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Agilent technologies cy5 labeled crna
Cy5 Labeled Crna, supplied by Agilent technologies, used in various techniques. Bioz Stars score: 99/100, based on 79 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/result/cy5 labeled crna/product/Agilent technologies
Average 99 stars, based on 79 article reviews
Price from $9.99 to $1999.99
cy5 labeled crna - by Bioz Stars, 2020-01
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Related Articles

Hybridization:

Article Title: Gene Expression Profiling of Gastric Cancer
Article Snippet: .. Hybridization, scanning and data analysis Fragmented Cy3-labeled cRNA of the control sample was mixed with equal amounts of Cy5-labeled cRNA from the gastric tumor sample and the mixtures hybridized onto 44K whole human genome DNA microarrays (G4112F, 4x44K, Agilent Technologies) for 17 hrs at 65°C with constant rotation (10 rpm). .. The slides were scanned using an Agilent microarray scanner (G2505B), and the images processed and analyzed using the Agilent feature extraction software AFE 9.5.

Article Title: Fine regulation of ARF17 for anther development and pollen formation
Article Snippet: .. According to the manufacturer’s instructions, each 44-K Arabidopsis oligo microarray slide was hybridized with 825 ng of Cy3-labeled cRNA and 825 ng of Cy5-labeled cRNA using a gene expression hybridization kit (Agilent) in a hybridization oven (Agilent). .. The slides were scanned using an Agilent Microarray Scanner (Agilent) and Feature Extraction software 10.7 (Agilent) with the default settings.

Article Title: Genome mapping and expression analyses of human intronic noncoding RNAs reveal tissue-specific patterns and enrichment in genes related to regulation of transcription
Article Snippet: .. Hybridization of 750 ng each of Cy3- and Cy5-labeled cRNA was performed with an Agilent in situ Hybridization kit-plus, as recommended by the manufacturer, using a total of six 44 k intron-exon expression oligoarrays. .. Slides were washed and processed according to the Agilent 60-mer Oligo Microarray Processing protocol and scanned on a GenePix 4000B scanner (Molecular Devices, Sunnyvale, CA, USA).

Article Title: Transcriptomic analysis of insecticide resistance in the lymphatic filariasis vector Culex quinquefasciatus
Article Snippet: .. Before hybridization, 300 ng of Cy3 and Cy5 labeled cRNA was fragmented using the gene expression hybridization kit (Agilent) in a total volume of 25 µl including 5 µl of 10x blocking agent and 1 µl of 25x fragmentation buffer. .. The fragmentation reaction was incubated at 60 °C for 30 min, then chilled on ice for 2 min before addition of 25 µl of 2 x GE hybridization buffer Hi-RPM.

Article Title: Transcriptomic responses to emamectin benzoate in Pacific and Atlantic Canada salmon lice Lepeophtheirus salmonis with differing levels of drug resistance
Article Snippet: .. cDNA preparation and microarray hybridization For each sample, 825 ng of total RNA was amplified to Cy5-labeled cRNA using the Low-Input Quick Amp system (Agilent; v6.5, Santa Clara, CA, USA). .. A Cy3-cRNA reference pool used to hybridize alongside samples (Churchill ) was generated for the Pacific and Atlantic lice experiments, ensuring the inclusion of at least one individual from all experimental conditions.

Article Title: S100A8 and S100A9 Are Associated with Doxorubicin-Induced Cardiotoxicity in the Heart of Diabetic Mice
Article Snippet: In the present study, our RNA samples used for array hybridization showed satisfactory integrity with intact bands corresponding to 18 and 28 S ribosomal RNA and the RNA Integrity Number (RIN) was > 7. .. Five hundred nanograms of Cy3-labeled and Cy5-labeled cRNA were mixed and incubated with the Agilent microarray slide (G2519F) for 17 h at 65°C in the dark.

Article Title: High-Throughput Analysis of Promoter Occupancy Reveals New Targets for Arx, a Gene Mutated in Mental Retardation and Interneuronopathies
Article Snippet: An equal amount (825 ng) of Cy3 and Cy5 labeled cRNA probes were hybridized on Mouse Gene Expression 4×44 K V2 microarray (Agilent Technologies). .. Hybridization images were obtained using an Agilent DNA microarray scanner and intensity data was extracted using Feature Extraction software (Agilent Technologies).

Article Title: Brother of the regulator of the imprinted site (BORIS) variant subfamily 6 is involved in cervical cancer stemness and can be a target of immunotherapy
Article Snippet: .. Cy3-labeled cRNA and Cy5-labeled cRNA were combined and then fragmented in a gene expression hybridization kit (Agilent Technologies). .. Then the labeled cRNAs were hybridized to a 60-mer probe oligonucleotide microarray (G4845A human GE 4x44K V2 Microarray kit) and incubated for 20 hours at 50°C.

Article Title: Identification of Prognostic Genes for Recurrent Risk Prediction in Triple Negative Breast Cancer Patients in Taiwan
Article Snippet: Total RNA (500 ng) was first reverse transcribed into cDNA by incorporating a T7 oligo-dT promoter primer prior to the generation of fluorescent Cy5-labeled cRNA using an Agilent Quick Amp Labeling Kit (Agilent Technologies). .. Cy3- (reference) and Cy5-labeled (sample) cRNAs were co-hybridized to the Agilent Human 1Av2 oligo microarray using a Gene Expression Hybridization Kit (Agilent Technologies).

Article Title: Low SP1 Expression Differentially Affects Intestinal-Type Compared with Diffuse-Type Gastric Adenocarcinoma
Article Snippet: For microarray hybridization, 100 ng RNA from each sample was amplified and labeled with the Cy3 or Cy5 fluorescent dye. .. Equal amounts of Cy3 and Cy5-labeled cRNA were hybridized to an Agilent Human Microarray (G4112F) for 17 h at 65°C.

Article Title: ST6GALNAC1 plays important roles in enhancing cancer stem phenotypes of colorectal cancer via the Akt pathway
Article Snippet: .. Cy3-labeled cRNA and Cy5-labeled cRNA were combined and then fragmented using a gene expression hybridization kit (Agilent Technologies). .. Then the labeled cRNAs were hybridized to a 60-mer probe oligonucleotide microarray (GPL13497 Whole Human Genome Microarray 4 × 44 K V2) and incubated for 20 hours at 50°C.

Article Title: Assessment of in vivo genotoxicity of citrated-coated silver nanoparticles via transcriptomic analysis of rabbit liver tissue
Article Snippet: .. Briefly, 825 ng of the corresponding Cy3- and Cy5-labeled cRNA was combined and hybridized overnight in a 65°C hybridization chamber with a Rabbit Gene Expression Microarray 4×44K (ID G2519F-020908; Agilent Technologies). .. The array was scanned using a DNA microArray scanner (Agilent Technologies), and probe signals were quantified using Feature Extraction software (version 10.2.1.3; Agilent Technologies).

