, then with Gene Expression Wash buffer 2 for 1 min, then with 100% acetonitrile for 30 s, and finally washed in the Stabilization and Drying Solution for 30 s. Microarrays were scanned with the Agilent Microarray G2505B Scanner (with the extended dynamic range (XDR) scan mode to scan the same slide at two different levels and data were extracted and normalized from the resulting images using Agilent Feature Extraction (FE) software (v.9.5.1) Agilent Arabidopsis (v3) Gene Expression Microarray (44 K) was used for expression profiling treatments. ..

    Article Title: Oct4 Gene Expression in Primary Colorectal Cancer Promotes Liver Metastasis
    Article Snippet: Oct4-EGFP-high cells and Oct4-EGFP-negative cells were sorted using an SH800 cell sorter (SONY), and total RNA was prepared using an RNA Purification Kit (Qiagen). .. A gene expression microarray (Agilent, Santa Clara, CA, USA) was also constructed (see Supplementary Materials). .. Gene set enrichment analysis (GSEA) was performed with GSEA 3.0 software (Broad Institute, Cambridge, Massachusetts, USA) to compare expression profiles of Oct4-EGFP-high cells with Oct4-EGFP-negative cells.

    Article Title: Inflammatory priming with IL-1β promotes the immunomodulatory behavior of adipose derived stem cells
    Article Snippet: Agilent RNA ScreenTape System (Agilent Technologies, Santa Clara, CA, United States) was used to evaluate the RNA integrity ( ). .. A huge panel of genes of interest (maximum 3,000 genes, including at least five replicates for each gene) was selected and analyzed through a custom gene expression microarray designed through Agilent Technologies ( https://earray.chem.agilent.com/earray/ , date of access 12 February 2018) ( ; ; ). ..

    Article Title: Gene Expression Analysis of Alfalfa Seedlings Response to Acid-Aluminum
    Article Snippet: .. Global gene expression analysis using the Agilent gene expression microarray revealed the expression of 3926 genes that were changed by acid and Al ions, in which 66.33% can be detected in root including those specifically expressing in root which accounted for 29.98% of all the genes. ..

    Article Title: Integrative genetic and genomic networks identify microRNA associated with COPD and ILD
    Article Snippet: .. We utilized a subset of 262 lung tissue samples with miRNA expression profiled by sequencing, as well as an Agilent gene expression microarray and Affymetrix SNP chip. ..

    Article Title: Lymphatic endothelial sphingosine 1-phosphate receptor 1 enhances macrophage clearance via lymphatic system following myocardial infarction
    Article Snippet: Data were recorded with an LSR II flow cytometer (BD Biosciences) and analyzed with FlowJo (Version 9.0). .. Total RNA from hearts or LECs was extracted by Trizol (Invitrogen) following the manufacturer’s instructions and used for RT-PCR (the primer list was listed in ) or high-throughput Gene Expression microarray (Agilent Technology). .. RNA quantity and quality were measured by NanoDrop ND-1000.

    Article Title: Gene Expression Analysis of Alfalfa Seedlings Response to Acid-Aluminum
    Article Snippet: .. Twelve genes encoding peroxidase (GO:0004601) could eliminate ROS production, leading to the plant morphological changes induced by Al. A total of 20 genes encoding transporters were found in our Agilent gene expression microarray analysis, in which 8 genes encoded ABC transporters. ..

    Article Title: Commensal Microbiota Contributes to Chronic Endocarditis in TAX1BP1 Deficient Mice
    Article Snippet: .. Then, global mRNA expression profiles were analyzed by an Agilent gene expression microarray. ..

