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OakLabs Inc microarray slide hybridization
Microarray Slide Hybridization, supplied by OakLabs Inc, 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+slide+hybridization/microarray+analysis/pm26991510-89-9-12
Average 90 stars, based on 1 article reviews
microarray slide hybridization - by Bioz Stars, 2026-11
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Purification:

Article Title: Genome-wide strategies reveal target genes of Npas4l associated with vascular development in zebrafish.
Article Snippet: .. After purification with RNA Clean and Concentrator kit (Zymo Research), the microarray analysis was performed by Oaklabs (Hennigsdorf, Germany). .. A 8 × 60 K zebrafish expression array (XS -5090; Agilent 60-mer SurePrint technology) analysis was performed according to manufacturer's protocol.

Article Title: Transcriptomic and Proteomic Analysis of Clear Cell Foci (CCF) in the Human Non-Cirrhotic Liver Identifies Several Differentially Expressed Genes and Proteins with Functions in Cancer Cell Biology and Glycogen Metabolism
Article Snippet: RNA was quantified using a Nanodrop 8000 (Thermo Scientific, Waltham, MA, USA) and RNA quality was assessed using a Bioanalyzer (Agilent 2100 Bioanalyzer, Agilent Technologies, Santa Clara, CA, USA) (Supplementary Table S1). .. Processing of purified RNA for microarray analysis and the microarray analysis were carried out at OakLabs (Hennigsdorf, Germany) according to their standard procedures. .. Briefly, RNA concentrations were between 17 and 66 ng/μL in volumes of 30 or 40 μL H2O with integrity numbers (RIN, Bioanalyzer, Agilent Technologies, USA) between 6.3 and 7.9 (Supplementary Table S1).

Article Title: Transcriptomic and Proteomic analysis of clear cell foci (CCF) in the human non-cirrhotic liver identifies several differentially expressed genes and proteins with functions in cancer cell biology and glycogen metabolism
Article Snippet: .. Processing of purified RNA for microarray analysis and microarray analysis was carried out at OakLabs (Hennigsdorf, Germany) according to their standard procedures. ..

Article Title: The molecular and physiological consequences of cold plasma treatment in murine skin and its barrier function.
Article Snippet: .. After purification, the Cy3-573 cRNA was fragmented and hybridized on the microarray chip using the Gene 574 Expression Hybridization Kit (customized 8x60K microarray chip; OakLabs, Berlin, 575 Germany) 17 h at 65 °C. .. The chips were then washed using the Gene Expression Wash 576 Buffer Kit (all from Agilent, Waldbronn, Germany), dried, and scanned using an Agilent 577 SureScan device.

Microarray:

Article Title: Genome-wide strategies reveal target genes of Npas4l associated with vascular development in zebrafish.
Article Snippet: .. After purification with RNA Clean and Concentrator kit (Zymo Research), the microarray analysis was performed by Oaklabs (Hennigsdorf, Germany). .. A 8 × 60 K zebrafish expression array (XS -5090; Agilent 60-mer SurePrint technology) analysis was performed according to manufacturer's protocol.

Article Title: Transcriptomic and Proteomic Analysis of Clear Cell Foci (CCF) in the Human Non-Cirrhotic Liver Identifies Several Differentially Expressed Genes and Proteins with Functions in Cancer Cell Biology and Glycogen Metabolism
Article Snippet: RNA was quantified using a Nanodrop 8000 (Thermo Scientific, Waltham, MA, USA) and RNA quality was assessed using a Bioanalyzer (Agilent 2100 Bioanalyzer, Agilent Technologies, Santa Clara, CA, USA) (Supplementary Table S1). .. Processing of purified RNA for microarray analysis and the microarray analysis were carried out at OakLabs (Hennigsdorf, Germany) according to their standard procedures. .. Briefly, RNA concentrations were between 17 and 66 ng/μL in volumes of 30 or 40 μL H2O with integrity numbers (RIN, Bioanalyzer, Agilent Technologies, USA) between 6.3 and 7.9 (Supplementary Table S1).

Article Title: Transcriptomic and Proteomic analysis of clear cell foci (CCF) in the human non-cirrhotic liver identifies several differentially expressed genes and proteins with functions in cancer cell biology and glycogen metabolism
Article Snippet: .. Processing of purified RNA for microarray analysis and microarray analysis was carried out at OakLabs (Hennigsdorf, Germany) according to their standard procedures. ..