RNA Extraction:

Article Title: Transcriptomic analysis of insecticide resistance in the lymphatic filariasis vector Culex quinquefasciatus
Article Snippet: Paragraph title: RNA extraction, labelling and hybridization ... Before hybridization, 300 ng of Cy3 and Cy5 labeled cRNA was fragmented using the gene expression hybridization kit (Agilent) in a total volume of 25 µl including 5 µl of 10x blocking agent and 1 µl of 25x fragmentation buffer.

Article Title: Microarray analysis of peripheral blood lymphocytes from ALS patients and the SAFE detection of the KEGG ALS pathway
Article Snippet: Paragraph title: RNA extraction, amplification, and dual mode reference design microarrays ... Equal amounts of Cy3 and Cy5-labeled cRNA (825 ng) from two different samples were hybridized to Agilent Human Whole Genome 4 × 44k Microarrays.

Article Title: S100A8 and S100A9 Are Associated with Doxorubicin-Induced Cardiotoxicity in the Heart of Diabetic Mice
Article Snippet: Paragraph title: RNA extraction and microarray analysis ... Five hundred nanograms of Cy3-labeled and Cy5-labeled cRNA were mixed and incubated with the Agilent microarray slide (G2519F) for 17 h at 65°C in the dark.

Amplification:

Article Title: Fine regulation of ARF17 for anther development and pollen formation
Article Snippet: A Low-RNA-Input Linear Amplification Kit (Agilent Technologies) was used to amplify and label the total RNA. .. According to the manufacturer’s instructions, each 44-K Arabidopsis oligo microarray slide was hybridized with 825 ng of Cy3-labeled cRNA and 825 ng of Cy5-labeled cRNA using a gene expression hybridization kit (Agilent) in a hybridization oven (Agilent).

Article Title: Genome mapping and expression analyses of human intronic noncoding RNAs reveal tissue-specific patterns and enrichment in genes related to regulation of transcription
Article Snippet: For LNCaP cell line samples (mock-treated or α-amanitin-treated cells), 500 ng total RNA was used and a control in vitro synthesized mRNA (Agilent RNA Spike-In kit) was spiked into the amplification and labeling assay. .. Hybridization of 750 ng each of Cy3- and Cy5-labeled cRNA was performed with an Agilent in situ Hybridization kit-plus, as recommended by the manufacturer, using a total of six 44 k intron-exon expression oligoarrays.

Article Title: Microarray analysis of peripheral blood lymphocytes from ALS patients and the SAFE detection of the KEGG ALS pathway
Article Snippet: Paragraph title: RNA extraction, amplification, and dual mode reference design microarrays ... Equal amounts of Cy3 and Cy5-labeled cRNA (825 ng) from two different samples were hybridized to Agilent Human Whole Genome 4 × 44k Microarrays.

Article Title: Transcriptomic responses to emamectin benzoate in Pacific and Atlantic Canada salmon lice Lepeophtheirus salmonis with differing levels of drug resistance
Article Snippet: .. cDNA preparation and microarray hybridization For each sample, 825 ng of total RNA was amplified to Cy5-labeled cRNA using the Low-Input Quick Amp system (Agilent; v6.5, Santa Clara, CA, USA). .. A Cy3-cRNA reference pool used to hybridize alongside samples (Churchill ) was generated for the Pacific and Atlantic lice experiments, ensuring the inclusion of at least one individual from all experimental conditions.

Article Title: p53 Contributes to Differentiating Gene Expression Following Exposure to Acetaminophen and Its Less Hepatotoxic Regioisomer Both In Vitro and In Vivo
Article Snippet: Total RNA from individual mouse liver samples was amplified and labeled with a fluorescent dye (Cy3), whereas a common reference of pooled C57BL/6 J liver mRNA was amplified and labeled with Cy5 using Agilent Technologies Low RNA Input Linear Amplification Labeling Kit following the manufacturer’s protocol. .. Equal amounts of Cy3 and Cy5-labeled cRNA were hybridized to an Agilent Mouse Oligonucleotide Microarray (~21,000 features, catalog # G4121) and scanned using an Agilent G2565BA scanner.

Article Title: Identification of Prognostic Genes for Recurrent Risk Prediction in Triple Negative Breast Cancer Patients in Taiwan
Article Snippet: Paragraph title: Isolation and amplification of total RNA for gene expression profiling ... Total RNA (500 ng) was first reverse transcribed into cDNA by incorporating a T7 oligo-dT promoter primer prior to the generation of fluorescent Cy5-labeled cRNA using an Agilent Quick Amp Labeling Kit (Agilent Technologies).

Article Title: Low SP1 Expression Differentially Affects Intestinal-Type Compared with Diffuse-Type Gastric Adenocarcinoma
Article Snippet: For microarray hybridization, 100 ng RNA from each sample was amplified and labeled with the Cy3 or Cy5 fluorescent dye. .. Equal amounts of Cy3 and Cy5-labeled cRNA were hybridized to an Agilent Human Microarray (G4112F) for 17 h at 65°C.

Article Title: Gene expression response in target organ and whole blood varies as a function of target organ injury phenotype
Article Snippet: For microarray hybridizations performed on the Agilent platform, 1 μg of total RNA from the left liver lobe or whole blood from either an individual rat or a pooled sample representing time-matched, vehicle control animals was amplified and labeled with a fluorescent dye (either Cy3 or Cy5) using the Low RNA Input Linear Amplification Labeling kit (Agilent Technologies, Palo Alto, CA, USA) following the manufacturer's protocol. .. Equal amounts of Cy3- or Cy5-labeled cRNA were hybridized to the Agilent Rat Oligo Microarray (Agilent Technologies) for 17 hours, prior to washing and scanning.

Article Title: Assessment of in vivo genotoxicity of citrated-coated silver nanoparticles via transcriptomic analysis of rabbit liver tissue
Article Snippet: Total RNA (1 µg) was used for amplification and labeling using the Low Input Quick Amp Labeling Kit (Agilent Technologies) as described by the manufacturer. .. Briefly, 825 ng of the corresponding Cy3- and Cy5-labeled cRNA was combined and hybridized overnight in a 65°C hybridization chamber with a Rabbit Gene Expression Microarray 4×44K (ID G2519F-020908; Agilent Technologies).

Incubation:

Article Title: Transcriptomic analysis of insecticide resistance in the lymphatic filariasis vector Culex quinquefasciatus
Article Snippet: Before hybridization, 300 ng of Cy3 and Cy5 labeled cRNA was fragmented using the gene expression hybridization kit (Agilent) in a total volume of 25 µl including 5 µl of 10x blocking agent and 1 µl of 25x fragmentation buffer. .. The fragmentation reaction was incubated at 60 °C for 30 min, then chilled on ice for 2 min before addition of 25 µl of 2 x GE hybridization buffer Hi-RPM.

