Structured Review

Bio-Rad dnase treatment
Dnase Treatment, supplied by Bio-Rad, used in various techniques. Bioz Stars score: 99/100, based on 53 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/result/dnase treatment/product/Bio-Rad
Average 99 stars, based on 53 article reviews
Price from $9.99 to $1999.99
dnase treatment - by Bioz Stars, 2020-04
99/100 stars

Images

Related Articles

Centrifugation:

Article Title: Novel Identification of Dermacentor variabilis Arp2/3 Complex and Its Role in Rickettsial Infection of the Arthropod Vector
Article Snippet: Rickettsiae were allowed to infect the tissues at 32°C for 1 h. The samples were then washed twice with 1 ml PBS and collected by centrifugation at 4°C, 275×g for 4 min. .. First-strand cDNA was then synthesized from 75 ng of DNase-treated total RNA using iScript reverse transcription kit (Bio-Rad) according to manufacturer’s instruction.

Amplification:

Article Title: Activation of Silenced Cytokine Gene Promoters by the Synergistic Effect of TBP-TALE and VP64-TALE Activators
Article Snippet: Primer amplification efficiency were determined over a linear range and only primer sets with optimal amplification efficiencies were used in this study. .. To determine percent accessibility to DNase I digestion, the EpiQ chromatin analysis tool (Bio-Rad) was used to analyze each sample using the following equation: % Accessibility to DNase I = (1 − 2ΔCt ) × 100.

Article Title: Virulence Gene Profiling and Pathogenicity Characterization of Non-Typhoidal Salmonella Accounted for Invasive Disease in Humans
Article Snippet: Purified RNA was secondarily treated with an RNase-free DNase I followed by ethanol-precipitation and 150 ng of DNase I-treated RNA was subjected to a first strand cDNA synthesis, using the iScript cDNA synthesis kit (Bio-Rad Laboratories) according to the kit protocol. .. 2 µl from the reverse transcription reaction were used as a template for a PCR amplification using the primers listed in .

Synthesized:

Article Title: Social Isolation Stress Induces Anxious-Depressive-Like Behavior and Alterations of Neuroplasticity-Related Genes in Adult Male Mice
Article Snippet: .. RNA Isolation and Reverse Transcription Total RNA from HPC and PFC was extracted using the Direct-zol RNA MiniPrep (Zymo Research, purchased by Euroclone, Milan, Italy) according to manufacturer's instructions and then quantified by absorption at A 260 nm measured by UV spectrophotometry (NanoVue, GE Healthcare Europe GmbH, Milan, Italy). cDNA was synthesized from 1 μ g of DNase-treated total RNA using the iScript kit (Biorad, Milan, Italy) according to manufacturer's instructions. .. Quantitative Real-Time PCR qPCR analysis of mRNA expression levels was performed on a 7900HT Fast PCR System (Applied Biosystems, Monza, Italy) and iTaq Universal SYBR Green supermix (Biorad), as previously described [ ].

Article Title: Novel Identification of Dermacentor variabilis Arp2/3 Complex and Its Role in Rickettsial Infection of the Arthropod Vector
Article Snippet: .. First-strand cDNA was then synthesized from 75 ng of DNase-treated total RNA using iScript reverse transcription kit (Bio-Rad) according to manufacturer’s instruction. ..

Autoradiography:

Article Title: Dissecting the nascent human transcriptome by analysing the RNA content of transcription factories
Article Snippet: .. Then, following treatment with DNase I and caspases as above, released ‘factory’ complexes were resolved in two-dimensional acrylamide-agarose composite gels using the Mini-Protean 3 system (BioRad); distributions of nascent transcripts was visualized by autoradiography, while those of RNA polymerase II by western blotting using the iBlot transfer system (Invitrogen) and a mouse monoclonal antibody against its RPB1 subunit (7C2; ref. )—all as described in ref. ( ). .. Finally, total RNA was isolated by directly lyzing ∼106 HUVECs in 1 ml of Trizol LS (Invitrogen) as described by the manufacturer and poly(A)+ fractions selected using the TrueSeq protocol (Illumina).