    Microarray:

    Article Title: Dynamics of Membrane Potential Variation and Gene Expression Induced by Spodoptera littoralis , Myzus persicae , and Pseudomonas syringae in Arabidopsis
    Article Snippet: Then, 825 ng of control Cy3-RNAs and 825 ng of treated Cy5-RNAs were pooled together and hybridized using the Gene Expression Hybridization Kit (Agilent Technologies) onto 4×44 K Arabidopsis (v3) Oligo Microarray (Agilent Technologies), satisfying Minimum Information About a Microarray Experiment (MIAME) requirements . .. After a 17 h incubation at 65°C and 10 rpm, microarrays were first washed with Gene Expression Wash buffer 1 for 1 min, then with Gene Expression Wash buffer 2 for 1 min, then with 100% acetonitrile for 30 s, and finally washed in the Stabilization and Drying Solution for 30 s. Microarrays were scanned with the Agilent Microarray G2505B Scanner (with the extended dynamic range (XDR) scan mode to scan the same slide at two different levels and data were extracted and normalized from the resulting images using Agilent Feature Extraction (FE) software (v.9.5.1) Agilent Arabidopsis (v3) Gene Expression Microarray (44 K) was used for expression profiling treatments. ..

    Article Title: Oct4 Gene Expression in Primary Colorectal Cancer Promotes Liver Metastasis
    Article Snippet: Oct4-EGFP-high cells and Oct4-EGFP-negative cells were sorted using an SH800 cell sorter (SONY), and total RNA was prepared using an RNA Purification Kit (Qiagen). .. A gene expression microarray (Agilent, Santa Clara, CA, USA) was also constructed (see Supplementary Materials). .. Gene set enrichment analysis (GSEA) was performed with GSEA 3.0 software (Broad Institute, Cambridge, Massachusetts, USA) to compare expression profiles of Oct4-EGFP-high cells with Oct4-EGFP-negative cells.

    Article Title: Inflammatory priming with IL-1β promotes the immunomodulatory behavior of adipose derived stem cells
    Article Snippet: Agilent RNA ScreenTape System (Agilent Technologies, Santa Clara, CA, United States) was used to evaluate the RNA integrity ( ). .. A huge panel of genes of interest (maximum 3,000 genes, including at least five replicates for each gene) was selected and analyzed through a custom gene expression microarray designed through Agilent Technologies ( https://earray.chem.agilent.com/earray/ , date of access 12 February 2018) ( ; ; ). ..

    Article Title: Gene Expression Analysis of Alfalfa Seedlings Response to Acid-Aluminum
    Article Snippet: .. Global gene expression analysis using the Agilent gene expression microarray revealed the expression of 3926 genes that were changed by acid and Al ions, in which 66.33% can be detected in root including those specifically expressing in root which accounted for 29.98% of all the genes. ..

    Article Title: Integrative genetic and genomic networks identify microRNA associated with COPD and ILD
    Article Snippet: .. We utilized a subset of 262 lung tissue samples with miRNA expression profiled by sequencing, as well as an Agilent gene expression microarray and Affymetrix SNP chip. ..

    Article Title: Lymphatic endothelial sphingosine 1-phosphate receptor 1 enhances macrophage clearance via lymphatic system following myocardial infarction
    Article Snippet: Data were recorded with an LSR II flow cytometer (BD Biosciences) and analyzed with FlowJo (Version 9.0). .. Total RNA from hearts or LECs was extracted by Trizol (Invitrogen) following the manufacturer’s instructions and used for RT-PCR (the primer list was listed in ) or high-throughput Gene Expression microarray (Agilent Technology). .. RNA quantity and quality were measured by NanoDrop ND-1000.

    Article Title: Gene Expression Analysis of Alfalfa Seedlings Response to Acid-Aluminum
    Article Snippet: .. Twelve genes encoding peroxidase (GO:0004601) could eliminate ROS production, leading to the plant morphological changes induced by Al. A total of 20 genes encoding transporters were found in our Agilent gene expression microarray analysis, in which 8 genes encoded ABC transporters. ..

    Article Title: Commensal Microbiota Contributes to Chronic Endocarditis in TAX1BP1 Deficient Mice
    Article Snippet: .. Then, global mRNA expression profiles were analyzed by an Agilent gene expression microarray. ..