Article Title: A regeneration-triggered metabolic adaptation is necessary for cell identity transitions and cell cycle re-entry to support blastema formation and bone regeneration
Article Snippet: .. Samples were maintained at –80 °C until sent to OakLabs GmbH (Henningsdorf, Germany) for cDNA generation, microarray chip set up and data analysis. .. To compare the transcriptome profiles of mature OB in homeostasis to OB during dedifferentiation, a genome- wide gene expression profiling was set up using the 8x60 K ArrayXS Zebrafish platform by Agilent and performed by OakLabs GmbH (Henningsdorf, Germany).

Article Title: Shoot tolerance mechanisms to iron toxicity in rice (Oryza sativa L.).
Article Snippet: Iron toxicity frequently affects lowland rice and leads to oxidative stress via the Fenton reaction.. Tolerance mechanisms were investigated in contrasting genotypes: the intolerant IR29 and the tolerant recombinant inbred line FL483.. Seedlings were exposed to 1000mgL ferrous iron, and the regulation of genes involved in three hypothetical tolerance mechanisms was investigated (I) Iron uptake, partitioning and storage.

Article Title: Modulation of early gene expression responses to water deprivation stress by the E3 ubiquitin ligase ATL80: implications for retrograde signaling interplay
Article Snippet: RNA was isolated from frozen seedlings using a RNeasy plant mini kit (Qiagen; Hilden, Germany). .. Labeling of total RNA, microarray processing data analysis, and normalization was performed by Oaklabs GmbH (Hennigsdorf, Germany). .. An ArrayXS Arabidopsis v2 (XS-5010) microarray in the Agilent 8 × 60 K format representing 30,541 Arabidopsis genes was used.

Article Title: The molecular and physiological consequences of cold plasma treatment in murine skin and its barrier function.
Article Snippet: .. After purification, the Cy3-573 cRNA was fragmented and hybridized on the microarray chip using the Gene 574 Expression Hybridization Kit (customized 8x60K microarray chip; OakLabs, Berlin, 575 Germany) 17 h at 65 °C. .. The chips were then washed using the Gene Expression Wash 576 Buffer Kit (all from Agilent, Waldbronn, Germany), dried, and scanned using an Agilent 577 SureScan device.

Article Title: Molecular basis for neofunctionalization of duplicated E3 ubiquitin ligases underlying adaptation to drought tolerance in Arabidopsis thaliana.
Article Snippet: This article has been accepted for publication and undergone full peer review but has not been through the copyediting, typesetting, pagination and proofreading process, which may lead to differences between this version and the Version of Record.. Please cite this article as doi: 10.1111/TPJ.14938 This article is protected by copyright.. All rights reserved

Hybridization:

Article Title: Shoot tolerance mechanisms to iron toxicity in rice (Oryza sativa L.).
Article Snippet: Iron toxicity frequently affects lowland rice and leads to oxidative stress via the Fenton reaction.. Tolerance mechanisms were investigated in contrasting genotypes: the intolerant IR29 and the tolerant recombinant inbred line FL483.. Seedlings were exposed to 1000mgL ferrous iron, and the regulation of genes involved in three hypothetical tolerance mechanisms was investigated (I) Iron uptake, partitioning and storage.

Article Title: The molecular and physiological consequences of cold plasma treatment in murine skin and its barrier function.
Article Snippet: .. After purification, the Cy3-573 cRNA was fragmented and hybridized on the microarray chip using the Gene 574 Expression Hybridization Kit (customized 8x60K microarray chip; OakLabs, Berlin, 575 Germany) 17 h at 65 °C. .. The chips were then washed using the Gene Expression Wash 576 Buffer Kit (all from Agilent, Waldbronn, Germany), dried, and scanned using an Agilent 577 SureScan device.

Labeling:

Article Title: Modulation of early gene expression responses to water deprivation stress by the E3 ubiquitin ligase ATL80: implications for retrograde signaling interplay
Article Snippet: RNA was isolated from frozen seedlings using a RNeasy plant mini kit (Qiagen; Hilden, Germany). .. Labeling of total RNA, microarray processing data analysis, and normalization was performed by Oaklabs GmbH (Hennigsdorf, Germany). .. An ArrayXS Arabidopsis v2 (XS-5010) microarray in the Agilent 8 × 60 K format representing 30,541 Arabidopsis genes was used.

