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rotating microarray hybridization oven  (Agilent technologies)


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    Structured Review

    Agilent technologies rotating microarray hybridization oven
    Top ten upregulated lncRNAs and mRNAs and their respective fold-changes and p -values based on the cDNA <t> microarray </t> dataset. The transcripts were statistically analyzed in the Agilent GeneSpring GX (v14.9.1) software using moderated t -test and Benjamin–Hochberg multiple testing corrections and had satisfied the p -value of <0.05 and fold-change cutoff of ±2.00. Data shown are from four independent experiments.
    Rotating Microarray Hybridization Oven, 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/microarray+oven/pmc11054952-207-31-34
    Average 90 stars, based on 1 article reviews
    rotating microarray hybridization oven - by Bioz Stars, 2026-09
    90/100 stars

    Images

    1) Product Images from "Possible Involvement of Long Non-Coding RNAs GNAS-AS1 and MIR205HG in the Modulation of 5-Fluorouracil Chemosensitivity in Colon Cancer Cells through Increased Extracellular Release of Exosomes"

    Article Title: Possible Involvement of Long Non-Coding RNAs GNAS-AS1 and MIR205HG in the Modulation of 5-Fluorouracil Chemosensitivity in Colon Cancer Cells through Increased Extracellular Release of Exosomes

    Journal: Non-Coding RNA

    doi: 10.3390/ncrna10020025

    Top ten upregulated lncRNAs and mRNAs and their respective fold-changes and p -values based on the cDNA  microarray  dataset. The transcripts were statistically analyzed in the Agilent GeneSpring GX (v14.9.1) software using moderated t -test and Benjamin–Hochberg multiple testing corrections and had satisfied the p -value of <0.05 and fold-change cutoff of ±2.00. Data shown are from four independent experiments.
    Figure Legend Snippet: Top ten upregulated lncRNAs and mRNAs and their respective fold-changes and p -values based on the cDNA microarray dataset. The transcripts were statistically analyzed in the Agilent GeneSpring GX (v14.9.1) software using moderated t -test and Benjamin–Hochberg multiple testing corrections and had satisfied the p -value of <0.05 and fold-change cutoff of ±2.00. Data shown are from four independent experiments.

    Techniques Used: Microarray, Software

    Top ten downregulated lncRNAs and mRNAs and their respective fold-changes and p -values based on the cDNA  microarray  dataset. The transcripts were statistically analyzed in the Agilent GeneSpring GX (v14.9.1) software using moderated t -test and Benjamin–Hochberg multiple testing corrections and had satisfied the p -value of <0.05 and fold-change cutoff of ±2.00. Data shown are from four independent experiments.
    Figure Legend Snippet: Top ten downregulated lncRNAs and mRNAs and their respective fold-changes and p -values based on the cDNA microarray dataset. The transcripts were statistically analyzed in the Agilent GeneSpring GX (v14.9.1) software using moderated t -test and Benjamin–Hochberg multiple testing corrections and had satisfied the p -value of <0.05 and fold-change cutoff of ±2.00. Data shown are from four independent experiments.

    Techniques Used: Microarray, Software

    Difference in lncRNA and mRNA fold-changes between the cDNA microarray and in-house RT-qPCR experiments. Data shown are from three independent experiments (in triplicates) with calculated SD values to represent error bars and their statistical analyses were conducted using one-way ANOVA.
    Figure Legend Snippet: Difference in lncRNA and mRNA fold-changes between the cDNA microarray and in-house RT-qPCR experiments. Data shown are from three independent experiments (in triplicates) with calculated SD values to represent error bars and their statistical analyses were conducted using one-way ANOVA.

