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    Structured Review

    Thermo Fisher confocal scanner
    Confocal Scanner, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 89/100, based on 12 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/confocal scanner/product/Thermo Fisher
    Average 89 stars, based on 12 article reviews
    Price from $9.99 to $1999.99
    confocal scanner - by Bioz Stars, 2020-04
    89/100 stars

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    Related Articles

    Amplification:

    Article Title: Gastric peroxisome proliferator activator receptor-? expression and cytoprotective actions of its ligands against ischemia-reperfusion injury in rats
    Article Snippet: Paragraph title: Laser capture microdissection, isolation of RNA, cDNA synthesis, cRNA amplification, and GeneChip hybridization ... The DNA chips were scanned using a specially designed confocal scanner (GeneChip Scanenr 3000, Affymetrix).

    Synthesized:

    Article Title: Adenovirus VA RNA-derived miRNAs target cellular genes involved in cell growth, gene expression and DNA repair
    Article Snippet: After column cleanup of the RNA with Qiagen Rneasy, cDNA was synthesized by using an oligo(dT) primer attached to a sequence of the T7 promoter region. .. The arrays were washed, stained, and scanned by using a confocal scanner (Affymetrix).

    Article Title: Effect of the human cytomegalovirus IE86 protein on expression of E2F-responsive genes: A DNA microarray analysis
    Article Snippet: Biotin-labeled cRNA was synthesized from cDNA by using ENZO BioArray High Yield RNA Transcript Labeling Kit (Enzo Diagnostics). cRNA was fragmented to an average size of 50–100 nucleotides by incubating at 94°C for 35 min in 40 mM Tris-acetate (pH 8.1) containing 100 mM potassium acetate and 30 mM magnesium acetate, and then hybridized to human GENECHIP arrays (Human Genome U95A, Affymetrix) containing approximately 12,000 human genes. .. The DNA microarrays were scanned using a confocal scanner (Affymetrix Molecular Dynamics).

    Article Title: Evidence-Based Annotation of the Malaria Parasite's Genome Using Comparative Expression Profiling
    Article Snippet: A second strand of cDNA was then synthesized and used as a template for in vitro transcription in the presence of biotinylated ribonucleotide (Enzo). .. Arrays were scanned with an emission wavelength of 560 nm at 3 µm resolution using a confocal scanner (Affymetrix), and the signal intensity for each sequence feature on the array was determined using the 70th percentile method in Microarray Suite 5 (Affymetrix).

    Article Title: High expression of thymidine phosphorylase in basal-like breast cancers: Stromal expression in EGFR- and/or CK5/6-positive breast cancers
    Article Snippet: Biotin-labeled cRNA was synthesized from cDNA using a MegaScript In Vitro Transcript Kit (Ambion, Austin, TX, USA), and then hybridized to human U95Av2 GeneChip® (Affymetrix, Santa Clara, CA, USA). .. The hybridized oligonucleotide microarrays were scanned using a confocal scanner (Affymetrix) and analyzed using Affymetrix software (LIMS 5.0).

    Article Title: Lipoxin A4 Modifies Platelet-Derived Growth Factor-Induced Profibrotic Gene Expression in Human Renal Mesangial Cells
    Article Snippet: Briefly, cDNA was synthesized from total RNA using the Superscript Choice kit (Invitrogen, Carlsbad, CA). .. Arrays were then fluorescently labeled before scanning with a confocal scanner (Affymetrix).

    Microarray:

    Article Title: Adenovirus VA RNA-derived miRNAs target cellular genes involved in cell growth, gene expression and DNA repair
    Article Snippet: Paragraph title: Microarray analysis ... The arrays were washed, stained, and scanned by using a confocal scanner (Affymetrix).

    Article Title: Distinct Transcriptome Expression of the Temporal Cortex of the Primate Microcebus murinus during Brain Aging versus Alzheimer's Disease-Like Pathology
    Article Snippet: This microarray contains 54,656 probes corresponding to 47,400 human transcripts. .. At the end of the experiment, the hybridized probes were scanned at a resolution of 3 µm in a confocal scanner (Affymetrix GeneChip Scanner 3000 7G).