Quantitative RT-PCR:

Article Title: Over-Expression of 60s Ribosomal L23a Is Associated with Cellular Proliferation in SAG Resistant Clinical Isolates of Leishmania donovani
Article Snippet: Isolated RNA were treated with DNase and quantified in Gene-quant (Biorad). .. For qRT-PCR primers were designed using Beacon Designer software (Biorad). qRT-PCR was carried out with 12.5 ml of SYBER green PCR master mix (TAKARA), 1 µg of cDNA, and primers at a final concentration of 200 nM in a final volume of 25 µl.

Article Title: Cancer therapies activate RIG-I-like receptor pathway through endogenous non-coding RNAs
Article Snippet: .. For the quantification of U1 and U2 RNA in RNA purified from pulldown experiments and in fractionated nuclear and cytosolic portions of cell lines, qRT-PCR was conducted on cDNA prepared from DNase I-treated RNA samples, and the following primers were used: Reactions were run on the BioRad iCycler IQ5 in a final volume of 25ul with 4.0uM of the U1 (or U2) forward and reverse primers (or 0.8uM of the forward and reverse primers for 18S , GAPDH , and β-actin ), using 2x Power SYBR® Green Master Mix (LifeTechnologies). ..

Article Title: Adiponectin inhibits macrophage tissue factor, a key trigger of thrombosis in disrupted atherosclerotic plaques
Article Snippet: Paragraph title: 2.2. Real-time quantitative RT-PCR ... DNase I-treated total RNA was reverse-transcribed, and real-time quantitative PCR with cDNA was performed on an iCycler iQ Real-Time PCR Detection System using SYBR Green I (Bio-Rad, Hercules, CA, USA).

SYBR Green Assay:

Article Title: Novel Identification of Dermacentor variabilis Arp2/3 Complex and Its Role in Rickettsial Infection of the Arthropod Vector
Article Snippet: First-strand cDNA was then synthesized from 75 ng of DNase-treated total RNA using iScript reverse transcription kit (Bio-Rad) according to manufacturer’s instruction. .. All qPCR reactions were prepared in 96-well plates in a 35 μl volume composed of 0.1 μM each forward and reverse primers, DNase/RNase-free water, 2 μl of cDNA (sample) or water (negative control) and 2X LightCycler 480 SYBR Green I Master (Roche, Indianapolis, IN).

Article Title: The Hsp70 co-chaperone Ydj1/HDJ2 regulates ribonucleotide reductase activity
Article Snippet: DNAse I activity was stopped by adding 1 μL of 50 mM EDTA and incubating at 65°C for 10 minutes. cDNA synthesis was carried out by iScript reverse transcriptase (BioRad) on aliquots of 1 μg RNA. .. The single-stranded cDNA products were used in qPCR on an ABI Fast 2000 real-time PCR detection system based on SYBR Green fluorescence.

Article Title: Cancer therapies activate RIG-I-like receptor pathway through endogenous non-coding RNAs
Article Snippet: .. For the quantification of U1 and U2 RNA in RNA purified from pulldown experiments and in fractionated nuclear and cytosolic portions of cell lines, qRT-PCR was conducted on cDNA prepared from DNase I-treated RNA samples, and the following primers were used: Reactions were run on the BioRad iCycler IQ5 in a final volume of 25ul with 4.0uM of the U1 (or U2) forward and reverse primers (or 0.8uM of the forward and reverse primers for 18S , GAPDH , and β-actin ), using 2x Power SYBR® Green Master Mix (LifeTechnologies). ..

Article Title: Adiponectin inhibits macrophage tissue factor, a key trigger of thrombosis in disrupted atherosclerotic plaques
Article Snippet: .. DNase I-treated total RNA was reverse-transcribed, and real-time quantitative PCR with cDNA was performed on an iCycler iQ Real-Time PCR Detection System using SYBR Green I (Bio-Rad, Hercules, CA, USA). ..

Microarray:

Article Title: Cancer therapies activate RIG-I-like receptor pathway through endogenous non-coding RNAs
Article Snippet: The following primers were used for validation of the microarray data: Fold change calculations were determined using the 2^-ddCt method normalizing to the geometric mean of Gapdh , B2m and Tbp . .. For the quantification of U1 and U2 RNA in RNA purified from pulldown experiments and in fractionated nuclear and cytosolic portions of cell lines, qRT-PCR was conducted on cDNA prepared from DNase I-treated RNA samples, and the following primers were used: Reactions were run on the BioRad iCycler IQ5 in a final volume of 25ul with 4.0uM of the U1 (or U2) forward and reverse primers (or 0.8uM of the forward and reverse primers for 18S , GAPDH , and β-actin ), using 2x Power SYBR® Green Master Mix (LifeTechnologies).