    Techniques Used: Microarray, Quantitative RT-PCR

    ( A ) LncRNA-mRNA interaction network was constructed based on the ten selected candidate lncRNAs from the cDNA microarray dataset. The resulting mRNA interactions were predicted using the “rtool” database with −20 kcal as the minimum energy threshold and were filtered to show only mRNAs that were also dysregulated in the dataset. Data were visualized using Cytoscape v3.8.2. (Pink diamond = candidate lncRNA, blue circle = predicted putative mRNA targets). ( B ) A total of nine mRNAs were identified as both responsible in the “regulated exocytosis” hit as well as highly likely to be regulated by the candidate lncRNAs listed in ( A ). Data were visualized using Cytoscape v3.8.2. (pink diamond = candidate regulator lncRNA, blue circle = mRNA predicted involved in the biological process).
    Figure Legend Snippet: ( A ) LncRNA-mRNA interaction network was constructed based on the ten selected candidate lncRNAs from the cDNA microarray dataset. The resulting mRNA interactions were predicted using the “rtool” database with −20 kcal as the minimum energy threshold and were filtered to show only mRNAs that were also dysregulated in the dataset. Data were visualized using Cytoscape v3.8.2. (Pink diamond = candidate lncRNA, blue circle = predicted putative mRNA targets). ( B ) A total of nine mRNAs were identified as both responsible in the “regulated exocytosis” hit as well as highly likely to be regulated by the candidate lncRNAs listed in ( A ). Data were visualized using Cytoscape v3.8.2. (pink diamond = candidate regulator lncRNA, blue circle = mRNA predicted involved in the biological process).

    Techniques Used: Construct, Microarray

    Related Articles

    Gene Expression:

    Article Title: Possible Involvement of Long Non-Coding RNAs GNAS-AS1 and MIR205HG in the Modulation of 5-Fluorouracil Chemosensitivity in Colon Cancer Cells through Increased Extracellular Release of Exosomes
    Article Snippet: Cy3-labeled cRNA was then purified using the RNeasy Mini Kit (Qiagen, Valencia, CA, USA) to purify the amplified cRNA samples before dye incorporation and cRNA yield was assessed via NanoVueTM Plus Spectrophotometer (GE Healthcare, Chicago, IL, USA). .. After fragmentation steps following the manufacturer’s protocol, the cRNAs were immediately hybridized into the Agilent SurePrint G3 Human Gene Expression v3 8x60K for 17 h at 65 °C in a rotating microarray hybridization oven (Agilent, Santa Clara, CA, USA) prior to washing. .. Slides were immediately scanned using the Agilent SureScan Microarray Scanner (G4900DA) with 3 μM resolution at 532 nm wavelength.

    Article Title: Homeodomain-only protein suppresses proliferation and contributes to differentiation- and age-related reduced CD8 + T cell expansion
    Article Snippet: A total of 300 ng Cy3-labeled cRNA and 300 ng of a Cy5-labeled universal standard was fragmented at 60°C for 30 minutes in a reaction volume of 25 μL containing 0.5x Agilent fragmentation buffer and 2x Agilent gene expression blocking agent. .. After fragmentation, 25 μL of 2× Hi-RPM Hybridization Buffer was added to the fragmentation mixture and hybridized to Agilent SurePrint G3 Human GE v3 8x60K Microarray gene expression microarrays for 17 hours at 65°C in a rotating Agilent hybridization oven. .. After hybridization, microarrays were rinsed one minute at room temperature in GE Wash Buffer 1 (Agilent) and one minute in 37°C GE Wash buffer 2 (Agilent) and dried by slowly removing from Wash buffer 2.

    Microarray:

    Article Title: Possible Involvement of Long Non-Coding RNAs GNAS-AS1 and MIR205HG in the Modulation of 5-Fluorouracil Chemosensitivity in Colon Cancer Cells through Increased Extracellular Release of Exosomes
    Article Snippet: Cy3-labeled cRNA was then purified using the RNeasy Mini Kit (Qiagen, Valencia, CA, USA) to purify the amplified cRNA samples before dye incorporation and cRNA yield was assessed via NanoVueTM Plus Spectrophotometer (GE Healthcare, Chicago, IL, USA). .. After fragmentation steps following the manufacturer’s protocol, the cRNAs were immediately hybridized into the Agilent SurePrint G3 Human Gene Expression v3 8x60K for 17 h at 65 °C in a rotating microarray hybridization oven (Agilent, Santa Clara, CA, USA) prior to washing. .. Slides were immediately scanned using the Agilent SureScan Microarray Scanner (G4900DA) with 3 μM resolution at 532 nm wavelength.

    Article Title: Exploring miRNAs’ Based Modeling Approach for Predicting PIRA in Multiple Sclerosis: A Comprehensive Analysis
    Article Snippet: Samples were hybridized to the Agilent Human miRNA Microarrays chip 8 × 60 K (Agilent PN G4870-60530, grid ID = 070156) containing 2549 human miRNAs. .. The glasses were incubated in the Agilent Hybridization Oven at 55 °C, 10 RPM, for 20 h, washed according to the protocol, and scanned using the Agilent DNA Microarray Scanner (G2539C). ..