    Extraction:

    Article Title: Dynamics of Membrane Potential Variation and Gene Expression Induced by Spodoptera littoralis , Myzus persicae , and Pseudomonas syringae in Arabidopsis
    Article Snippet: Then, 825 ng of control Cy3-RNAs and 825 ng of treated Cy5-RNAs were pooled together and hybridized using the Gene Expression Hybridization Kit (Agilent Technologies) onto 4×44 K Arabidopsis (v3) Oligo Microarray (Agilent Technologies), satisfying Minimum Information About a Microarray Experiment (MIAME) requirements . .. After a 17 h incubation at 65°C and 10 rpm, microarrays were first washed with Gene Expression Wash buffer 1 for 1 min, then with Gene Expression Wash buffer 2 for 1 min, then with 100% acetonitrile for 30 s, and finally washed in the Stabilization and Drying Solution for 30 s. Microarrays were scanned with the Agilent Microarray G2505B Scanner (with the extended dynamic range (XDR) scan mode to scan the same slide at two different levels and data were extracted and normalized from the resulting images using Agilent Feature Extraction (FE) software (v.9.5.1) Agilent Arabidopsis (v3) Gene Expression Microarray (44 K) was used for expression profiling treatments. ..

    Software:

    Article Title: Dynamics of Membrane Potential Variation and Gene Expression Induced by Spodoptera littoralis , Myzus persicae , and Pseudomonas syringae in Arabidopsis
    Article Snippet: Then, 825 ng of control Cy3-RNAs and 825 ng of treated Cy5-RNAs were pooled together and hybridized using the Gene Expression Hybridization Kit (Agilent Technologies) onto 4×44 K Arabidopsis (v3) Oligo Microarray (Agilent Technologies), satisfying Minimum Information About a Microarray Experiment (MIAME) requirements . .. After a 17 h incubation at 65°C and 10 rpm, microarrays were first washed with Gene Expression Wash buffer 1 for 1 min, then with Gene Expression Wash buffer 2 for 1 min, then with 100% acetonitrile for 30 s, and finally washed in the Stabilization and Drying Solution for 30 s. Microarrays were scanned with the Agilent Microarray G2505B Scanner (with the extended dynamic range (XDR) scan mode to scan the same slide at two different levels and data were extracted and normalized from the resulting images using Agilent Feature Extraction (FE) software (v.9.5.1) Agilent Arabidopsis (v3) Gene Expression Microarray (44 K) was used for expression profiling treatments. ..

    Expressing:

    Article Title: Dynamics of Membrane Potential Variation and Gene Expression Induced by Spodoptera littoralis , Myzus persicae , and Pseudomonas syringae in Arabidopsis
    Article Snippet: Then, 825 ng of control Cy3-RNAs and 825 ng of treated Cy5-RNAs were pooled together and hybridized using the Gene Expression Hybridization Kit (Agilent Technologies) onto 4×44 K Arabidopsis (v3) Oligo Microarray (Agilent Technologies), satisfying Minimum Information About a Microarray Experiment (MIAME) requirements . .. After a 17 h incubation at 65°C and 10 rpm, microarrays were first washed with Gene Expression Wash buffer 1 for 1 min, then with Gene Expression Wash buffer 2 for 1 min, then with 100% acetonitrile for 30 s, and finally washed in the Stabilization and Drying Solution for 30 s. Microarrays were scanned with the Agilent Microarray G2505B Scanner (with the extended dynamic range (XDR) scan mode to scan the same slide at two different levels and data were extracted and normalized from the resulting images using Agilent Feature Extraction (FE) software (v.9.5.1) Agilent Arabidopsis (v3) Gene Expression Microarray (44 K) was used for expression profiling treatments. ..

    Article Title: Gene Expression Analysis of Alfalfa Seedlings Response to Acid-Aluminum
    Article Snippet: .. Global gene expression analysis using the Agilent gene expression microarray revealed the expression of 3926 genes that were changed by acid and Al ions, in which 66.33% can be detected in root including those specifically expressing in root which accounted for 29.98% of all the genes. ..

    Article Title: Integrative genetic and genomic networks identify microRNA associated with COPD and ILD
    Article Snippet: .. We utilized a subset of 262 lung tissue samples with miRNA expression profiled by sequencing, as well as an Agilent gene expression microarray and Affymetrix SNP chip. ..