Incubation:

Article Title: Cloning and Analysis of the Capsid Morphogenesis Genes of Pseudomonas aeruginosa Bacteriophage D3: Another Example of Protein Chain Mail?
Article Snippet: .. To solve the viscosity problem resulting from the release of phage DNA, 0.5 to 1 μl of DNase I (1 mg/ml in 10 mM Tris–10 mM MgCl2 –20% [vol/vol] glycerol) was added to 50 μl of phage lysate and incubated at room temperature for 10 min. For most of the analyses, a Bio-Rad Mini-PROTEAN II apparatus was employed with 10 or 12.5% resolving gels and a 4.5% stacking gel and the buffer systems described by Laemmli ( ). .. The gels were stained with Coomassie brilliant blue G250 in perchloric acid ( ) or the Bio-Rad Silver Stain or Silver Stain Plus kit.

Article Title: DNase-chip: a high-resolution method to identify DNase I hypersensitive sites using tiled microarrays
Article Snippet: We incubated DNA plugs overnight at 37 °C in LiDS buffer (1% lithium dodecyl sulfate, 10 mM Tris-HCl (pH 7.5), 100 mM EDTA), washed them four times in 50 mM EDTA, and stored them in 50 mM EDTA at 4 °C. .. We used pulsed field gel electrophoresis (pulse time, 20–60 s for 18 h) to identify the three concentrations of DNase I to be used for DNase-chip (Bio-Rad).

Activity Assay:

Article Title: The Hsp70 co-chaperone Ydj1/HDJ2 regulates ribonucleotide reductase activity
Article Snippet: .. DNAse I activity was stopped by adding 1 μL of 50 mM EDTA and incubating at 65°C for 10 minutes. cDNA synthesis was carried out by iScript reverse transcriptase (BioRad) on aliquots of 1 μg RNA. .. The single-stranded cDNA products were used in qPCR on an ABI Fast 2000 real-time PCR detection system based on SYBR Green fluorescence.

Cell Culture:

Article Title: Antiproliferative Effects of the Natural Oxadiazine Nocuolin A Are Associated With Impairment of Mitochondrial Oxidative Phosphorylation
Article Snippet: RNA Extraction MCF-7 cells were cultured as described by Lamb et al. ( ). .. After exposure, cells were washed with PBS, and total RNA was prepared using RNeasy miniprep kit (Qiagen, Chatsworth, CA) with a removal of DNA contamination step by DNAse I digestion (BioRad Laboratories, USA).

Expressing:

Article Title: Over-Expression of 60s Ribosomal L23a Is Associated with Cellular Proliferation in SAG Resistant Clinical Isolates of Leishmania donovani
Article Snippet: Paragraph title: Real time quantitative analysis of 60sRL23a expression in clinical isolates ... Isolated RNA were treated with DNase and quantified in Gene-quant (Biorad).

Modification:

Article Title: Dissecting the nascent human transcriptome by analysing the RNA content of transcription factories
Article Snippet: For the analysis in Supplementary Figure S1, the workflow was slightly modified to include a nuclear ‘run-on’. .. Then, following treatment with DNase I and caspases as above, released ‘factory’ complexes were resolved in two-dimensional acrylamide-agarose composite gels using the Mini-Protean 3 system (BioRad); distributions of nascent transcripts was visualized by autoradiography, while those of RNA polymerase II by western blotting using the iBlot transfer system (Invitrogen) and a mouse monoclonal antibody against its RPB1 subunit (7C2; ref. )—all as described in ref. ( ).