    Article Title: Community assembly of organisms regulates soil microbial functional potential through dual mechanisms.
    Article Snippet: 1State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China 2College of Geography and Environmental Sciences, Zhejiang Normal University, Jinhua, China 3Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou, China 4Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China 5College of Land and Environment, Shenyang Agricultural University, Shengyang, China 6Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, China 7Institute of Mountain Hazards and Environment, Chinese Academy of Sciences, Chengdu, China 8Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China 9Institute of Soil and Water Conservation, Chinese Academy of Sciences and Ministry of Water Resources, Yangling, China 10Institute for Environmental Genomics, University of Oklahoma, Norman, Oklahoma, USA

    Article Title: Multi-tissue metabolic and transcriptomic responses to a short-term heat stress in swine
    Article Snippet: 600 ng of Cy3-labelled cRNA (speci c activity > 6 pmol Cy3/μg cRNA) was fragmented at 60°C for 30 minutes in a reaction volume of 25 μL containing 10x Agilent fragmentation buffer and 25x Agilent blocking agent following the manufacturer’s instructions. .. On completion of the fragmentation reaction, 25 μL of 2x Agilent hybridization buffer was added to the fragmentation mixture and hybridized to SurePrint G3 Mouse GE microarray (8X60K, Design 028005) enclosed in Agilent SureHyb-enabled hybridization chambers for 17 hours at 65°C in a rotating Agilent hybridization oven. .. After hybridization, microarrays were washed sequentially in Wash buffer 1 (Agilent Technologies, 1 min), Wash buffer 2 (Agilent Technologies, 37°C, 1 min).

    Article Title: Cladribine and ocrelizumab induce differential miRNA profiles in peripheral blood mononucleated cells from relapsing–remitting multiple sclerosis patients
    Article Snippet: Then, the samples were hybridized to the Agilent Human miRNA Microarrays chip 8x60K (Agilent PN G4870-60530, grid ID = 070156) containing 2,549 human miRNAs. .. The glasses were incubated in the Agilent Hybridization Oven at 55°C, 10 RPM, for 20 h, washed according to the protocol, and scanned using the Agilent DNA Microarray Scanner (G2539C). .. miRNAs’ profiling was assessed by using Agilent Platform (Agilent Technologies, Milan, Italy).

    Article Title: Targeting microRNA-145-mediated progressive phenotypes of early bladder cancer in a molecularly defined in vivo model
    Article Snippet: RNA integrity was assessed using an Agilent 2100 Bioanalyzer (Agilent). .. RNA samples were labeled with the Agilent Low Input Amp Labeling Kit (Agilent, cat. no. 5190-2305) and hybridized on slides of SurePrint G3 Human GE Microarray 8x60K version 3.0 (Agilent) in the Agilent G2545A Hybridization Oven (Agilent) at 65°C overnight. .. Slides were then scanned with the Agilent Microarray Scanner System (Agilent, G2565CA).

    Article Title: RENEB Inter-Laboratory Comparison 2021: The Gene Expression Assay
    Article Snippet: Labeled cRNA samples were applied on the DNA microarray slides (44k whole human genome, G4112F, Agilent). .. For hybridization, DNA microarrays were placed into a hybridization oven (Agilent) at 65°C for 17 h. After hybridization, DNA microarrays were washed, and slides were immediately scanned with the Microarray Scanner (G2505 B, Agilent) as recommended by Agilent. .. The pre-processing procedure and subsequent statistical analysis were applied separately using Agilent Feature Extraction Software Version 9.5.1.

    Article Title: Homeodomain-only protein suppresses proliferation and contributes to differentiation- and age-related reduced CD8 + T cell expansion
    Article Snippet: A total of 300 ng Cy3-labeled cRNA and 300 ng of a Cy5-labeled universal standard was fragmented at 60°C for 30 minutes in a reaction volume of 25 μL containing 0.5x Agilent fragmentation buffer and 2x Agilent gene expression blocking agent. .. After fragmentation, 25 μL of 2× Hi-RPM Hybridization Buffer was added to the fragmentation mixture and hybridized to Agilent SurePrint G3 Human GE v3 8x60K Microarray gene expression microarrays for 17 hours at 65°C in a rotating Agilent hybridization oven. .. After hybridization, microarrays were rinsed one minute at room temperature in GE Wash Buffer 1 (Agilent) and one minute in 37°C GE Wash buffer 2 (Agilent) and dried by slowly removing from Wash buffer 2.