    Article Title: Commensal Microbiota Contributes to Chronic Endocarditis in TAX1BP1 Deficient Mice
    Article Snippet: .. Then, global mRNA expression profiles were analyzed by an Agilent gene expression microarray. ..

    Construct:

    Article Title: Oct4 Gene Expression in Primary Colorectal Cancer Promotes Liver Metastasis
    Article Snippet: Oct4-EGFP-high cells and Oct4-EGFP-negative cells were sorted using an SH800 cell sorter (SONY), and total RNA was prepared using an RNA Purification Kit (Qiagen). .. A gene expression microarray (Agilent, Santa Clara, CA, USA) was also constructed (see Supplementary Materials). .. Gene set enrichment analysis (GSEA) was performed with GSEA 3.0 software (Broad Institute, Cambridge, Massachusetts, USA) to compare expression profiles of Oct4-EGFP-high cells with Oct4-EGFP-negative cells.

    Sequencing:

    Article Title: Integrative genetic and genomic networks identify microRNA associated with COPD and ILD
    Article Snippet: .. We utilized a subset of 262 lung tissue samples with miRNA expression profiled by sequencing, as well as an Agilent gene expression microarray and Affymetrix SNP chip. ..

    Reverse Transcription Polymerase Chain Reaction:

    Article Title: Lymphatic endothelial sphingosine 1-phosphate receptor 1 enhances macrophage clearance via lymphatic system following myocardial infarction
    Article Snippet: Data were recorded with an LSR II flow cytometer (BD Biosciences) and analyzed with FlowJo (Version 9.0). .. Total RNA from hearts or LECs was extracted by Trizol (Invitrogen) following the manufacturer’s instructions and used for RT-PCR (the primer list was listed in ) or high-throughput Gene Expression microarray (Agilent Technology). .. RNA quantity and quality were measured by NanoDrop ND-1000.



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    Three groups of three mice received binocular HOKS for 24 h in the P→A direction with respect to the right eye. Total RNA was extracted from the left and right flocculi of each mouse and combined for each group. The RNA from each group was analyzed on a miRNA <t>microarray,</t> and subsequently combined for analysis. A. Each data point in the Volcano plot represents four variables: 1) The fold change for each miRNA is represented on abscissa (right floc./left floc), 2) Statistical probability transcription difference (p-value) of a miRNA between the left and right flocculi is represented on left ordinate, 3) Average copy number (color coded) is represented on right ordinate and 4) Frequency of occurrence a miRNA relative to all other sampled miRNAs is represented as data point diameter. B. Twelve miRNAs were screened using three criteria: 1) A fold change >2, 2) A p-value <0.005, and 3) An average copy number >256. Error bars indicate standard error of the mean. Histogram color indicates copy number according to the right ordinate in A.
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    Image Search Results


    The scatter-plots show RT-PCR quantification cycle (C q ) values and log 2 -transformed microarray signal values for microRNAs let-7e , miR-22 , miR-30a-5p , miR-185 , miR-210 , and miR-423-5p (n = 11). Pearson correlation coefficients (r) and their 95% confidence intervals and associated P values, and best fitting (least squares) lines are also shown.

    Journal: PLoS ONE

    Article Title: MicroRNA Expression Profiles of Whole Blood in Lung Adenocarcinoma

    doi: 10.1371/journal.pone.0046045

    Figure Lengend Snippet: The scatter-plots show RT-PCR quantification cycle (C q ) values and log 2 -transformed microarray signal values for microRNAs let-7e , miR-22 , miR-30a-5p , miR-185 , miR-210 , and miR-423-5p (n = 11). Pearson correlation coefficients (r) and their 95% confidence intervals and associated P values, and best fitting (least squares) lines are also shown.

    Article Snippet: A two-color, oligonucleotide microarray platform from Exiqon® was used to quantify levels of 1282 human microRNAs and 23 human non-microRNAs of <200 nucleotides in the RNA isolated from whole blood specimens.