Western Blot:

Article Title: Dissecting the nascent human transcriptome by analysing the RNA content of transcription factories
Article Snippet: .. Then, following treatment with DNase I and caspases as above, released ‘factory’ complexes were resolved in two-dimensional acrylamide-agarose composite gels using the Mini-Protean 3 system (BioRad); distributions of nascent transcripts was visualized by autoradiography, while those of RNA polymerase II by western blotting using the iBlot transfer system (Invitrogen) and a mouse monoclonal antibody against its RPB1 subunit (7C2; ref. )—all as described in ref. ( ). .. Finally, total RNA was isolated by directly lyzing ∼106 HUVECs in 1 ml of Trizol LS (Invitrogen) as described by the manufacturer and poly(A)+ fractions selected using the TrueSeq protocol (Illumina).

Real-time Polymerase Chain Reaction:

Article Title: Novel Identification of Dermacentor variabilis Arp2/3 Complex and Its Role in Rickettsial Infection of the Arthropod Vector
Article Snippet: First-strand cDNA was then synthesized from 75 ng of DNase-treated total RNA using iScript reverse transcription kit (Bio-Rad) according to manufacturer’s instruction. .. All qPCR reactions were prepared in 96-well plates in a 35 μl volume composed of 0.1 μM each forward and reverse primers, DNase/RNase-free water, 2 μl of cDNA (sample) or water (negative control) and 2X LightCycler 480 SYBR Green I Master (Roche, Indianapolis, IN).

Article Title: Activation of Silenced Cytokine Gene Promoters by the Synergistic Effect of TBP-TALE and VP64-TALE Activators
Article Snippet: Paragraph title: Chromatin Accessibility using Real-time PCR (CHART-PCR) ... To determine percent accessibility to DNase I digestion, the EpiQ chromatin analysis tool (Bio-Rad) was used to analyze each sample using the following equation: % Accessibility to DNase I = (1 − 2ΔCt ) × 100.

Article Title: The Hsp70 co-chaperone Ydj1/HDJ2 regulates ribonucleotide reductase activity
Article Snippet: DNAse I activity was stopped by adding 1 μL of 50 mM EDTA and incubating at 65°C for 10 minutes. cDNA synthesis was carried out by iScript reverse transcriptase (BioRad) on aliquots of 1 μg RNA. .. The single-stranded cDNA products were used in qPCR on an ABI Fast 2000 real-time PCR detection system based on SYBR Green fluorescence.

Article Title: Cancer therapies activate RIG-I-like receptor pathway through endogenous non-coding RNAs
Article Snippet: 96-well plate-based triplicate qPCR reactions were assembled in a 15 μL final volume using 2X Power SYBR® Green Master Mix (LifeTechnologies) with 1/10 volume of 5 μM each PCR primer. .. For the quantification of U1 and U2 RNA in RNA purified from pulldown experiments and in fractionated nuclear and cytosolic portions of cell lines, qRT-PCR was conducted on cDNA prepared from DNase I-treated RNA samples, and the following primers were used: Reactions were run on the BioRad iCycler IQ5 in a final volume of 25ul with 4.0uM of the U1 (or U2) forward and reverse primers (or 0.8uM of the forward and reverse primers for 18S , GAPDH , and β-actin ), using 2x Power SYBR® Green Master Mix (LifeTechnologies).

Article Title: Adiponectin inhibits macrophage tissue factor, a key trigger of thrombosis in disrupted atherosclerotic plaques
Article Snippet: .. DNase I-treated total RNA was reverse-transcribed, and real-time quantitative PCR with cDNA was performed on an iCycler iQ Real-Time PCR Detection System using SYBR Green I (Bio-Rad, Hercules, CA, USA). ..

Article Title: Cellular Cholesterol Facilitates the Postentry Replication Cycle of Herpes Simplex Virus 1
Article Snippet: Paragraph title: Determination of HSV-1 genome copy number by real-time PCR. ... Samples were treated with 2 μg/ml DNase (Bio-Rad), and viral genomic DNA was extracted using a QIAamp Blood DNA kit (Qiagen, Valencia, CA).

Infection:

Article Title: Novel Identification of Dermacentor variabilis Arp2/3 Complex and Its Role in Rickettsial Infection of the Arthropod Vector
Article Snippet: Paragraph title: Transcriptional Analysis during Rickettsia Infection ... First-strand cDNA was then synthesized from 75 ng of DNase-treated total RNA using iScript reverse transcription kit (Bio-Rad) according to manufacturer’s instruction.