    Article Title: Gene Expression Profile in Interleukin-4-Stimulated Human Vascular Endothelial Cells
    Article Snippet: Paragraph title: RNA isolation and GeneChip microarray processing. ... The chips were then washed and stained on a fluidics station (Affymetrix GeneChip Fluidics Station 400), and scanned at a resolution of 3 μm in a confocal scanner (Affymetrix GeneArray Scanner).

    Article Title: Effect of the human cytomegalovirus IE86 protein on expression of E2F-responsive genes: A DNA microarray analysis
    Article Snippet: Paragraph title: DNA Microarray. ... The DNA microarrays were scanned using a confocal scanner (Affymetrix Molecular Dynamics).

    Article Title: Evidence-Based Annotation of the Malaria Parasite's Genome Using Comparative Expression Profiling
    Article Snippet: .. Arrays were scanned with an emission wavelength of 560 nm at 3 µm resolution using a confocal scanner (Affymetrix), and the signal intensity for each sequence feature on the array was determined using the 70th percentile method in Microarray Suite 5 (Affymetrix). .. Double amplification methods P. yoelii sporozoite RNA (initial concentration of 100ng) was subjected to a double amplification step, using a modified Eberwine protocol, to obtain eight micrograms of RNA.

    Article Title: High expression of thymidine phosphorylase in basal-like breast cancers: Stromal expression in EGFR- and/or CK5/6-positive breast cancers
    Article Snippet: Details of the oligonucleotide microarray analysis were as previously described ( ). .. The hybridized oligonucleotide microarrays were scanned using a confocal scanner (Affymetrix) and analyzed using Affymetrix software (LIMS 5.0).

    Article Title: Microarray identifies ADAM family members as key responders to TGF-?1 in alveolar epithelial cells
    Article Snippet: RNA extraction and gene array analysis Following stimulation of A549 cells with 10 ng/ml TGF-B1 for 15 mins, 30 mins, 2 hour and 4 hours, RNA isolation, cDNA synthesis, in vitro transcription and microarray analysis were performed as previously reported [ ] and in accordance with Affymetrix protocols(Affymetrix, Santa Clara, California). .. Arrays were scanned with a confocal scanner (Affymetrix).

    Article Title: Lipoxin A4 Modifies Platelet-Derived Growth Factor-Induced Profibrotic Gene Expression in Human Renal Mesangial Cells
    Article Snippet: Paragraph title: Oligonucleotide Microarray Analysis ... Arrays were then fluorescently labeled before scanning with a confocal scanner (Affymetrix).

    Expressing:

    Article Title: Gene Expression Profile in Interleukin-4-Stimulated Human Vascular Endothelial Cells
    Article Snippet: The labeling of RNA samples, human GeneChip (HG-U133A) hybridization, and array scanning were carried out as described earlier ( , ) and according to the Affymetrix GeneChip Expression Analysis Technical Manual. .. The chips were then washed and stained on a fluidics station (Affymetrix GeneChip Fluidics Station 400), and scanned at a resolution of 3 μm in a confocal scanner (Affymetrix GeneArray Scanner).

    Article Title: Effect of the human cytomegalovirus IE86 protein on expression of E2F-responsive genes: A DNA microarray analysis
    Article Snippet: The DNA microarrays were scanned using a confocal scanner (Affymetrix Molecular Dynamics). .. A 4-fold or higher level of activated cellular expression induced by Ad-IE86 compared with Ad-GFP was considered significant.

    Article Title: High expression of thymidine phosphorylase in basal-like breast cancers: Stromal expression in EGFR- and/or CK5/6-positive breast cancers
    Article Snippet: Paragraph title: Evaluation of gene expression ... The hybridized oligonucleotide microarrays were scanned using a confocal scanner (Affymetrix) and analyzed using Affymetrix software (LIMS 5.0).

    Article Title: Gastric peroxisome proliferator activator receptor-? expression and cytoprotective actions of its ligands against ischemia-reperfusion injury in rats
    Article Snippet: The fragmentation, hybridization, washing, and staining were carried out according to the instructions described in the GeneChip Expression Analysis Technical Manual. .. The DNA chips were scanned using a specially designed confocal scanner (GeneChip Scanenr 3000, Affymetrix).