    Hybridization:

    Article Title: Possible Involvement of Long Non-Coding RNAs GNAS-AS1 and MIR205HG in the Modulation of 5-Fluorouracil Chemosensitivity in Colon Cancer Cells through Increased Extracellular Release of Exosomes
    Article Snippet: Cy3-labeled cRNA was then purified using the RNeasy Mini Kit (Qiagen, Valencia, CA, USA) to purify the amplified cRNA samples before dye incorporation and cRNA yield was assessed via NanoVueTM Plus Spectrophotometer (GE Healthcare, Chicago, IL, USA). .. After fragmentation steps following the manufacturer’s protocol, the cRNAs were immediately hybridized into the Agilent SurePrint G3 Human Gene Expression v3 8x60K for 17 h at 65 °C in a rotating microarray hybridization oven (Agilent, Santa Clara, CA, USA) prior to washing. .. Slides were immediately scanned using the Agilent SureScan Microarray Scanner (G4900DA) with 3 μM resolution at 532 nm wavelength.

    Article Title: Exploring miRNAs’ Based Modeling Approach for Predicting PIRA in Multiple Sclerosis: A Comprehensive Analysis
    Article Snippet: Samples were hybridized to the Agilent Human miRNA Microarrays chip 8 × 60 K (Agilent PN G4870-60530, grid ID = 070156) containing 2549 human miRNAs. .. The glasses were incubated in the Agilent Hybridization Oven at 55 °C, 10 RPM, for 20 h, washed according to the protocol, and scanned using the Agilent DNA Microarray Scanner (G2539C). ..

    Article Title: Community assembly of organisms regulates soil microbial functional potential through dual mechanisms.
    Article Snippet: 1State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China 2College of Geography and Environmental Sciences, Zhejiang Normal University, Jinhua, China 3Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou, China 4Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China 5College of Land and Environment, Shenyang Agricultural University, Shengyang, China 6Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, China 7Institute of Mountain Hazards and Environment, Chinese Academy of Sciences, Chengdu, China 8Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China 9Institute of Soil and Water Conservation, Chinese Academy of Sciences and Ministry of Water Resources, Yangling, China 10Institute for Environmental Genomics, University of Oklahoma, Norman, Oklahoma, USA

    Article Title: Multi-tissue metabolic and transcriptomic responses to a short-term heat stress in swine
    Article Snippet: 600 ng of Cy3-labelled cRNA (speci c activity > 6 pmol Cy3/μg cRNA) was fragmented at 60°C for 30 minutes in a reaction volume of 25 μL containing 10x Agilent fragmentation buffer and 25x Agilent blocking agent following the manufacturer’s instructions. .. On completion of the fragmentation reaction, 25 μL of 2x Agilent hybridization buffer was added to the fragmentation mixture and hybridized to SurePrint G3 Mouse GE microarray (8X60K, Design 028005) enclosed in Agilent SureHyb-enabled hybridization chambers for 17 hours at 65°C in a rotating Agilent hybridization oven. .. After hybridization, microarrays were washed sequentially in Wash buffer 1 (Agilent Technologies, 1 min), Wash buffer 2 (Agilent Technologies, 37°C, 1 min).

    Article Title: Cladribine and ocrelizumab induce differential miRNA profiles in peripheral blood mononucleated cells from relapsing–remitting multiple sclerosis patients
    Article Snippet: Then, the samples were hybridized to the Agilent Human miRNA Microarrays chip 8x60K (Agilent PN G4870-60530, grid ID = 070156) containing 2,549 human miRNAs. .. The glasses were incubated in the Agilent Hybridization Oven at 55°C, 10 RPM, for 20 h, washed according to the protocol, and scanned using the Agilent DNA Microarray Scanner (G2539C). .. miRNAs’ profiling was assessed by using Agilent Platform (Agilent Technologies, Milan, Italy).