Reverse Transcription Polymerase Chain Reaction:

Article Title: Virulence Gene Profiling and Pathogenicity Characterization of Non-Typhoidal Salmonella Accounted for Invasive Disease in Humans
Article Snippet: Paragraph title: RT-PCR ... Purified RNA was secondarily treated with an RNase-free DNase I followed by ethanol-precipitation and 150 ng of DNase I-treated RNA was subjected to a first strand cDNA synthesis, using the iScript cDNA synthesis kit (Bio-Rad Laboratories) according to the kit protocol.

Generated:

Article Title: Cellular Cholesterol Facilitates the Postentry Replication Cycle of Herpes Simplex Virus 1
Article Snippet: Samples were treated with 2 μg/ml DNase (Bio-Rad), and viral genomic DNA was extracted using a QIAamp Blood DNA kit (Qiagen, Valencia, CA). .. A standard curve for the assay was generated using known quantities of a plasmid containing the HSV-1 ICP22 coding region diluted in glycogen.

Negative Control:

Article Title: Novel Identification of Dermacentor variabilis Arp2/3 Complex and Its Role in Rickettsial Infection of the Arthropod Vector
Article Snippet: First-strand cDNA was then synthesized from 75 ng of DNase-treated total RNA using iScript reverse transcription kit (Bio-Rad) according to manufacturer’s instruction. .. All qPCR reactions were prepared in 96-well plates in a 35 μl volume composed of 0.1 μM each forward and reverse primers, DNase/RNase-free water, 2 μl of cDNA (sample) or water (negative control) and 2X LightCycler 480 SYBR Green I Master (Roche, Indianapolis, IN).

Sequencing:

Article Title: Adiponectin inhibits macrophage tissue factor, a key trigger of thrombosis in disrupted atherosclerotic plaques
Article Snippet: DNase I-treated total RNA was reverse-transcribed, and real-time quantitative PCR with cDNA was performed on an iCycler iQ Real-Time PCR Detection System using SYBR Green I (Bio-Rad, Hercules, CA, USA). .. The sequence of sense primers and anti-sense primers was: human tissue factor, 5’-GCCAGGAGAAAGGGGAAT-3’ and 5’-CAGTGCAATATAGCATTTGCAGTAGC-3’, human glyceraldehyde-3-phosphate dehydrogenase (GAPDH), 5'-CAATGACCCCTTCATTGACCTC-3' and 5'-AGCATCGCCCCACTTGATT-3'.

Article Title: Cellular Cholesterol Facilitates the Postentry Replication Cycle of Herpes Simplex Virus 1
Article Snippet: Samples were treated with 2 μg/ml DNase (Bio-Rad), and viral genomic DNA was extracted using a QIAamp Blood DNA kit (Qiagen, Valencia, CA). .. Primers were based on the KOS ICP22 sequence, (forward, 5′-GAG TTT GGG GAG TTT G-3′, and reverse, 5′-GGC AGG CGG TGG AGA A-3′) ( , ).

ChIP-sequencing:

Article Title: High-resolution mapping of open chromatin in the rice genome
Article Snippet: Paragraph title: Development of DNase-seq and ChIP-seq libraries ... Specifically, the degree of DNase I digestion was assessed by pulsed-field gel electrophoresis (PFGE; 20–60 switch time, 18 h, 6 V/cm; Bio-Rad).

Pulsed-Field Gel:

Article Title: High-resolution mapping of open chromatin in the rice genome
Article Snippet: .. Specifically, the degree of DNase I digestion was assessed by pulsed-field gel electrophoresis (PFGE; 20–60 switch time, 18 h, 6 V/cm; Bio-Rad). .. High-molecular-weight (HMW) DNA after DNase I digestion was isolated and blunt ended with T4 DNA polymerase.

Article Title: DNase-chip: a high-resolution method to identify DNase I hypersensitive sites using tiled microarrays
Article Snippet: .. We used pulsed field gel electrophoresis (pulse time, 20–60 s for 18 h) to identify the three concentrations of DNase I to be used for DNase-chip (Bio-Rad). .. After digestion with concentration ‘A’, most DNA was very high molecular weight ( > 1,000 kb), but there was some digestion resulting in smaller fragments (50–1,000 kb).