    Derivative Assay:

    Article Title: Microarray identifies ADAM family members as key responders to TGF-?1 in alveolar epithelial cells
    Article Snippet: Arrays were scanned with a confocal scanner (Affymetrix). .. Each RNA sample derived from an individual well and 15 min, 30 min, 2 hour and 4 hour in vitro exposures were microarrayed in duplicate on HU133 Affymetrix chips.

    Hybridization:

    Article Title: Parallel Genotyping of Human SNPs Using Generic High-density Oligonucleotide Tag Arrays
    Article Snippet: Paragraph title: Tag Array Design and Hybridization ... The arrays were scanned on a confocal scanner (Affymetrix) and fluorescence at 530 nm (fluorescein), and 560 nm (phycoerythrin) was collected with a spatial resolution of 60–70 pixels per feature.

    Article Title: Comparison of GenFlex Tag Array and Pyrosequencing in SNP Genotyping
    Article Snippet: Paragraph title: Affymetrix GenFlex Tag Array Hybridization and Washing ... After washing the arrays were scanned on a confocal scanner (Affymetrix) using fluorescence at 530 nm (fluorescein) and 560 nm (phycoerythrin) wavelengths.

    Article Title: Distinct Transcriptome Expression of the Temporal Cortex of the Primate Microcebus murinus during Brain Aging versus Alzheimer's Disease-Like Pathology
    Article Snippet: An average of 2 µg of total RNA from each cortex sample was prepared for hybridization with Affymetrix HG-U133 Plus 2.00 GeneChip (Santa Clara, CA) according to the manufacturer's protocol. .. At the end of the experiment, the hybridized probes were scanned at a resolution of 3 µm in a confocal scanner (Affymetrix GeneChip Scanner 3000 7G).

    Article Title: Gene Expression Profile in Interleukin-4-Stimulated Human Vascular Endothelial Cells
    Article Snippet: The hybridization was run overnight in a rotating oven (Affymetrix GeneChip Hybridization Oven 640) at 45 °C. .. The chips were then washed and stained on a fluidics station (Affymetrix GeneChip Fluidics Station 400), and scanned at a resolution of 3 μm in a confocal scanner (Affymetrix GeneArray Scanner).

    Article Title: Evidence-Based Annotation of the Malaria Parasite's Genome Using Comparative Expression Profiling
    Article Snippet: Hybridizations were carried out with 15 µg of fragmented cRNA at 45°C for 16 hours, then the hybridization solution was removed and the arrays were stained and washed following Affymetrix protocols. .. Arrays were scanned with an emission wavelength of 560 nm at 3 µm resolution using a confocal scanner (Affymetrix), and the signal intensity for each sequence feature on the array was determined using the 70th percentile method in Microarray Suite 5 (Affymetrix).

    Article Title: Gastric peroxisome proliferator activator receptor-? expression and cytoprotective actions of its ligands against ischemia-reperfusion injury in rats
    Article Snippet: Paragraph title: Laser capture microdissection, isolation of RNA, cDNA synthesis, cRNA amplification, and GeneChip hybridization ... The DNA chips were scanned using a specially designed confocal scanner (GeneChip Scanenr 3000, Affymetrix).

    Transfection:

    Article Title: Adenovirus VA RNA-derived miRNAs target cellular genes involved in cell growth, gene expression and DNA repair
    Article Snippet: Microarray analysis RNA isolated from cells mock transfected or transfected with pAdvantage and collected 3 days posttransfection was processed as recommended by Affymetrix. .. The arrays were washed, stained, and scanned by using a confocal scanner (Affymetrix).

    Infection:

    Article Title: Cellular gene expression altered by human cytomegalovirus: Global monitoring with oligonucleotide arrays
    Article Snippet: Under these conditions, HCMV DNA replication begins between 24 and 36 h after infection , and the complete viral replication cycle requires ≈72 h. So, all of the time points assayed were relatively early in the HCMV replication cycle. .. The intensity of the fluorescent signal within each feature then was quantified by using a confocal scanner (Affymetrix).

    Generated:

    Article Title: Cellular gene expression altered by human cytomegalovirus: Global monitoring with oligonucleotide arrays
    Article Snippet: Biotinylated RNA target samples were generated by in vitro transcription of cDNA that was prepared from cellular mRNA by using an oligo(dT) primer with a T7 polymerase promoter at its 5′ end. .. The intensity of the fluorescent signal within each feature then was quantified by using a confocal scanner (Affymetrix).