Article Title: S100A8 and S100A9 Are Associated with Doxorubicin-Induced Cardiotoxicity in the Heart of Diabetic Mice
Article Snippet: .. Five hundred nanograms of Cy3-labeled and Cy5-labeled cRNA were mixed and incubated with the Agilent microarray slide (G2519F) for 17 h at 65°C in the dark. .. Slide was washed and scanned using an Agilent DNA microarray scanner.

Article Title: Brother of the regulator of the imprinted site (BORIS) variant subfamily 6 is involved in cervical cancer stemness and can be a target of immunotherapy
Article Snippet: Cy3-labeled cRNA and Cy5-labeled cRNA were combined and then fragmented in a gene expression hybridization kit (Agilent Technologies). .. Then the labeled cRNAs were hybridized to a 60-mer probe oligonucleotide microarray (G4845A human GE 4x44K V2 Microarray kit) and incubated for 20 hours at 50°C.

Article Title: ST6GALNAC1 plays important roles in enhancing cancer stem phenotypes of colorectal cancer via the Akt pathway
Article Snippet: Cy3-labeled cRNA and Cy5-labeled cRNA were combined and then fragmented using a gene expression hybridization kit (Agilent Technologies). .. Then the labeled cRNAs were hybridized to a 60-mer probe oligonucleotide microarray (GPL13497 Whole Human Genome Microarray 4 × 44 K V2) and incubated for 20 hours at 50°C.

In Vitro:

Article Title: Genome mapping and expression analyses of human intronic noncoding RNAs reveal tissue-specific patterns and enrichment in genes related to regulation of transcription
Article Snippet: For LNCaP cell line samples (mock-treated or α-amanitin-treated cells), 500 ng total RNA was used and a control in vitro synthesized mRNA (Agilent RNA Spike-In kit) was spiked into the amplification and labeling assay. .. Hybridization of 750 ng each of Cy3- and Cy5-labeled cRNA was performed with an Agilent in situ Hybridization kit-plus, as recommended by the manufacturer, using a total of six 44 k intron-exon expression oligoarrays.

Synthesized:

Article Title: Genome mapping and expression analyses of human intronic noncoding RNAs reveal tissue-specific patterns and enrichment in genes related to regulation of transcription
Article Snippet: For LNCaP cell line samples (mock-treated or α-amanitin-treated cells), 500 ng total RNA was used and a control in vitro synthesized mRNA (Agilent RNA Spike-In kit) was spiked into the amplification and labeling assay. .. Hybridization of 750 ng each of Cy3- and Cy5-labeled cRNA was performed with an Agilent in situ Hybridization kit-plus, as recommended by the manufacturer, using a total of six 44 k intron-exon expression oligoarrays.

Article Title: Brother of the regulator of the imprinted site (BORIS) variant subfamily 6 is involved in cervical cancer stemness and can be a target of immunotherapy
Article Snippet: Then cRNA was synthesized using T7 RNA polymerase, which simultaneously incorporated Cy3- or Cy5-labeled cytidine triphosphate. .. Cy3-labeled cRNA and Cy5-labeled cRNA were combined and then fragmented in a gene expression hybridization kit (Agilent Technologies).

Article Title: ST6GALNAC1 plays important roles in enhancing cancer stem phenotypes of colorectal cancer via the Akt pathway
Article Snippet: We used the commercially available Low Input Quick Amp Labeling Kit (Agilent Technologies), and purified total RNA (3 μg) was reverse-transcribed to generate double-stranded cDNA using an oligo dT T7 promoter primer and reverse transcriptase. cRNA was synthesized using T7 RNA polymerase, which simultaneously incorporated Cy3- or Cy5-labeled cytidine triphosphate. .. Cy3-labeled cRNA and Cy5-labeled cRNA were combined and then fragmented using a gene expression hybridization kit (Agilent Technologies).

Software:

Article Title: Gene Expression Profiling of Gastric Cancer
Article Snippet: Hybridization, scanning and data analysis Fragmented Cy3-labeled cRNA of the control sample was mixed with equal amounts of Cy5-labeled cRNA from the gastric tumor sample and the mixtures hybridized onto 44K whole human genome DNA microarrays (G4112F, 4x44K, Agilent Technologies) for 17 hrs at 65°C with constant rotation (10 rpm). .. The slides were scanned using an Agilent microarray scanner (G2505B), and the images processed and analyzed using the Agilent feature extraction software AFE 9.5.

Article Title: Fine regulation of ARF17 for anther development and pollen formation
Article Snippet: According to the manufacturer’s instructions, each 44-K Arabidopsis oligo microarray slide was hybridized with 825 ng of Cy3-labeled cRNA and 825 ng of Cy5-labeled cRNA using a gene expression hybridization kit (Agilent) in a hybridization oven (Agilent). .. The slides were scanned using an Agilent Microarray Scanner (Agilent) and Feature Extraction software 10.7 (Agilent) with the default settings.

Article Title: Transcriptomic analysis of insecticide resistance in the lymphatic filariasis vector Culex quinquefasciatus
Article Snippet: Before hybridization, 300 ng of Cy3 and Cy5 labeled cRNA was fragmented using the gene expression hybridization kit (Agilent) in a total volume of 25 µl including 5 µl of 10x blocking agent and 1 µl of 25x fragmentation buffer. .. After hybridization, arrays were washed with wash buffers 1 and 2 for 1 min each, followed by acetonitrile for 10 sec and finally fixation solution for 30 sec. Arrays were scanned using the microarray scanner system (Agilent Technologies) and feature extraction performed using Feature Extraction software (Agilent Technologies) according to the manufacturer’s recommendations.

Article Title: S100A8 and S100A9 Are Associated with Doxorubicin-Induced Cardiotoxicity in the Heart of Diabetic Mice
Article Snippet: Five hundred nanograms of Cy3-labeled and Cy5-labeled cRNA were mixed and incubated with the Agilent microarray slide (G2519F) for 17 h at 65°C in the dark. .. Raw data were obtained using Agilent's Feature Extraction 10.7 Software.

Article Title: High-Throughput Analysis of Promoter Occupancy Reveals New Targets for Arx, a Gene Mutated in Mental Retardation and Interneuronopathies
Article Snippet: An equal amount (825 ng) of Cy3 and Cy5 labeled cRNA probes were hybridized on Mouse Gene Expression 4×44 K V2 microarray (Agilent Technologies). .. Hybridization images were obtained using an Agilent DNA microarray scanner and intensity data was extracted using Feature Extraction software (Agilent Technologies).

Article Title: Gene expression response in target organ and whole blood varies as a function of target organ injury phenotype
Article Snippet: Equal amounts of Cy3- or Cy5-labeled cRNA were hybridized to the Agilent Rat Oligo Microarray (Agilent Technologies) for 17 hours, prior to washing and scanning. .. Data were extracted from scanned images using Agilent's Feature Extraction Software (Agilent Technologies).