    Article Title: Targeting microRNA-145-mediated progressive phenotypes of early bladder cancer in a molecularly defined in vivo model
    Article Snippet: RNA integrity was assessed using an Agilent 2100 Bioanalyzer (Agilent). .. RNA samples were labeled with the Agilent Low Input Amp Labeling Kit (Agilent, cat. no. 5190-2305) and hybridized on slides of SurePrint G3 Human GE Microarray 8x60K version 3.0 (Agilent) in the Agilent G2545A Hybridization Oven (Agilent) at 65°C overnight. .. Slides were then scanned with the Agilent Microarray Scanner System (Agilent, G2565CA).

    Article Title: RENEB Inter-Laboratory Comparison 2021: The Gene Expression Assay
    Article Snippet: Labeled cRNA samples were applied on the DNA microarray slides (44k whole human genome, G4112F, Agilent). .. For hybridization, DNA microarrays were placed into a hybridization oven (Agilent) at 65°C for 17 h. After hybridization, DNA microarrays were washed, and slides were immediately scanned with the Microarray Scanner (G2505 B, Agilent) as recommended by Agilent. .. The pre-processing procedure and subsequent statistical analysis were applied separately using Agilent Feature Extraction Software Version 9.5.1.

    Article Title: Homeodomain-only protein suppresses proliferation and contributes to differentiation- and age-related reduced CD8 + T cell expansion
    Article Snippet: A total of 300 ng Cy3-labeled cRNA and 300 ng of a Cy5-labeled universal standard was fragmented at 60°C for 30 minutes in a reaction volume of 25 μL containing 0.5x Agilent fragmentation buffer and 2x Agilent gene expression blocking agent. .. After fragmentation, 25 μL of 2× Hi-RPM Hybridization Buffer was added to the fragmentation mixture and hybridized to Agilent SurePrint G3 Human GE v3 8x60K Microarray gene expression microarrays for 17 hours at 65°C in a rotating Agilent hybridization oven. .. After hybridization, microarrays were rinsed one minute at room temperature in GE Wash Buffer 1 (Agilent) and one minute in 37°C GE Wash buffer 2 (Agilent) and dried by slowly removing from Wash buffer 2.

    Incubation:

    Article Title: Exploring miRNAs’ Based Modeling Approach for Predicting PIRA in Multiple Sclerosis: A Comprehensive Analysis
    Article Snippet: Samples were hybridized to the Agilent Human miRNA Microarrays chip 8 × 60 K (Agilent PN G4870-60530, grid ID = 070156) containing 2549 human miRNAs. .. The glasses were incubated in the Agilent Hybridization Oven at 55 °C, 10 RPM, for 20 h, washed according to the protocol, and scanned using the Agilent DNA Microarray Scanner (G2539C). ..

    Article Title: Cladribine and ocrelizumab induce differential miRNA profiles in peripheral blood mononucleated cells from relapsing–remitting multiple sclerosis patients
    Article Snippet: Then, the samples were hybridized to the Agilent Human miRNA Microarrays chip 8x60K (Agilent PN G4870-60530, grid ID = 070156) containing 2,549 human miRNAs. .. The glasses were incubated in the Agilent Hybridization Oven at 55°C, 10 RPM, for 20 h, washed according to the protocol, and scanned using the Agilent DNA Microarray Scanner (G2539C). .. miRNAs’ profiling was assessed by using Agilent Platform (Agilent Technologies, Milan, Italy).

    Labeling:

    Article Title: Community assembly of organisms regulates soil microbial functional potential through dual mechanisms.
    Article Snippet: 1State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China 2College of Geography and Environmental Sciences, Zhejiang Normal University, Jinhua, China 3Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou, China 4Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China 5College of Land and Environment, Shenyang Agricultural University, Shengyang, China 6Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, China 7Institute of Mountain Hazards and Environment, Chinese Academy of Sciences, Chengdu, China 8Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China 9Institute of Soil and Water Conservation, Chinese Academy of Sciences and Ministry of Water Resources, Yangling, China 10Institute for Environmental Genomics, University of Oklahoma, Norman, Oklahoma, USA

    Article Title: Targeting microRNA-145-mediated progressive phenotypes of early bladder cancer in a molecularly defined in vivo model
    Article Snippet: RNA integrity was assessed using an Agilent 2100 Bioanalyzer (Agilent). .. RNA samples were labeled with the Agilent Low Input Amp Labeling Kit (Agilent, cat. no. 5190-2305) and hybridized on slides of SurePrint G3 Human GE Microarray 8x60K version 3.0 (Agilent) in the Agilent G2545A Hybridization Oven (Agilent) at 65°C overnight. .. Slides were then scanned with the Agilent Microarray Scanner System (Agilent, G2565CA).