    Sequencing:

    Article Title: Adenovirus VA RNA-derived miRNAs target cellular genes involved in cell growth, gene expression and DNA repair
    Article Snippet: After column cleanup of the RNA with Qiagen Rneasy, cDNA was synthesized by using an oligo(dT) primer attached to a sequence of the T7 promoter region. .. The arrays were washed, stained, and scanned by using a confocal scanner (Affymetrix).

    Article Title: Evidence-Based Annotation of the Malaria Parasite's Genome Using Comparative Expression Profiling
    Article Snippet: .. Arrays were scanned with an emission wavelength of 560 nm at 3 µm resolution using a confocal scanner (Affymetrix), and the signal intensity for each sequence feature on the array was determined using the 70th percentile method in Microarray Suite 5 (Affymetrix). .. Double amplification methods P. yoelii sporozoite RNA (initial concentration of 100ng) was subjected to a double amplification step, using a modified Eberwine protocol, to obtain eight micrograms of RNA.

    Injection:

    Article Title: Comparison of GenFlex Tag Array and Pyrosequencing in SNP Genotyping
    Article Snippet: After denaturation, the detection primer solution was then injected into the array and hybridized for 3 hours at 42°C. .. After washing the arrays were scanned on a confocal scanner (Affymetrix) using fluorescence at 530 nm (fluorescein) and 560 nm (phycoerythrin) wavelengths.

    Fluorescence:

    Article Title: Parallel Genotyping of Human SNPs Using Generic High-density Oligonucleotide Tag Arrays
    Article Snippet: .. The arrays were scanned on a confocal scanner (Affymetrix) and fluorescence at 530 nm (fluorescein), and 560 nm (phycoerythrin) was collected with a spatial resolution of 60–70 pixels per feature. .. GeneChip software (Affymetrix) was used to convert image files into digitized files for further data analysis.

    Article Title: Comparison of GenFlex Tag Array and Pyrosequencing in SNP Genotyping
    Article Snippet: .. After washing the arrays were scanned on a confocal scanner (Affymetrix) using fluorescence at 530 nm (fluorescein) and 560 nm (phycoerythrin) wavelengths. .. For a given marker position, the fluorescence intensity of each of the two signals (fluorescein and phycoerythrin) was corrected for background and nonspecific hybridization by subtracting the intensity of the mismatch cell (MM) from that of the perfect match cell (PM).

    Isolation:

    Article Title: Adenovirus VA RNA-derived miRNAs target cellular genes involved in cell growth, gene expression and DNA repair
    Article Snippet: Microarray analysis RNA isolated from cells mock transfected or transfected with pAdvantage and collected 3 days posttransfection was processed as recommended by Affymetrix. .. The arrays were washed, stained, and scanned by using a confocal scanner (Affymetrix).

    Article Title: Distinct Transcriptome Expression of the Temporal Cortex of the Primate Microcebus murinus during Brain Aging versus Alzheimer's Disease-Like Pathology
    Article Snippet: Paragraph title: RNA isolation and Affymetrix GeneChip processing ... At the end of the experiment, the hybridized probes were scanned at a resolution of 3 µm in a confocal scanner (Affymetrix GeneChip Scanner 3000 7G).

    Article Title: Gene Expression Profile in Interleukin-4-Stimulated Human Vascular Endothelial Cells
    Article Snippet: Paragraph title: RNA isolation and GeneChip microarray processing. ... The chips were then washed and stained on a fluidics station (Affymetrix GeneChip Fluidics Station 400), and scanned at a resolution of 3 μm in a confocal scanner (Affymetrix GeneArray Scanner).

    Article Title: Gastric peroxisome proliferator activator receptor-? expression and cytoprotective actions of its ligands against ischemia-reperfusion injury in rats
    Article Snippet: Paragraph title: Laser capture microdissection, isolation of RNA, cDNA synthesis, cRNA amplification, and GeneChip hybridization ... The DNA chips were scanned using a specially designed confocal scanner (GeneChip Scanenr 3000, Affymetrix).