DNA Extraction:

Article Title: Novel Identification of Dermacentor variabilis Arp2/3 Complex and Its Role in Rickettsial Infection of the Arthropod Vector
Article Snippet: Three samples of the same tissues were pooled and placed in 800 μl TRIzol reagent for RNA and DNA extraction as described in the manufacturer’s protocol. .. First-strand cDNA was then synthesized from 75 ng of DNase-treated total RNA using iScript reverse transcription kit (Bio-Rad) according to manufacturer’s instruction.

Nucleic Acid Electrophoresis:

Article Title: Cloning and Analysis of the Capsid Morphogenesis Genes of Pseudomonas aeruginosa Bacteriophage D3: Another Example of Protein Chain Mail?
Article Snippet: To prepare the proteins for sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE), a quantity of phage was mixed with sample buffer (0.0625 M Tris [pH 6.8], 1% [wt/vol] SDS, 10% [vol/vol] glycerol, 2% [vol/vol] 2-mercaptoethanol, 0.001% [wt/vol] bromophenol blue) and heated for 5 min in a boiling-water bath. .. To solve the viscosity problem resulting from the release of phage DNA, 0.5 to 1 μl of DNase I (1 mg/ml in 10 mM Tris–10 mM MgCl2 –20% [vol/vol] glycerol) was added to 50 μl of phage lysate and incubated at room temperature for 10 min. For most of the analyses, a Bio-Rad Mini-PROTEAN II apparatus was employed with 10 or 12.5% resolving gels and a 4.5% stacking gel and the buffer systems described by Laemmli ( ).

Fluorescence:

Article Title: The Hsp70 co-chaperone Ydj1/HDJ2 regulates ribonucleotide reductase activity
Article Snippet: DNAse I activity was stopped by adding 1 μL of 50 mM EDTA and incubating at 65°C for 10 minutes. cDNA synthesis was carried out by iScript reverse transcriptase (BioRad) on aliquots of 1 μg RNA. .. The single-stranded cDNA products were used in qPCR on an ABI Fast 2000 real-time PCR detection system based on SYBR Green fluorescence.

Isolation:

Article Title: High-resolution mapping of open chromatin in the rice genome
Article Snippet: Three-week-old calli were collected for nuclei isolation using the same method as for leaf tissue. .. Specifically, the degree of DNase I digestion was assessed by pulsed-field gel electrophoresis (PFGE; 20–60 switch time, 18 h, 6 V/cm; Bio-Rad).

Article Title: Social Isolation Stress Induces Anxious-Depressive-Like Behavior and Alterations of Neuroplasticity-Related Genes in Adult Male Mice
Article Snippet: .. RNA Isolation and Reverse Transcription Total RNA from HPC and PFC was extracted using the Direct-zol RNA MiniPrep (Zymo Research, purchased by Euroclone, Milan, Italy) according to manufacturer's instructions and then quantified by absorption at A 260 nm measured by UV spectrophotometry (NanoVue, GE Healthcare Europe GmbH, Milan, Italy). cDNA was synthesized from 1 μ g of DNase-treated total RNA using the iScript kit (Biorad, Milan, Italy) according to manufacturer's instructions. .. Quantitative Real-Time PCR qPCR analysis of mRNA expression levels was performed on a 7900HT Fast PCR System (Applied Biosystems, Monza, Italy) and iTaq Universal SYBR Green supermix (Biorad), as previously described [ ].

Article Title: Over-Expression of 60s Ribosomal L23a Is Associated with Cellular Proliferation in SAG Resistant Clinical Isolates of Leishmania donovani
Article Snippet: .. Isolated RNA were treated with DNase and quantified in Gene-quant (Biorad). .. Total RNA (1 µg/reaction) was reverse transcribed using first-strand cDNA synthesis kit (Fermentas) and then cDNA was treated with RNase.

Article Title: Dissecting the nascent human transcriptome by analysing the RNA content of transcription factories
Article Snippet: Paragraph title: Isolation of sub-cellular fractions and RNA extraction ... Then, following treatment with DNase I and caspases as above, released ‘factory’ complexes were resolved in two-dimensional acrylamide-agarose composite gels using the Mini-Protean 3 system (BioRad); distributions of nascent transcripts was visualized by autoradiography, while those of RNA polymerase II by western blotting using the iBlot transfer system (Invitrogen) and a mouse monoclonal antibody against its RPB1 subunit (7C2; ref. )—all as described in ref. ( ).