Article Title: Assessment of in vivo genotoxicity of citrated-coated silver nanoparticles via transcriptomic analysis of rabbit liver tissue
Article Snippet: Briefly, 825 ng of the corresponding Cy3- and Cy5-labeled cRNA was combined and hybridized overnight in a 65°C hybridization chamber with a Rabbit Gene Expression Microarray 4×44K (ID G2519F-020908; Agilent Technologies). .. The array was scanned using a DNA microArray scanner (Agilent Technologies), and probe signals were quantified using Feature Extraction software (version 10.2.1.3; Agilent Technologies).

Isolation:

Article Title: Transcriptomic analysis of insecticide resistance in the lymphatic filariasis vector Culex quinquefasciatus
Article Snippet: RNA extraction, labelling and hybridization Total RNA was isolated from three pools of 10 female mosquitoes for each group using the RNAqueous-4PCR kit (Ambion) according to the manufacturer’s instructions. .. Before hybridization, 300 ng of Cy3 and Cy5 labeled cRNA was fragmented using the gene expression hybridization kit (Agilent) in a total volume of 25 µl including 5 µl of 10x blocking agent and 1 µl of 25x fragmentation buffer.

Article Title: Brother of the regulator of the imprinted site (BORIS) variant subfamily 6 is involved in cervical cancer stemness and can be a target of immunotherapy
Article Snippet: Paragraph title: Total RNA isolation and microarray preparation ... Cy3-labeled cRNA and Cy5-labeled cRNA were combined and then fragmented in a gene expression hybridization kit (Agilent Technologies).

Article Title: Identification of Prognostic Genes for Recurrent Risk Prediction in Triple Negative Breast Cancer Patients in Taiwan
Article Snippet: Paragraph title: Isolation and amplification of total RNA for gene expression profiling ... Total RNA (500 ng) was first reverse transcribed into cDNA by incorporating a T7 oligo-dT promoter primer prior to the generation of fluorescent Cy5-labeled cRNA using an Agilent Quick Amp Labeling Kit (Agilent Technologies).

Article Title: ST6GALNAC1 plays important roles in enhancing cancer stem phenotypes of colorectal cancer via the Akt pathway
Article Snippet: Paragraph title: Total RNA isolation and microarray preparation ... Cy3-labeled cRNA and Cy5-labeled cRNA were combined and then fragmented using a gene expression hybridization kit (Agilent Technologies).

Article Title: Gene expression response in target organ and whole blood varies as a function of target organ injury phenotype
Article Snippet: Paragraph title: RNA isolation and gene expression profiling ... Equal amounts of Cy3- or Cy5-labeled cRNA were hybridized to the Agilent Rat Oligo Microarray (Agilent Technologies) for 17 hours, prior to washing and scanning.

Article Title: Assessment of in vivo genotoxicity of citrated-coated silver nanoparticles via transcriptomic analysis of rabbit liver tissue
Article Snippet: RNA was extracted immediately to avoid any deterioration and was isolated using an RNeasy Mini kit 250 (cat. no 74106; Qiagen NV, Venlo, the Netherlands) following the manufacturer’s recommendations. .. Briefly, 825 ng of the corresponding Cy3- and Cy5-labeled cRNA was combined and hybridized overnight in a 65°C hybridization chamber with a Rabbit Gene Expression Microarray 4×44K (ID G2519F-020908; Agilent Technologies).

Size-exclusion Chromatography:

Article Title: Transcriptomic analysis of insecticide resistance in the lymphatic filariasis vector Culex quinquefasciatus
Article Snippet: Before hybridization, 300 ng of Cy3 and Cy5 labeled cRNA was fragmented using the gene expression hybridization kit (Agilent) in a total volume of 25 µl including 5 µl of 10x blocking agent and 1 µl of 25x fragmentation buffer. .. After hybridization, arrays were washed with wash buffers 1 and 2 for 1 min each, followed by acetonitrile for 10 sec and finally fixation solution for 30 sec. Arrays were scanned using the microarray scanner system (Agilent Technologies) and feature extraction performed using Feature Extraction software (Agilent Technologies) according to the manufacturer’s recommendations.

Spectrophotometry:

Article Title: Transcriptomic analysis of insecticide resistance in the lymphatic filariasis vector Culex quinquefasciatus
Article Snippet: Total RNA quantity was assessed using a Nanodrop spectrophotometer and RNA quality assessed on an Agilent Bioanalyzer. .. Before hybridization, 300 ng of Cy3 and Cy5 labeled cRNA was fragmented using the gene expression hybridization kit (Agilent) in a total volume of 25 µl including 5 µl of 10x blocking agent and 1 µl of 25x fragmentation buffer.

Article Title: Microarray analysis of peripheral blood lymphocytes from ALS patients and the SAFE detection of the KEGG ALS pathway
Article Snippet: The quantity of each of the total RNA samples and determination of the A260/280 nm ratio was determined by spectrophotometry and the size distribution was assessed using an Agilent Bioanalyzer. .. Equal amounts of Cy3 and Cy5-labeled cRNA (825 ng) from two different samples were hybridized to Agilent Human Whole Genome 4 × 44k Microarrays.

Article Title: Low SP1 Expression Differentially Affects Intestinal-Type Compared with Diffuse-Type Gastric Adenocarcinoma
Article Snippet: The quantity and purity of the fluorescently labeled cRNA were evaluated using a NanoDrop ND-1000 UV-Vis Spectrophotometer (Thermo Fisher Scientific, Wilmington, DE). .. Equal amounts of Cy3 and Cy5-labeled cRNA were hybridized to an Agilent Human Microarray (G4112F) for 17 h at 65°C.

Article Title: Gene expression response in target organ and whole blood varies as a function of target organ injury phenotype
Article Snippet: The amount and quality of the fluorescently labeled cRNA was assessed using a NanoDrop ND-1000 spectrophotometer and an Agilent Bioanalyzer. .. Equal amounts of Cy3- or Cy5-labeled cRNA were hybridized to the Agilent Rat Oligo Microarray (Agilent Technologies) for 17 hours, prior to washing and scanning.

Article Title: Assessment of in vivo genotoxicity of citrated-coated silver nanoparticles via transcriptomic analysis of rabbit liver tissue
Article Snippet: Yields of cRNA and the dye-incorporation rate were measured with an ND-1000 spectrophotometer (NanoDrop Technologies, Winooski, VT, USA). .. Briefly, 825 ng of the corresponding Cy3- and Cy5-labeled cRNA was combined and hybridized overnight in a 65°C hybridization chamber with a Rabbit Gene Expression Microarray 4×44K (ID G2519F-020908; Agilent Technologies).

Mouse Assay:

Article Title: S100A8 and S100A9 Are Associated with Doxorubicin-Induced Cardiotoxicity in the Heart of Diabetic Mice
Article Snippet: Samples from the DOX-treated diabetic mice (db/db DOX) were labeled by Cy5 dye (red channel) whereas samples from diabetic control mice (db/db CON) were labeled by Cy3 dye (green channel). .. Five hundred nanograms of Cy3-labeled and Cy5-labeled cRNA were mixed and incubated with the Agilent microarray slide (G2519F) for 17 h at 65°C in the dark.