    Article Title: Microarray identifies ADAM family members as key responders to TGF-?1 in alveolar epithelial cells
    Article Snippet: RNA extraction and gene array analysis Following stimulation of A549 cells with 10 ng/ml TGF-B1 for 15 mins, 30 mins, 2 hour and 4 hours, RNA isolation, cDNA synthesis, in vitro transcription and microarray analysis were performed as previously reported [ ] and in accordance with Affymetrix protocols(Affymetrix, Santa Clara, California). .. Arrays were scanned with a confocal scanner (Affymetrix).

    Article Title: Lipoxin A4 Modifies Platelet-Derived Growth Factor-Induced Profibrotic Gene Expression in Human Renal Mesangial Cells
    Article Snippet: RNA from three independent experiments was pooled after isolation using lysis buffer, in accordance with the Qiagen minicolumn preparation (Qiagen, Valencia, CA). .. Arrays were then fluorescently labeled before scanning with a confocal scanner (Affymetrix).

    Size-exclusion Chromatography:

    Article Title: Parallel Genotyping of Human SNPs Using Generic High-density Oligonucleotide Tag Arrays
    Article Snippet: After hybridization, the arrays were rinsed twice with 1× SSPE-T for ∼10 sec at room temperature, then washed with 1× SSPE-T for 15–20 minutes at 40°C on a rotisserie at 40 RPM. .. The arrays were scanned on a confocal scanner (Affymetrix) and fluorescence at 530 nm (fluorescein), and 560 nm (phycoerythrin) was collected with a spatial resolution of 60–70 pixels per feature.

    Labeling:

    Article Title: Adenovirus VA RNA-derived miRNAs target cellular genes involved in cell growth, gene expression and DNA repair
    Article Snippet: Labeled RNA was purified, quantified spectrophotometrically, fragmented and hybridized to the Affymetrix Human Genome U133 Plus 2.0. .. The arrays were washed, stained, and scanned by using a confocal scanner (Affymetrix).

    Article Title: Gene Expression Profile in Interleukin-4-Stimulated Human Vascular Endothelial Cells
    Article Snippet: The labeling of RNA samples, human GeneChip (HG-U133A) hybridization, and array scanning were carried out as described earlier ( , ) and according to the Affymetrix GeneChip Expression Analysis Technical Manual. .. The chips were then washed and stained on a fluidics station (Affymetrix GeneChip Fluidics Station 400), and scanned at a resolution of 3 μm in a confocal scanner (Affymetrix GeneArray Scanner).

    Article Title: Effect of the human cytomegalovirus IE86 protein on expression of E2F-responsive genes: A DNA microarray analysis
    Article Snippet: Biotin-labeled cRNA was synthesized from cDNA by using ENZO BioArray High Yield RNA Transcript Labeling Kit (Enzo Diagnostics). cRNA was fragmented to an average size of 50–100 nucleotides by incubating at 94°C for 35 min in 40 mM Tris-acetate (pH 8.1) containing 100 mM potassium acetate and 30 mM magnesium acetate, and then hybridized to human GENECHIP arrays (Human Genome U95A, Affymetrix) containing approximately 12,000 human genes. .. The DNA microarrays were scanned using a confocal scanner (Affymetrix Molecular Dynamics).

    Article Title: Evidence-Based Annotation of the Malaria Parasite's Genome Using Comparative Expression Profiling
    Article Snippet: The labeled cRNA was then fragmented, hybridized to the array, and stained with a streptavidin phycoerythrin conjugate. .. Arrays were scanned with an emission wavelength of 560 nm at 3 µm resolution using a confocal scanner (Affymetrix), and the signal intensity for each sequence feature on the array was determined using the 70th percentile method in Microarray Suite 5 (Affymetrix).

    Article Title: Gastric peroxisome proliferator activator receptor-? expression and cytoprotective actions of its ligands against ischemia-reperfusion injury in rats
    Article Snippet: Using this protocol, we succeeded in obtaining a sufficient amount of biotinylated cRNA to perform the GeneChip analysis from the small amount of gastric epithelial cells obtained by laser captured microdissection. Labeled cRNA target was cleaned up using RNeasy columns. .. The DNA chips were scanned using a specially designed confocal scanner (GeneChip Scanenr 3000, Affymetrix).