    Techniques: Reverse Transcription Polymerase Chain Reaction, Transformation Assay, Microarray

    A . Unsupervised clustering of the 45 samples of this study by log 2 -transformed microarray signal values of all 395 expressed microRNAs. The numbers indicate identities of the 45 subjects, with cases (n = 22) and controls (n = 23) shown in black and grey, respectively. The sample tree with optimized leaf-ordering is drawn using Pearson correlation for distance metric and average linkage for cluster-to-cluster distance, and the scale for it represents node-heights. B . Supervised clustering of microRNAs by their log 2 -transformed microarray signal values. The heat-map, with the pseudo-color scale underneath, shows log 2 -transformed microarray signal values of the 43 microRNAs whose expression is altered >25% in either direction in the cases compared to the controls. The gene tree is drawn as in A .

    Journal: PLoS ONE

    Article Title: MicroRNA Expression Profiles of Whole Blood in Lung Adenocarcinoma

    doi: 10.1371/journal.pone.0046045

    Figure Lengend Snippet: A . Unsupervised clustering of the 45 samples of this study by log 2 -transformed microarray signal values of all 395 expressed microRNAs. The numbers indicate identities of the 45 subjects, with cases (n = 22) and controls (n = 23) shown in black and grey, respectively. The sample tree with optimized leaf-ordering is drawn using Pearson correlation for distance metric and average linkage for cluster-to-cluster distance, and the scale for it represents node-heights. B . Supervised clustering of microRNAs by their log 2 -transformed microarray signal values. The heat-map, with the pseudo-color scale underneath, shows log 2 -transformed microarray signal values of the 43 microRNAs whose expression is altered >25% in either direction in the cases compared to the controls. The gene tree is drawn as in A .

    Article Snippet: A two-color, oligonucleotide microarray platform from Exiqon® was used to quantify levels of 1282 human microRNAs and 23 human non-microRNAs of <200 nucleotides in the RNA isolated from whole blood specimens.

    Techniques: Transformation Assay, Microarray, Expressing

    Dot-plots with medians and inter-quartile ranges of log 2 -transformed microarray signal values for the 22 cases ( black ) and 23 controls ( grey ) are shown for the four microRNAs that are present in a majority of the classifiers generated in internal cross-validation analyses using the linear support vector machines and top-scoring pairs classification methods.

    Journal: PLoS ONE

    Article Title: MicroRNA Expression Profiles of Whole Blood in Lung Adenocarcinoma

    doi: 10.1371/journal.pone.0046045

    Figure Lengend Snippet: Dot-plots with medians and inter-quartile ranges of log 2 -transformed microarray signal values for the 22 cases ( black ) and 23 controls ( grey ) are shown for the four microRNAs that are present in a majority of the classifiers generated in internal cross-validation analyses using the linear support vector machines and top-scoring pairs classification methods.

    Article Snippet: A two-color, oligonucleotide microarray platform from Exiqon® was used to quantify levels of 1282 human microRNAs and 23 human non-microRNAs of <200 nucleotides in the RNA isolated from whole blood specimens.

    Techniques: Transformation Assay, Microarray, Generated, Plasmid Preparation

    A . Receiver operating characteristic curves, the areas under curve ( AUC ) for age, and the line of identity, x = y , with an AUC of 0.5, are shown. B . Correlation with microRNA expression. Values for the clinical variables were correlated with microarray signal values for the 395 expressed microRNAs (n = 45 for age; n = 39 for others). The curves depict frequency histograms of Pearson correlation coefficients ( r ) with a bin of 0.025. Curves were smoothened using four neighbors for averaging and a zero order polynomial. Correlations are also shown for the random variable resampled WBC count for which values were generated by resampling the WBC count data.

    Journal: PLoS ONE

    Article Title: MicroRNA Expression Profiles of Whole Blood in Lung Adenocarcinoma

    doi: 10.1371/journal.pone.0046045

    Figure Lengend Snippet: A . Receiver operating characteristic curves, the areas under curve ( AUC ) for age, and the line of identity, x = y , with an AUC of 0.5, are shown. B . Correlation with microRNA expression. Values for the clinical variables were correlated with microarray signal values for the 395 expressed microRNAs (n = 45 for age; n = 39 for others). The curves depict frequency histograms of Pearson correlation coefficients ( r ) with a bin of 0.025. Curves were smoothened using four neighbors for averaging and a zero order polynomial. Correlations are also shown for the random variable resampled WBC count for which values were generated by resampling the WBC count data.