Article Title: p53 Contributes to Differentiating Gene Expression Following Exposure to Acetaminophen and Its Less Hepatotoxic Regioisomer Both In Vitro and In Vivo
Article Snippet: Briefly, randomly assigned C57BL/6 J mice were dosed with 10 mL/kg body weight of vehicle (methylcellulose, 0.5% wt/vol), AMAP (300 mg/kg), or APAP (300 mg/kg). .. Equal amounts of Cy3 and Cy5-labeled cRNA were hybridized to an Agilent Mouse Oligonucleotide Microarray (~21,000 features, catalog # G4121) and scanned using an Agilent G2565BA scanner.

Microarray:

Article Title: Gene Expression Profiling of Gastric Cancer
Article Snippet: Hybridization, scanning and data analysis Fragmented Cy3-labeled cRNA of the control sample was mixed with equal amounts of Cy5-labeled cRNA from the gastric tumor sample and the mixtures hybridized onto 44K whole human genome DNA microarrays (G4112F, 4x44K, Agilent Technologies) for 17 hrs at 65°C with constant rotation (10 rpm). .. The slides were scanned using an Agilent microarray scanner (G2505B), and the images processed and analyzed using the Agilent feature extraction software AFE 9.5.

Article Title: Fine regulation of ARF17 for anther development and pollen formation
Article Snippet: .. According to the manufacturer’s instructions, each 44-K Arabidopsis oligo microarray slide was hybridized with 825 ng of Cy3-labeled cRNA and 825 ng of Cy5-labeled cRNA using a gene expression hybridization kit (Agilent) in a hybridization oven (Agilent). .. The slides were scanned using an Agilent Microarray Scanner (Agilent) and Feature Extraction software 10.7 (Agilent) with the default settings.

Article Title: Genome mapping and expression analyses of human intronic noncoding RNAs reveal tissue-specific patterns and enrichment in genes related to regulation of transcription
Article Snippet: Paragraph title: Sample labeling and microarray hybridization procedures ... Hybridization of 750 ng each of Cy3- and Cy5-labeled cRNA was performed with an Agilent in situ Hybridization kit-plus, as recommended by the manufacturer, using a total of six 44 k intron-exon expression oligoarrays.

Article Title: Transcriptomic analysis of insecticide resistance in the lymphatic filariasis vector Culex quinquefasciatus
Article Snippet: Before hybridization, 300 ng of Cy3 and Cy5 labeled cRNA was fragmented using the gene expression hybridization kit (Agilent) in a total volume of 25 µl including 5 µl of 10x blocking agent and 1 µl of 25x fragmentation buffer. .. After hybridization, arrays were washed with wash buffers 1 and 2 for 1 min each, followed by acetonitrile for 10 sec and finally fixation solution for 30 sec. Arrays were scanned using the microarray scanner system (Agilent Technologies) and feature extraction performed using Feature Extraction software (Agilent Technologies) according to the manufacturer’s recommendations.

Article Title: Microarray analysis of peripheral blood lymphocytes from ALS patients and the SAFE detection of the KEGG ALS pathway
Article Snippet: Microarray experiments were performed, in which each of the 22 RNA samples (HC and sALS) was co-hybridized with RNA from the HC reference pool that was constituted with equal amounts of each of the 11 RNA samples from healthy controls. .. Equal amounts of Cy3 and Cy5-labeled cRNA (825 ng) from two different samples were hybridized to Agilent Human Whole Genome 4 × 44k Microarrays.

Article Title: Transcriptomic responses to emamectin benzoate in Pacific and Atlantic Canada salmon lice Lepeophtheirus salmonis with differing levels of drug resistance
Article Snippet: .. cDNA preparation and microarray hybridization For each sample, 825 ng of total RNA was amplified to Cy5-labeled cRNA using the Low-Input Quick Amp system (Agilent; v6.5, Santa Clara, CA, USA). .. A Cy3-cRNA reference pool used to hybridize alongside samples (Churchill ) was generated for the Pacific and Atlantic lice experiments, ensuring the inclusion of at least one individual from all experimental conditions.

Article Title: S100A8 and S100A9 Are Associated with Doxorubicin-Induced Cardiotoxicity in the Heart of Diabetic Mice
Article Snippet: .. Five hundred nanograms of Cy3-labeled and Cy5-labeled cRNA were mixed and incubated with the Agilent microarray slide (G2519F) for 17 h at 65°C in the dark. .. Slide was washed and scanned using an Agilent DNA microarray scanner.

Article Title: High-Throughput Analysis of Promoter Occupancy Reveals New Targets for Arx, a Gene Mutated in Mental Retardation and Interneuronopathies
Article Snippet: .. An equal amount (825 ng) of Cy3 and Cy5 labeled cRNA probes were hybridized on Mouse Gene Expression 4×44 K V2 microarray (Agilent Technologies). .. Hybridization images were obtained using an Agilent DNA microarray scanner and intensity data was extracted using Feature Extraction software (Agilent Technologies).

Article Title: Brother of the regulator of the imprinted site (BORIS) variant subfamily 6 is involved in cervical cancer stemness and can be a target of immunotherapy
Article Snippet: Paragraph title: Total RNA isolation and microarray preparation ... Cy3-labeled cRNA and Cy5-labeled cRNA were combined and then fragmented in a gene expression hybridization kit (Agilent Technologies).

Article Title: p53 Contributes to Differentiating Gene Expression Following Exposure to Acetaminophen and Its Less Hepatotoxic Regioisomer Both In Vitro and In Vivo
Article Snippet: .. Equal amounts of Cy3 and Cy5-labeled cRNA were hybridized to an Agilent Mouse Oligonucleotide Microarray (~21,000 features, catalog # G4121) and scanned using an Agilent G2565BA scanner. .. Raw microarray data were processed and analyzed with tools in the Bioconductor software package.

Article Title: Identification of Prognostic Genes for Recurrent Risk Prediction in Triple Negative Breast Cancer Patients in Taiwan
Article Snippet: RNA that had an RNA Integrity Number (RIN) > 7.0 was used for microarray analysis. .. Total RNA (500 ng) was first reverse transcribed into cDNA by incorporating a T7 oligo-dT promoter primer prior to the generation of fluorescent Cy5-labeled cRNA using an Agilent Quick Amp Labeling Kit (Agilent Technologies).

Article Title: Low SP1 Expression Differentially Affects Intestinal-Type Compared with Diffuse-Type Gastric Adenocarcinoma
Article Snippet: .. Equal amounts of Cy3 and Cy5-labeled cRNA were hybridized to an Agilent Human Microarray (G4112F) for 17 h at 65°C. .. Two replicates with dye-swap were performed, and the hybridized microarrays were washed and scanned using an Agilent G2565BA scanner.