    Article Title: Lipoxin A4 Modifies Platelet-Derived Growth Factor-Induced Profibrotic Gene Expression in Human Renal Mesangial Cells
    Article Snippet: .. Arrays were then fluorescently labeled before scanning with a confocal scanner (Affymetrix). .. Image files were obtained through Affymetrix GeneChip software (MAS5).

    Purification:

    Article Title: Adenovirus VA RNA-derived miRNAs target cellular genes involved in cell growth, gene expression and DNA repair
    Article Snippet: Labeled RNA was purified, quantified spectrophotometrically, fragmented and hybridized to the Affymetrix Human Genome U133 Plus 2.0. .. The arrays were washed, stained, and scanned by using a confocal scanner (Affymetrix).

    Article Title: Distinct Transcriptome Expression of the Temporal Cortex of the Primate Microcebus murinus during Brain Aging versus Alzheimer's Disease-Like Pathology
    Article Snippet: The quality of each purified RNA sample was checked with a NanoDrop Agilent BioAnalyzer (Agilent Technologies, Santa Clara, CA). .. At the end of the experiment, the hybridized probes were scanned at a resolution of 3 µm in a confocal scanner (Affymetrix GeneChip Scanner 3000 7G).

    Article Title: Gene Expression Profile in Interleukin-4-Stimulated Human Vascular Endothelial Cells
    Article Snippet: HUVEC were either untreated or treated with 10 ng/mL of IL-4 for 4 h. Total RNA was isolated and purified using RNeasy Mini Kit (Qiagen, Valencia, CA, USA) following the manufacturer’s protocols. .. The chips were then washed and stained on a fluidics station (Affymetrix GeneChip Fluidics Station 400), and scanned at a resolution of 3 μm in a confocal scanner (Affymetrix GeneArray Scanner).

    Staining:

    Article Title: Parallel Genotyping of Human SNPs Using Generic High-density Oligonucleotide Tag Arrays
    Article Snippet: After staining, the arrays were washed 10 times with 6× SSPET on the fluidics station at 22°C. .. The arrays were scanned on a confocal scanner (Affymetrix) and fluorescence at 530 nm (fluorescein), and 560 nm (phycoerythrin) was collected with a spatial resolution of 60–70 pixels per feature.

    Article Title: Adenovirus VA RNA-derived miRNAs target cellular genes involved in cell growth, gene expression and DNA repair
    Article Snippet: .. The arrays were washed, stained, and scanned by using a confocal scanner (Affymetrix). .. Finally, the results were analyzed with GeneChip Operating Software (GCOS, Affymetrix).

    Article Title: Comparison of GenFlex Tag Array and Pyrosequencing in SNP Genotyping
    Article Snippet: After washing, the chip was stained with phycoerythrin conjugated streptavidin (SAPE) (Molecular Probes, Eugene, OR): 100 μl 6X SSPE-T, 2.5 μl BSA, 0.3 μl SAPE (1 mg/μl), and 0.3 μl cold streptavidin. .. After washing the arrays were scanned on a confocal scanner (Affymetrix) using fluorescence at 530 nm (fluorescein) and 560 nm (phycoerythrin) wavelengths.

    Article Title: Gene Expression Profile in Interleukin-4-Stimulated Human Vascular Endothelial Cells
    Article Snippet: .. The chips were then washed and stained on a fluidics station (Affymetrix GeneChip Fluidics Station 400), and scanned at a resolution of 3 μm in a confocal scanner (Affymetrix GeneArray Scanner). .. The gene expression levels of samples were analyzed using the Affymetrix Microarray Suite software according to the manufacturer’s recommendation.

    Article Title: Evidence-Based Annotation of the Malaria Parasite's Genome Using Comparative Expression Profiling
    Article Snippet: Hybridizations were carried out with 15 µg of fragmented cRNA at 45°C for 16 hours, then the hybridization solution was removed and the arrays were stained and washed following Affymetrix protocols. .. Arrays were scanned with an emission wavelength of 560 nm at 3 µm resolution using a confocal scanner (Affymetrix), and the signal intensity for each sequence feature on the array was determined using the 70th percentile method in Microarray Suite 5 (Affymetrix).