Expressing:

Article Title: The molecular and physiological consequences of cold plasma treatment in murine skin and its barrier function.
Article Snippet: .. After purification, the Cy3-573 cRNA was fragmented and hybridized on the microarray chip using the Gene 574 Expression Hybridization Kit (customized 8x60K microarray chip; OakLabs, Berlin, 575 Germany) 17 h at 65 °C. .. The chips were then washed using the Gene Expression Wash 576 Buffer Kit (all from Agilent, Waldbronn, Germany), dried, and scanned using an Agilent 577 SureScan device.



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(A) HIF-1α, HIF-2α, PHD2, and PHD3 protein levels were analyzed after cultivating BMDM for 24 h at 20% or 1% O2. (B) The expression of HIF-1 target genes, such as PKM2, Pfk, and PDK-1, on mRNA level was analyzed after cultivating BMDM for 24 h at 20% O2 or 1% O2 using qRT-PCR. (C) PHD3−/− [knockout (KO)] and WT BMDM were cultivated for 48 h at 20% O2 and 1% O2. Subsequently, cells were lysed and RNA isolated. RNA samples were analyzed in a transcriptome <t>microarray</t> assay. The volcano blots were generated based on the microarray results. (D) PHD3−/− and WT BMDM were cultured with or without serum for 24 h or stimulated with 100 ng LPS for 12 h. Subsequently, NF-κB activities were analyzed. As a positive control for the NF-κB activity assay, a cell extract of HeLa cells, which were treated with LPS, was used; n = 3; mean ± sd; **P < 0.01, and ***P < 0.001. rel. LU, Relative light units.
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(A) HIF-1α, HIF-2α, PHD2, and PHD3 protein levels were analyzed after cultivating BMDM for 24 h at 20% or 1% O2. (B) The expression of HIF-1 target genes, such as PKM2, Pfk, and PDK-1, on mRNA level was analyzed after cultivating BMDM for 24 h at 20% O2 or 1% O2 using qRT-PCR. (C) PHD3−/− [knockout (KO)] and WT BMDM were cultivated for 48 h at 20% O2 and 1% O2. Subsequently, cells were lysed and RNA isolated. RNA samples were analyzed in a transcriptome microarray assay. The volcano blots were generated based on the microarray results. (D) PHD3−/− and WT BMDM were cultured with or without serum for 24 h or stimulated with 100 ng LPS for 12 h. Subsequently, NF-κB activities were analyzed. As a positive control for the NF-κB activity assay, a cell extract of HeLa cells, which were treated with LPS, was used; n = 3; mean ± sd; **P < 0.01, and ***P < 0.001. rel. LU, Relative light units.

Journal: Journal of Leukocyte Biology

Article Title: Prolyl-4-hydroxylase domain 3 (PHD3) is a critical terminator for cell survival of macrophages under stress conditions

doi: 10.1189/jlb.2HI1013-533R

Figure Lengend Snippet: (A) HIF-1α, HIF-2α, PHD2, and PHD3 protein levels were analyzed after cultivating BMDM for 24 h at 20% or 1% O2. (B) The expression of HIF-1 target genes, such as PKM2, Pfk, and PDK-1, on mRNA level was analyzed after cultivating BMDM for 24 h at 20% O2 or 1% O2 using qRT-PCR. (C) PHD3−/− [knockout (KO)] and WT BMDM were cultivated for 48 h at 20% O2 and 1% O2. Subsequently, cells were lysed and RNA isolated. RNA samples were analyzed in a transcriptome microarray assay. The volcano blots were generated based on the microarray results. (D) PHD3−/− and WT BMDM were cultured with or without serum for 24 h or stimulated with 100 ng LPS for 12 h. Subsequently, NF-κB activities were analyzed. As a positive control for the NF-κB activity assay, a cell extract of HeLa cells, which were treated with LPS, was used; n = 3; mean ± sd; **P < 0.01, and ***P < 0.001. rel. LU, Relative light units.

Article Snippet: The hybridization was then carried out on the Agilent microarray hybridization slide at 65°C for 17 h. All subsequent steps were followed as instructed by the Low Input Quick Amp Labeling protocol.

Techniques: Expressing, Quantitative RT-PCR, Knock-Out, Isolation, Microarray, Generated, Cell Culture, Positive Control, Activity Assay