Article Title: ST6GALNAC1 plays important roles in enhancing cancer stem phenotypes of colorectal cancer via the Akt pathway
Article Snippet: Paragraph title: Total RNA isolation and microarray preparation ... Cy3-labeled cRNA and Cy5-labeled cRNA were combined and then fragmented using a gene expression hybridization kit (Agilent Technologies).

Article Title: Gene expression response in target organ and whole blood varies as a function of target organ injury phenotype
Article Snippet: .. Equal amounts of Cy3- or Cy5-labeled cRNA were hybridized to the Agilent Rat Oligo Microarray (Agilent Technologies) for 17 hours, prior to washing and scanning. .. Data were extracted from scanned images using Agilent's Feature Extraction Software (Agilent Technologies).

Article Title: Assessment of in vivo genotoxicity of citrated-coated silver nanoparticles via transcriptomic analysis of rabbit liver tissue
Article Snippet: .. Briefly, 825 ng of the corresponding Cy3- and Cy5-labeled cRNA was combined and hybridized overnight in a 65°C hybridization chamber with a Rabbit Gene Expression Microarray 4×44K (ID G2519F-020908; Agilent Technologies). .. The array was scanned using a DNA microArray scanner (Agilent Technologies), and probe signals were quantified using Feature Extraction software (version 10.2.1.3; Agilent Technologies).

Generated:

Article Title: Transcriptomic responses to emamectin benzoate in Pacific and Atlantic Canada salmon lice Lepeophtheirus salmonis with differing levels of drug resistance
Article Snippet: cDNA preparation and microarray hybridization For each sample, 825 ng of total RNA was amplified to Cy5-labeled cRNA using the Low-Input Quick Amp system (Agilent; v6.5, Santa Clara, CA, USA). .. A Cy3-cRNA reference pool used to hybridize alongside samples (Churchill ) was generated for the Pacific and Atlantic lice experiments, ensuring the inclusion of at least one individual from all experimental conditions.

Cell Culture:

Article Title: Brother of the regulator of the imprinted site (BORIS) variant subfamily 6 is involved in cervical cancer stemness and can be a target of immunotherapy
Article Snippet: During this process, the samples of sphere cells were labeled with Cy5, whereas the adherent cultured cells were labeled with Cy3 as control cells. .. Cy3-labeled cRNA and Cy5-labeled cRNA were combined and then fragmented in a gene expression hybridization kit (Agilent Technologies).

Labeling:

Article Title: Fine regulation of ARF17 for anther development and pollen formation
Article Snippet: The labeled cRNA was purified using an RNeasy Mini Kit (Qiagen). .. According to the manufacturer’s instructions, each 44-K Arabidopsis oligo microarray slide was hybridized with 825 ng of Cy3-labeled cRNA and 825 ng of Cy5-labeled cRNA using a gene expression hybridization kit (Agilent) in a hybridization oven (Agilent).

Article Title: Genome mapping and expression analyses of human intronic noncoding RNAs reveal tissue-specific patterns and enrichment in genes related to regulation of transcription
Article Snippet: Paragraph title: Sample labeling and microarray hybridization procedures ... Hybridization of 750 ng each of Cy3- and Cy5-labeled cRNA was performed with an Agilent in situ Hybridization kit-plus, as recommended by the manufacturer, using a total of six 44 k intron-exon expression oligoarrays.

Article Title: Transcriptomic analysis of insecticide resistance in the lymphatic filariasis vector Culex quinquefasciatus
Article Snippet: .. Before hybridization, 300 ng of Cy3 and Cy5 labeled cRNA was fragmented using the gene expression hybridization kit (Agilent) in a total volume of 25 µl including 5 µl of 10x blocking agent and 1 µl of 25x fragmentation buffer. .. The fragmentation reaction was incubated at 60 °C for 30 min, then chilled on ice for 2 min before addition of 25 µl of 2 x GE hybridization buffer Hi-RPM.

Article Title: S100A8 and S100A9 Are Associated with Doxorubicin-Induced Cardiotoxicity in the Heart of Diabetic Mice
Article Snippet: Samples from the DOX-treated diabetic mice (db/db DOX) were labeled by Cy5 dye (red channel) whereas samples from diabetic control mice (db/db CON) were labeled by Cy3 dye (green channel). .. Five hundred nanograms of Cy3-labeled and Cy5-labeled cRNA were mixed and incubated with the Agilent microarray slide (G2519F) for 17 h at 65°C in the dark.

Article Title: High-Throughput Analysis of Promoter Occupancy Reveals New Targets for Arx, a Gene Mutated in Mental Retardation and Interneuronopathies
Article Snippet: .. An equal amount (825 ng) of Cy3 and Cy5 labeled cRNA probes were hybridized on Mouse Gene Expression 4×44 K V2 microarray (Agilent Technologies). .. Hybridization images were obtained using an Agilent DNA microarray scanner and intensity data was extracted using Feature Extraction software (Agilent Technologies).

Article Title: Brother of the regulator of the imprinted site (BORIS) variant subfamily 6 is involved in cervical cancer stemness and can be a target of immunotherapy
Article Snippet: During this process, the samples of sphere cells were labeled with Cy5, whereas the adherent cultured cells were labeled with Cy3 as control cells. .. Cy3-labeled cRNA and Cy5-labeled cRNA were combined and then fragmented in a gene expression hybridization kit (Agilent Technologies).

Article Title: p53 Contributes to Differentiating Gene Expression Following Exposure to Acetaminophen and Its Less Hepatotoxic Regioisomer Both In Vitro and In Vivo
Article Snippet: Total RNA from individual mouse liver samples was amplified and labeled with a fluorescent dye (Cy3), whereas a common reference of pooled C57BL/6 J liver mRNA was amplified and labeled with Cy5 using Agilent Technologies Low RNA Input Linear Amplification Labeling Kit following the manufacturer’s protocol. .. Equal amounts of Cy3 and Cy5-labeled cRNA were hybridized to an Agilent Mouse Oligonucleotide Microarray (~21,000 features, catalog # G4121) and scanned using an Agilent G2565BA scanner.

Article Title: Identification of Prognostic Genes for Recurrent Risk Prediction in Triple Negative Breast Cancer Patients in Taiwan
Article Snippet: .. Total RNA (500 ng) was first reverse transcribed into cDNA by incorporating a T7 oligo-dT promoter primer prior to the generation of fluorescent Cy5-labeled cRNA using an Agilent Quick Amp Labeling Kit (Agilent Technologies). .. The labeled cRNA was purified using an RNeasy Mini Kit (Qiagen) and quantified using a NanoDrop ND-1000 instrument (Thermo Fisher Scientific).