    Article Title: Gastric peroxisome proliferator activator receptor-? expression and cytoprotective actions of its ligands against ischemia-reperfusion injury in rats
    Article Snippet: After washing the arrays, hybridized RNA was detected by staining with streptavidin-phycoery-thrin. .. The DNA chips were scanned using a specially designed confocal scanner (GeneChip Scanenr 3000, Affymetrix).

    Chromatin Immunoprecipitation:

    Article Title: Comparison of GenFlex Tag Array and Pyrosequencing in SNP Genotyping
    Article Snippet: After washing, the chip was stained with phycoerythrin conjugated streptavidin (SAPE) (Molecular Probes, Eugene, OR): 100 μl 6X SSPE-T, 2.5 μl BSA, 0.3 μl SAPE (1 mg/μl), and 0.3 μl cold streptavidin. .. After washing the arrays were scanned on a confocal scanner (Affymetrix) using fluorescence at 530 nm (fluorescein) and 560 nm (phycoerythrin) wavelengths.

    Article Title: Gene Expression Profile in Interleukin-4-Stimulated Human Vascular Endothelial Cells
    Article Snippet: Briefly, an average yield of 40 μg of biotin-labeled cRNA target was obtained from 5 μg of total RNA from each sample, of which 20 μg of cRNA was applied to 1 gene chip. .. The chips were then washed and stained on a fluidics station (Affymetrix GeneChip Fluidics Station 400), and scanned at a resolution of 3 μm in a confocal scanner (Affymetrix GeneArray Scanner).

    Software:

    Article Title: Parallel Genotyping of Human SNPs Using Generic High-density Oligonucleotide Tag Arrays
    Article Snippet: The arrays were scanned on a confocal scanner (Affymetrix) and fluorescence at 530 nm (fluorescein), and 560 nm (phycoerythrin) was collected with a spatial resolution of 60–70 pixels per feature. .. GeneChip software (Affymetrix) was used to convert image files into digitized files for further data analysis.

    Article Title: Adenovirus VA RNA-derived miRNAs target cellular genes involved in cell growth, gene expression and DNA repair
    Article Snippet: The arrays were washed, stained, and scanned by using a confocal scanner (Affymetrix). .. Finally, the results were analyzed with GeneChip Operating Software (GCOS, Affymetrix).

    Article Title: Effect of the human cytomegalovirus IE86 protein on expression of E2F-responsive genes: A DNA microarray analysis
    Article Snippet: The DNA microarrays were scanned using a confocal scanner (Affymetrix Molecular Dynamics). .. The data were processed for average difference values by using GENECHIP software (Affymetrix).

    Article Title: High expression of thymidine phosphorylase in basal-like breast cancers: Stromal expression in EGFR- and/or CK5/6-positive breast cancers
    Article Snippet: .. The hybridized oligonucleotide microarrays were scanned using a confocal scanner (Affymetrix) and analyzed using Affymetrix software (LIMS 5.0). ..

    Article Title: Microarray identifies ADAM family members as key responders to TGF-?1 in alveolar epithelial cells
    Article Snippet: Arrays were scanned with a confocal scanner (Affymetrix). .. Image files were obtained through Affymetrix GeneChip software (MAS5) and subsequently robust multichip analysis (RMA) was performed.

    RNA Extraction:

    Article Title: Evidence-Based Annotation of the Malaria Parasite's Genome Using Comparative Expression Profiling
    Article Snippet: Paragraph title: RNA extraction and preparation of cRNA hybridizations on array ... Arrays were scanned with an emission wavelength of 560 nm at 3 µm resolution using a confocal scanner (Affymetrix), and the signal intensity for each sequence feature on the array was determined using the 70th percentile method in Microarray Suite 5 (Affymetrix).

    Article Title: Microarray identifies ADAM family members as key responders to TGF-?1 in alveolar epithelial cells
    Article Snippet: Paragraph title: RNA extraction and gene array analysis ... Arrays were scanned with a confocal scanner (Affymetrix).

    In Vitro:

    Article Title: Adenovirus VA RNA-derived miRNAs target cellular genes involved in cell growth, gene expression and DNA repair
    Article Snippet: This cDNA was then used to perform in vitro transcription with bacteriophage T7 RNA polymerase and biotin-labeled nucleotides from the IVT Labeling kit (Affymetrix). .. The arrays were washed, stained, and scanned by using a confocal scanner (Affymetrix).