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    Image Search Results


    Top ten upregulated lncRNAs and mRNAs and their respective fold-changes and p -values based on the cDNA  microarray  dataset. The transcripts were statistically analyzed in the Agilent GeneSpring GX (v14.9.1) software using moderated t -test and Benjamin–Hochberg multiple testing corrections and had satisfied the p -value of <0.05 and fold-change cutoff of ±2.00. Data shown are from four independent experiments.

    Journal: Non-Coding RNA

    Article Title: Possible Involvement of Long Non-Coding RNAs GNAS-AS1 and MIR205HG in the Modulation of 5-Fluorouracil Chemosensitivity in Colon Cancer Cells through Increased Extracellular Release of Exosomes

    doi: 10.3390/ncrna10020025

    Figure Lengend Snippet: Top ten upregulated lncRNAs and mRNAs and their respective fold-changes and p -values based on the cDNA microarray dataset. The transcripts were statistically analyzed in the Agilent GeneSpring GX (v14.9.1) software using moderated t -test and Benjamin–Hochberg multiple testing corrections and had satisfied the p -value of <0.05 and fold-change cutoff of ±2.00. Data shown are from four independent experiments.

    Article Snippet: After fragmentation steps following the manufacturer’s protocol, the cRNAs were immediately hybridized into the Agilent SurePrint G3 Human Gene Expression v3 8x60K for 17 h at 65 °C in a rotating microarray hybridization oven (Agilent, Santa Clara, CA, USA) prior to washing.

    Techniques: Microarray, Software

    Top ten downregulated lncRNAs and mRNAs and their respective fold-changes and p -values based on the cDNA  microarray  dataset. The transcripts were statistically analyzed in the Agilent GeneSpring GX (v14.9.1) software using moderated t -test and Benjamin–Hochberg multiple testing corrections and had satisfied the p -value of <0.05 and fold-change cutoff of ±2.00. Data shown are from four independent experiments.

    Journal: Non-Coding RNA

    Article Title: Possible Involvement of Long Non-Coding RNAs GNAS-AS1 and MIR205HG in the Modulation of 5-Fluorouracil Chemosensitivity in Colon Cancer Cells through Increased Extracellular Release of Exosomes

    doi: 10.3390/ncrna10020025

    Figure Lengend Snippet: Top ten downregulated lncRNAs and mRNAs and their respective fold-changes and p -values based on the cDNA microarray dataset. The transcripts were statistically analyzed in the Agilent GeneSpring GX (v14.9.1) software using moderated t -test and Benjamin–Hochberg multiple testing corrections and had satisfied the p -value of <0.05 and fold-change cutoff of ±2.00. Data shown are from four independent experiments.

    Article Snippet: After fragmentation steps following the manufacturer’s protocol, the cRNAs were immediately hybridized into the Agilent SurePrint G3 Human Gene Expression v3 8x60K for 17 h at 65 °C in a rotating microarray hybridization oven (Agilent, Santa Clara, CA, USA) prior to washing.

    Techniques: Microarray, Software

    Difference in lncRNA and mRNA fold-changes between the cDNA microarray and in-house RT-qPCR experiments. Data shown are from three independent experiments (in triplicates) with calculated SD values to represent error bars and their statistical analyses were conducted using one-way ANOVA.

    Journal: Non-Coding RNA

    Article Title: Possible Involvement of Long Non-Coding RNAs GNAS-AS1 and MIR205HG in the Modulation of 5-Fluorouracil Chemosensitivity in Colon Cancer Cells through Increased Extracellular Release of Exosomes

    doi: 10.3390/ncrna10020025

    Figure Lengend Snippet: Difference in lncRNA and mRNA fold-changes between the cDNA microarray and in-house RT-qPCR experiments. Data shown are from three independent experiments (in triplicates) with calculated SD values to represent error bars and their statistical analyses were conducted using one-way ANOVA.

    Article Snippet: After fragmentation steps following the manufacturer’s protocol, the cRNAs were immediately hybridized into the Agilent SurePrint G3 Human Gene Expression v3 8x60K for 17 h at 65 °C in a rotating microarray hybridization oven (Agilent, Santa Clara, CA, USA) prior to washing.