Article Title: Low SP1 Expression Differentially Affects Intestinal-Type Compared with Diffuse-Type Gastric Adenocarcinoma
Article Snippet: The quantity and purity of the fluorescently labeled cRNA were evaluated using a NanoDrop ND-1000 UV-Vis Spectrophotometer (Thermo Fisher Scientific, Wilmington, DE). .. Equal amounts of Cy3 and Cy5-labeled cRNA were hybridized to an Agilent Human Microarray (G4112F) for 17 h at 65°C.

Article Title: ST6GALNAC1 plays important roles in enhancing cancer stem phenotypes of colorectal cancer via the Akt pathway
Article Snippet: We used the commercially available Low Input Quick Amp Labeling Kit (Agilent Technologies), and purified total RNA (3 μg) was reverse-transcribed to generate double-stranded cDNA using an oligo dT T7 promoter primer and reverse transcriptase. cRNA was synthesized using T7 RNA polymerase, which simultaneously incorporated Cy3- or Cy5-labeled cytidine triphosphate. .. Cy3-labeled cRNA and Cy5-labeled cRNA were combined and then fragmented using a gene expression hybridization kit (Agilent Technologies).

Article Title: Gene expression response in target organ and whole blood varies as a function of target organ injury phenotype
Article Snippet: The amount and quality of the fluorescently labeled cRNA was assessed using a NanoDrop ND-1000 spectrophotometer and an Agilent Bioanalyzer. .. Equal amounts of Cy3- or Cy5-labeled cRNA were hybridized to the Agilent Rat Oligo Microarray (Agilent Technologies) for 17 hours, prior to washing and scanning.

Article Title: Assessment of in vivo genotoxicity of citrated-coated silver nanoparticles via transcriptomic analysis of rabbit liver tissue
Article Snippet: Total RNA (1 µg) was used for amplification and labeling using the Low Input Quick Amp Labeling Kit (Agilent Technologies) as described by the manufacturer. .. Briefly, 825 ng of the corresponding Cy3- and Cy5-labeled cRNA was combined and hybridized overnight in a 65°C hybridization chamber with a Rabbit Gene Expression Microarray 4×44K (ID G2519F-020908; Agilent Technologies).

Expressing:

Article Title: Gene Expression Profiling of Gastric Cancer
Article Snippet: Hybridization, scanning and data analysis Fragmented Cy3-labeled cRNA of the control sample was mixed with equal amounts of Cy5-labeled cRNA from the gastric tumor sample and the mixtures hybridized onto 44K whole human genome DNA microarrays (G4112F, 4x44K, Agilent Technologies) for 17 hrs at 65°C with constant rotation (10 rpm). .. GeneSpring GX v11.0.2 (Agilent technologies) was used to analyze the expression profiles obtained after microarray hybridization.

Article Title: Fine regulation of ARF17 for anther development and pollen formation
Article Snippet: .. According to the manufacturer’s instructions, each 44-K Arabidopsis oligo microarray slide was hybridized with 825 ng of Cy3-labeled cRNA and 825 ng of Cy5-labeled cRNA using a gene expression hybridization kit (Agilent) in a hybridization oven (Agilent). .. The slides were scanned using an Agilent Microarray Scanner (Agilent) and Feature Extraction software 10.7 (Agilent) with the default settings.

Article Title: Genome mapping and expression analyses of human intronic noncoding RNAs reveal tissue-specific patterns and enrichment in genes related to regulation of transcription
Article Snippet: .. Hybridization of 750 ng each of Cy3- and Cy5-labeled cRNA was performed with an Agilent in situ Hybridization kit-plus, as recommended by the manufacturer, using a total of six 44 k intron-exon expression oligoarrays. .. Slides were washed and processed according to the Agilent 60-mer Oligo Microarray Processing protocol and scanned on a GenePix 4000B scanner (Molecular Devices, Sunnyvale, CA, USA).

Article Title: Transcriptomic analysis of insecticide resistance in the lymphatic filariasis vector Culex quinquefasciatus
Article Snippet: .. Before hybridization, 300 ng of Cy3 and Cy5 labeled cRNA was fragmented using the gene expression hybridization kit (Agilent) in a total volume of 25 µl including 5 µl of 10x blocking agent and 1 µl of 25x fragmentation buffer. .. The fragmentation reaction was incubated at 60 °C for 30 min, then chilled on ice for 2 min before addition of 25 µl of 2 x GE hybridization buffer Hi-RPM.

Article Title: Microarray analysis of peripheral blood lymphocytes from ALS patients and the SAFE detection of the KEGG ALS pathway
Article Snippet: Equal amounts of Cy3 and Cy5-labeled cRNA (825 ng) from two different samples were hybridized to Agilent Human Whole Genome 4 × 44k Microarrays. .. The non-normalized and normalized microarray datasets have been deposited in the NCBI Gene Expression Omnibus [ ] as series GSE28253.

Article Title: High-Throughput Analysis of Promoter Occupancy Reveals New Targets for Arx, a Gene Mutated in Mental Retardation and Interneuronopathies
Article Snippet: .. An equal amount (825 ng) of Cy3 and Cy5 labeled cRNA probes were hybridized on Mouse Gene Expression 4×44 K V2 microarray (Agilent Technologies). .. Hybridization images were obtained using an Agilent DNA microarray scanner and intensity data was extracted using Feature Extraction software (Agilent Technologies).

Article Title: Brother of the regulator of the imprinted site (BORIS) variant subfamily 6 is involved in cervical cancer stemness and can be a target of immunotherapy
Article Snippet: .. Cy3-labeled cRNA and Cy5-labeled cRNA were combined and then fragmented in a gene expression hybridization kit (Agilent Technologies). .. Then the labeled cRNAs were hybridized to a 60-mer probe oligonucleotide microarray (G4845A human GE 4x44K V2 Microarray kit) and incubated for 20 hours at 50°C.

Article Title: Identification of Prognostic Genes for Recurrent Risk Prediction in Triple Negative Breast Cancer Patients in Taiwan
Article Snippet: Paragraph title: Isolation and amplification of total RNA for gene expression profiling ... Total RNA (500 ng) was first reverse transcribed into cDNA by incorporating a T7 oligo-dT promoter primer prior to the generation of fluorescent Cy5-labeled cRNA using an Agilent Quick Amp Labeling Kit (Agilent Technologies).

Article Title: Low SP1 Expression Differentially Affects Intestinal-Type Compared with Diffuse-Type Gastric Adenocarcinoma
Article Snippet: Paragraph title: Gene expression array ... Equal amounts of Cy3 and Cy5-labeled cRNA were hybridized to an Agilent Human Microarray (G4112F) for 17 h at 65°C.

Article Title: ST6GALNAC1 plays important roles in enhancing cancer stem phenotypes of colorectal cancer via the Akt pathway
Article Snippet: .. Cy3-labeled cRNA and Cy5-labeled cRNA were combined and then fragmented using a gene expression hybridization kit (Agilent Technologies). .. Then the labeled cRNAs were hybridized to a 60-mer probe oligonucleotide microarray (GPL13497 Whole Human Genome Microarray 4 × 44 K V2) and incubated for 20 hours at 50°C.