    Article Title: Cellular gene expression altered by human cytomegalovirus: Global monitoring with oligonucleotide arrays
    Article Snippet: Biotinylated RNA target samples were generated by in vitro transcription of cDNA that was prepared from cellular mRNA by using an oligo(dT) primer with a T7 polymerase promoter at its 5′ end. .. The intensity of the fluorescent signal within each feature then was quantified by using a confocal scanner (Affymetrix).

    Article Title: Evidence-Based Annotation of the Malaria Parasite's Genome Using Comparative Expression Profiling
    Article Snippet: A second strand of cDNA was then synthesized and used as a template for in vitro transcription in the presence of biotinylated ribonucleotide (Enzo). .. Arrays were scanned with an emission wavelength of 560 nm at 3 µm resolution using a confocal scanner (Affymetrix), and the signal intensity for each sequence feature on the array was determined using the 70th percentile method in Microarray Suite 5 (Affymetrix).

    Article Title: High expression of thymidine phosphorylase in basal-like breast cancers: Stromal expression in EGFR- and/or CK5/6-positive breast cancers
    Article Snippet: Biotin-labeled cRNA was synthesized from cDNA using a MegaScript In Vitro Transcript Kit (Ambion, Austin, TX, USA), and then hybridized to human U95Av2 GeneChip® (Affymetrix, Santa Clara, CA, USA). .. The hybridized oligonucleotide microarrays were scanned using a confocal scanner (Affymetrix) and analyzed using Affymetrix software (LIMS 5.0).

    Article Title: Microarray identifies ADAM family members as key responders to TGF-?1 in alveolar epithelial cells
    Article Snippet: RNA extraction and gene array analysis Following stimulation of A549 cells with 10 ng/ml TGF-B1 for 15 mins, 30 mins, 2 hour and 4 hours, RNA isolation, cDNA synthesis, in vitro transcription and microarray analysis were performed as previously reported [ ] and in accordance with Affymetrix protocols(Affymetrix, Santa Clara, California). .. Arrays were scanned with a confocal scanner (Affymetrix).

    Article Title: Lipoxin A4 Modifies Platelet-Derived Growth Factor-Induced Profibrotic Gene Expression in Human Renal Mesangial Cells
    Article Snippet: Complementary DNA (cDNA) synthesis, in vitro transcription, and microarray analysis were performed as we have previously reported. .. Arrays were then fluorescently labeled before scanning with a confocal scanner (Affymetrix).

    Laser Capture Microdissection:

    Article Title: Gastric peroxisome proliferator activator receptor-? expression and cytoprotective actions of its ligands against ischemia-reperfusion injury in rats
    Article Snippet: Paragraph title: Laser capture microdissection, isolation of RNA, cDNA synthesis, cRNA amplification, and GeneChip hybridization ... The DNA chips were scanned using a specially designed confocal scanner (GeneChip Scanenr 3000, Affymetrix).

    Concentration Assay:

    Article Title: Cellular gene expression altered by human cytomegalovirus: Global monitoring with oligonucleotide arrays
    Article Snippet: The intensity of the fluorescent signal within each feature then was quantified by using a confocal scanner (Affymetrix). .. Previous studies have demonstrated that the fluorescent signal is linearly related to the concentration of RNA target within the range of ≈1 (1 part in 300,000) to nearly 103 copies of RNA per cell ( ).

    Lysis:

    Article Title: Lipoxin A4 Modifies Platelet-Derived Growth Factor-Induced Profibrotic Gene Expression in Human Renal Mesangial Cells
    Article Snippet: RNA from three independent experiments was pooled after isolation using lysis buffer, in accordance with the Qiagen minicolumn preparation (Qiagen, Valencia, CA). .. Arrays were then fluorescently labeled before scanning with a confocal scanner (Affymetrix).

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    Thermo Fisher confocal microscopy
    Confocal Microscopy, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 98/100, based on 4 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/confocal microscopy/product/Thermo Fisher
    Average 98 stars, based on 4 article reviews
    Price from $9.99 to $1999.99
    confocal microscopy - by Bioz Stars, 2020-04
    98/100 stars
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