    Article Snippet: A two-color, oligonucleotide microarray platform from Exiqon® was used to quantify levels of 1282 human microRNAs and 23 human non-microRNAs of <200 nucleotides in the RNA isolated from whole blood specimens.

    Techniques: Expressing, Microarray, Generated

    Eight fragments of Stylophora pistillata were incubated in calcium seawater (SW) concentrations of seawater plus 100 mg/L calcium (SW + 100) and plus 200 mg/L calcium (SW + 200) during daytime (11:00) and during night-time (23:00). In each sampling time, four replicates were analyzed for calcification rates and four replicates from SW and SW+100 treatments, for microarray analysis.

    Journal: PeerJ

    Article Title: Identifying genes and regulatory pathways associated with the scleractinian coral calcification process

    doi: 10.7717/peerj.3590

    Figure Lengend Snippet: Eight fragments of Stylophora pistillata were incubated in calcium seawater (SW) concentrations of seawater plus 100 mg/L calcium (SW + 100) and plus 200 mg/L calcium (SW + 200) during daytime (11:00) and during night-time (23:00). In each sampling time, four replicates were analyzed for calcification rates and four replicates from SW and SW+100 treatments, for microarray analysis.

    Article Snippet: Total RNA was labeled and hybridized against custom S. pistillata microarray; an Agilent two-color gene expression microarray platform with 8 × 15 K probe per slide; microarray samples included four SW+100 and four SW (control) samples for each time point (11:00 and 23:00).

    Techniques: Incubation, Sampling, Microarray

    Three groups of three mice received binocular HOKS for 24 h in the P→A direction with respect to the right eye. Total RNA was extracted from the left and right flocculi of each mouse and combined for each group. The RNA from each group was analyzed on a miRNA microarray, and subsequently combined for analysis. A. Each data point in the Volcano plot represents four variables: 1) The fold change for each miRNA is represented on abscissa (right floc./left floc), 2) Statistical probability transcription difference (p-value) of a miRNA between the left and right flocculi is represented on left ordinate, 3) Average copy number (color coded) is represented on right ordinate and 4) Frequency of occurrence a miRNA relative to all other sampled miRNAs is represented as data point diameter. B. Twelve miRNAs were screened using three criteria: 1) A fold change >2, 2) A p-value <0.005, and 3) An average copy number >256. Error bars indicate standard error of the mean. Histogram color indicates copy number according to the right ordinate in A.

    Journal:

    Article Title: CLIMBING FIBERS INDUCE microRNA TRANSCRIPTION IN CEREBELLAR PURKINJE CELLS

    doi: 10.1016/j.neuroscience.2010.09.039

    Figure Lengend Snippet: Three groups of three mice received binocular HOKS for 24 h in the P→A direction with respect to the right eye. Total RNA was extracted from the left and right flocculi of each mouse and combined for each group. The RNA from each group was analyzed on a miRNA microarray, and subsequently combined for analysis. A. Each data point in the Volcano plot represents four variables: 1) The fold change for each miRNA is represented on abscissa (right floc./left floc), 2) Statistical probability transcription difference (p-value) of a miRNA between the left and right flocculi is represented on left ordinate, 3) Average copy number (color coded) is represented on right ordinate and 4) Frequency of occurrence a miRNA relative to all other sampled miRNAs is represented as data point diameter. B. Twelve miRNAs were screened using three criteria: 1) A fold change >2, 2) A p-value <0.005, and 3) An average copy number >256. Error bars indicate standard error of the mean. Histogram color indicates copy number according to the right ordinate in A.

    Article Snippet: The spindle shaped mouse flocculus is ~1.1 mm in axial length, ~400 μm at its peak diameter and weighs ~400 μg. miRNA microarray analysis miRNA expression profiling of mouse flocculus was performed using a two-color microarray platform (Asuragen Technical Services, Austin, TX).

    Techniques: Microarray