Article Title: Adiponectin inhibits macrophage tissue factor, a key trigger of thrombosis in disrupted atherosclerotic plaques
Article Snippet: After 6 hours of LPS treatment, total RNA from treated human MΦ were isolated by RNeasy micro kit (QIAGEN, Hilden, Germany). .. DNase I-treated total RNA was reverse-transcribed, and real-time quantitative PCR with cDNA was performed on an iCycler iQ Real-Time PCR Detection System using SYBR Green I (Bio-Rad, Hercules, CA, USA).

Size-exclusion Chromatography:

Article Title: Over-Expression of 60s Ribosomal L23a Is Associated with Cellular Proliferation in SAG Resistant Clinical Isolates of Leishmania donovani
Article Snippet: Isolated RNA were treated with DNase and quantified in Gene-quant (Biorad). .. PCR was conducted under the following conditions: initial denaturation at 95°C for 10 min followed by 40 cycles, each consisting of denaturation at 95°C for 1 min, annealing at 52°C for 1 min and extension at 70°C for 1 min followed by 80°C for 10 sec. 87 cycles of melt curve was set at 52°C for 10 sec. All quantification was normalized to the Ld-actin gene.

Purification:

Article Title: Virulence Gene Profiling and Pathogenicity Characterization of Non-Typhoidal Salmonella Accounted for Invasive Disease in Humans
Article Snippet: .. Purified RNA was secondarily treated with an RNase-free DNase I followed by ethanol-precipitation and 150 ng of DNase I-treated RNA was subjected to a first strand cDNA synthesis, using the iScript cDNA synthesis kit (Bio-Rad Laboratories) according to the kit protocol. .. 2 µl from the reverse transcription reaction were used as a template for a PCR amplification using the primers listed in .

Article Title: Dissecting the nascent human transcriptome by analysing the RNA content of transcription factories
Article Snippet: ‘Factory’ RNA was now purified from this fraction using 750 μl of Trizol LS (Invitrogen) using the manufacturer's instructions. .. Then, following treatment with DNase I and caspases as above, released ‘factory’ complexes were resolved in two-dimensional acrylamide-agarose composite gels using the Mini-Protean 3 system (BioRad); distributions of nascent transcripts was visualized by autoradiography, while those of RNA polymerase II by western blotting using the iBlot transfer system (Invitrogen) and a mouse monoclonal antibody against its RPB1 subunit (7C2; ref. )—all as described in ref. ( ).

Article Title: Cancer therapies activate RIG-I-like receptor pathway through endogenous non-coding RNAs
Article Snippet: .. For the quantification of U1 and U2 RNA in RNA purified from pulldown experiments and in fractionated nuclear and cytosolic portions of cell lines, qRT-PCR was conducted on cDNA prepared from DNase I-treated RNA samples, and the following primers were used: Reactions were run on the BioRad iCycler IQ5 in a final volume of 25ul with 4.0uM of the U1 (or U2) forward and reverse primers (or 0.8uM of the forward and reverse primers for 18S , GAPDH , and β-actin ), using 2x Power SYBR® Green Master Mix (LifeTechnologies). ..

Article Title: DNase-chip: a high-resolution method to identify DNase I hypersensitive sites using tiled microarrays
Article Snippet: Then we purified DNA from the agarose by melting the agarose at 65 °C, phenol-chloroform extracting the DNA, and ethanol precipitating it. .. We used pulsed field gel electrophoresis (pulse time, 20–60 s for 18 h) to identify the three concentrations of DNase I to be used for DNase-chip (Bio-Rad).

Polymerase Chain Reaction:

Article Title: Over-Expression of 60s Ribosomal L23a Is Associated with Cellular Proliferation in SAG Resistant Clinical Isolates of Leishmania donovani
Article Snippet: Isolated RNA were treated with DNase and quantified in Gene-quant (Biorad). .. For qRT-PCR primers were designed using Beacon Designer software (Biorad). qRT-PCR was carried out with 12.5 ml of SYBER green PCR master mix (TAKARA), 1 µg of cDNA, and primers at a final concentration of 200 nM in a final volume of 25 µl.