    Techniques: Microarray, Quantitative RT-PCR

    ( A ) LncRNA-mRNA interaction network was constructed based on the ten selected candidate lncRNAs from the cDNA microarray dataset. The resulting mRNA interactions were predicted using the “rtool” database with −20 kcal as the minimum energy threshold and were filtered to show only mRNAs that were also dysregulated in the dataset. Data were visualized using Cytoscape v3.8.2. (Pink diamond = candidate lncRNA, blue circle = predicted putative mRNA targets). ( B ) A total of nine mRNAs were identified as both responsible in the “regulated exocytosis” hit as well as highly likely to be regulated by the candidate lncRNAs listed in ( A ). Data were visualized using Cytoscape v3.8.2. (pink diamond = candidate regulator lncRNA, blue circle = mRNA predicted involved in the biological process).

    Journal: Non-Coding RNA

    Article Title: Possible Involvement of Long Non-Coding RNAs GNAS-AS1 and MIR205HG in the Modulation of 5-Fluorouracil Chemosensitivity in Colon Cancer Cells through Increased Extracellular Release of Exosomes

    doi: 10.3390/ncrna10020025

    Figure Lengend Snippet: ( A ) LncRNA-mRNA interaction network was constructed based on the ten selected candidate lncRNAs from the cDNA microarray dataset. The resulting mRNA interactions were predicted using the “rtool” database with −20 kcal as the minimum energy threshold and were filtered to show only mRNAs that were also dysregulated in the dataset. Data were visualized using Cytoscape v3.8.2. (Pink diamond = candidate lncRNA, blue circle = predicted putative mRNA targets). ( B ) A total of nine mRNAs were identified as both responsible in the “regulated exocytosis” hit as well as highly likely to be regulated by the candidate lncRNAs listed in ( A ). Data were visualized using Cytoscape v3.8.2. (pink diamond = candidate regulator lncRNA, blue circle = mRNA predicted involved in the biological process).

    Article Snippet: After fragmentation steps following the manufacturer’s protocol, the cRNAs were immediately hybridized into the Agilent SurePrint G3 Human Gene Expression v3 8x60K for 17 h at 65 °C in a rotating microarray hybridization oven (Agilent, Santa Clara, CA, USA) prior to washing.

    Techniques: Construct, Microarray

     Microarray  quality control parameters.

    Journal: BMC Bioinformatics

    Article Title: Sex genes for genomic analysis in human brain: internal controls for comparison of probe level data extraction.

    doi: 10.1186/1471-2105-4-37

    Figure Lengend Snippet: Microarray quality control parameters.

    Article Snippet: After fragmentation in pieces of 50 to 200 bases long, 15 μg of labeled cRNA sample was hybridized onto oligonucleotide U133A microarrays, using standard protocols with the Affymetrix microarray oven and fluidics station at the Columbia University Genome Center.

    Techniques: Microarray

    Fold changes obtained by microarray (fill) and by qPCR (hatched) when fed the M diet (dark grey) or the V diet (light grey) for genes involved in sensory perception (R23h versus A22h), immunity (R23h versus AB1h) and for amino acid metabolism (R23h versus A22h).

    Journal: PLoS ONE

    Article Title: Detection of new pathways involved in the acceptance and the utilisation of a plant-based diet in isogenic lines of rainbow trout fry

    doi: 10.1371/journal.pone.0201462

    Figure Lengend Snippet: Fold changes obtained by microarray (fill) and by qPCR (hatched) when fed the M diet (dark grey) or the V diet (light grey) for genes involved in sensory perception (R23h versus A22h), immunity (R23h versus AB1h) and for amino acid metabolism (R23h versus A22h).

    Article Snippet: Hybridisation was performed in a microarray hybridisation oven (Agilent) for 17h at 65°C.

    Techniques: Microarray

    Correlation between gene expression patterns obtained through real-time PCR and  microarray  approaches.

    Journal: PLoS ONE

    Article Title: Detection of new pathways involved in the acceptance and the utilisation of a plant-based diet in isogenic lines of rainbow trout fry

    doi: 10.1371/journal.pone.0201462

    Figure Lengend Snippet: Correlation between gene expression patterns obtained through real-time PCR and microarray approaches.

    Article Snippet: Hybridisation was performed in a microarray hybridisation oven (Agilent) for 17h at 65°C.

    Techniques: Expressing, Real-time Polymerase Chain Reaction, Microarray