Article Title: Gene expression response in target organ and whole blood varies as a function of target organ injury phenotype
Article Snippet: Paragraph title: RNA isolation and gene expression profiling ... Equal amounts of Cy3- or Cy5-labeled cRNA were hybridized to the Agilent Rat Oligo Microarray (Agilent Technologies) for 17 hours, prior to washing and scanning.

Article Title: Assessment of in vivo genotoxicity of citrated-coated silver nanoparticles via transcriptomic analysis of rabbit liver tissue
Article Snippet: .. Briefly, 825 ng of the corresponding Cy3- and Cy5-labeled cRNA was combined and hybridized overnight in a 65°C hybridization chamber with a Rabbit Gene Expression Microarray 4×44K (ID G2519F-020908; Agilent Technologies). .. The array was scanned using a DNA microArray scanner (Agilent Technologies), and probe signals were quantified using Feature Extraction software (version 10.2.1.3; Agilent Technologies).

Purification:

Article Title: Fine regulation of ARF17 for anther development and pollen formation
Article Snippet: The labeled cRNA was purified using an RNeasy Mini Kit (Qiagen). .. According to the manufacturer’s instructions, each 44-K Arabidopsis oligo microarray slide was hybridized with 825 ng of Cy3-labeled cRNA and 825 ng of Cy5-labeled cRNA using a gene expression hybridization kit (Agilent) in a hybridization oven (Agilent).

Article Title: Transcriptomic analysis of insecticide resistance in the lymphatic filariasis vector Culex quinquefasciatus
Article Snippet: Each pool of RNA was individually labelled with Cyanine-3 and Cyanine-5 (Cy3 and Cy5) using the Low input Quick Amp Labelling Kit (Agilent Technologies) followed by purification through Qiagen RNeasy Columns (Qiagen) with quality and quantity checked using a Nanodrop and Bioanalyzer, respectively. .. Before hybridization, 300 ng of Cy3 and Cy5 labeled cRNA was fragmented using the gene expression hybridization kit (Agilent) in a total volume of 25 µl including 5 µl of 10x blocking agent and 1 µl of 25x fragmentation buffer.

Article Title: High-Throughput Analysis of Promoter Occupancy Reveals New Targets for Arx, a Gene Mutated in Mental Retardation and Interneuronopathies
Article Snippet: The fluorescent labelled cRNA probes were purified using the RNeasy Mini kit (Qiagen). .. An equal amount (825 ng) of Cy3 and Cy5 labeled cRNA probes were hybridized on Mouse Gene Expression 4×44 K V2 microarray (Agilent Technologies).

Article Title: Brother of the regulator of the imprinted site (BORIS) variant subfamily 6 is involved in cervical cancer stemness and can be a target of immunotherapy
Article Snippet: Purified total RNA (3 μg) was reverse-transcribed to generate double-stranded cDNA using an oligo dT T7 promoter primer and reverse transcriptase. .. Cy3-labeled cRNA and Cy5-labeled cRNA were combined and then fragmented in a gene expression hybridization kit (Agilent Technologies).

Article Title: Identification of Prognostic Genes for Recurrent Risk Prediction in Triple Negative Breast Cancer Patients in Taiwan
Article Snippet: Isolation and amplification of total RNA for gene expression profiling Total RNAs from the tissue specimens were extracted by TRIzol® reagent (Invitrogen, Carlsbad, CA) and subsequently purified with RNeasy® Mini Kits (Qiagen) according to the manufacturer's instructions. .. Total RNA (500 ng) was first reverse transcribed into cDNA by incorporating a T7 oligo-dT promoter primer prior to the generation of fluorescent Cy5-labeled cRNA using an Agilent Quick Amp Labeling Kit (Agilent Technologies).

Article Title: ST6GALNAC1 plays important roles in enhancing cancer stem phenotypes of colorectal cancer via the Akt pathway
Article Snippet: We used the commercially available Low Input Quick Amp Labeling Kit (Agilent Technologies), and purified total RNA (3 μg) was reverse-transcribed to generate double-stranded cDNA using an oligo dT T7 promoter primer and reverse transcriptase. cRNA was synthesized using T7 RNA polymerase, which simultaneously incorporated Cy3- or Cy5-labeled cytidine triphosphate. .. Cy3-labeled cRNA and Cy5-labeled cRNA were combined and then fragmented using a gene expression hybridization kit (Agilent Technologies).

Chromatin Immunoprecipitation:

Article Title: Assessment of in vivo genotoxicity of citrated-coated silver nanoparticles via transcriptomic analysis of rabbit liver tissue
Article Snippet: RNA quality was determined using the Bioanalyzer Nano Chip 2100 (Agilent Technologies, Santa Clara, CA, USA). .. Briefly, 825 ng of the corresponding Cy3- and Cy5-labeled cRNA was combined and hybridized overnight in a 65°C hybridization chamber with a Rabbit Gene Expression Microarray 4×44K (ID G2519F-020908; Agilent Technologies).

In Situ Hybridization:

Article Title: Genome mapping and expression analyses of human intronic noncoding RNAs reveal tissue-specific patterns and enrichment in genes related to regulation of transcription
Article Snippet: .. Hybridization of 750 ng each of Cy3- and Cy5-labeled cRNA was performed with an Agilent in situ Hybridization kit-plus, as recommended by the manufacturer, using a total of six 44 k intron-exon expression oligoarrays. .. Slides were washed and processed according to the Agilent 60-mer Oligo Microarray Processing protocol and scanned on a GenePix 4000B scanner (Molecular Devices, Sunnyvale, CA, USA).

Blocking Assay:

Article Title: Transcriptomic analysis of insecticide resistance in the lymphatic filariasis vector Culex quinquefasciatus
Article Snippet: .. Before hybridization, 300 ng of Cy3 and Cy5 labeled cRNA was fragmented using the gene expression hybridization kit (Agilent) in a total volume of 25 µl including 5 µl of 10x blocking agent and 1 µl of 25x fragmentation buffer. .. The fragmentation reaction was incubated at 60 °C for 30 min, then chilled on ice for 2 min before addition of 25 µl of 2 x GE hybridization buffer Hi-RPM.

Imaging:

Article Title: Genome mapping and expression analyses of human intronic noncoding RNAs reveal tissue-specific patterns and enrichment in genes related to regulation of transcription
Article Snippet: Hybridization of 750 ng each of Cy3- and Cy5-labeled cRNA was performed with an Agilent in situ Hybridization kit-plus, as recommended by the manufacturer, using a total of six 44 k intron-exon expression oligoarrays. .. Hybridization of 750 ng each of Cy3- and Cy5-labeled cRNA was performed with an Agilent in situ Hybridization kit-plus, as recommended by the manufacturer, using a total of six 44 k intron-exon expression oligoarrays.

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