Article Title: Virulence Gene Profiling and Pathogenicity Characterization of Non-Typhoidal Salmonella Accounted for Invasive Disease in Humans
Article Snippet: Purified RNA was secondarily treated with an RNase-free DNase I followed by ethanol-precipitation and 150 ng of DNase I-treated RNA was subjected to a first strand cDNA synthesis, using the iScript cDNA synthesis kit (Bio-Rad Laboratories) according to the kit protocol. .. 2 µl from the reverse transcription reaction were used as a template for a PCR amplification using the primers listed in .

Article Title: Cancer therapies activate RIG-I-like receptor pathway through endogenous non-coding RNAs
Article Snippet: 96-well plate-based triplicate qPCR reactions were assembled in a 15 μL final volume using 2X Power SYBR® Green Master Mix (LifeTechnologies) with 1/10 volume of 5 μM each PCR primer. .. For the quantification of U1 and U2 RNA in RNA purified from pulldown experiments and in fractionated nuclear and cytosolic portions of cell lines, qRT-PCR was conducted on cDNA prepared from DNase I-treated RNA samples, and the following primers were used: Reactions were run on the BioRad iCycler IQ5 in a final volume of 25ul with 4.0uM of the U1 (or U2) forward and reverse primers (or 0.8uM of the forward and reverse primers for 18S , GAPDH , and β-actin ), using 2x Power SYBR® Green Master Mix (LifeTechnologies).

Polyacrylamide Gel Electrophoresis:

Article Title: Cloning and Analysis of the Capsid Morphogenesis Genes of Pseudomonas aeruginosa Bacteriophage D3: Another Example of Protein Chain Mail?
Article Snippet: Paragraph title: (ii) Denaturing PAGE (SDS-PAGE). ... To solve the viscosity problem resulting from the release of phage DNA, 0.5 to 1 μl of DNase I (1 mg/ml in 10 mM Tris–10 mM MgCl2 –20% [vol/vol] glycerol) was added to 50 μl of phage lysate and incubated at room temperature for 10 min. For most of the analyses, a Bio-Rad Mini-PROTEAN II apparatus was employed with 10 or 12.5% resolving gels and a 4.5% stacking gel and the buffer systems described by Laemmli ( ).

Silver Staining:

Article Title: Cloning and Analysis of the Capsid Morphogenesis Genes of Pseudomonas aeruginosa Bacteriophage D3: Another Example of Protein Chain Mail?
Article Snippet: To solve the viscosity problem resulting from the release of phage DNA, 0.5 to 1 μl of DNase I (1 mg/ml in 10 mM Tris–10 mM MgCl2 –20% [vol/vol] glycerol) was added to 50 μl of phage lysate and incubated at room temperature for 10 min. For most of the analyses, a Bio-Rad Mini-PROTEAN II apparatus was employed with 10 or 12.5% resolving gels and a 4.5% stacking gel and the buffer systems described by Laemmli ( ). .. The gels were stained with Coomassie brilliant blue G250 in perchloric acid ( ) or the Bio-Rad Silver Stain or Silver Stain Plus kit.

SDS Page:

Article Title: Cloning and Analysis of the Capsid Morphogenesis Genes of Pseudomonas aeruginosa Bacteriophage D3: Another Example of Protein Chain Mail?
Article Snippet: Paragraph title: (ii) Denaturing PAGE (SDS-PAGE). ... To solve the viscosity problem resulting from the release of phage DNA, 0.5 to 1 μl of DNase I (1 mg/ml in 10 mM Tris–10 mM MgCl2 –20% [vol/vol] glycerol) was added to 50 μl of phage lysate and incubated at room temperature for 10 min. For most of the analyses, a Bio-Rad Mini-PROTEAN II apparatus was employed with 10 or 12.5% resolving gels and a 4.5% stacking gel and the buffer systems described by Laemmli ( ).

Plasmid Preparation:

Article Title: Cellular Cholesterol Facilitates the Postentry Replication Cycle of Herpes Simplex Virus 1
Article Snippet: Samples were treated with 2 μg/ml DNase (Bio-Rad), and viral genomic DNA was extracted using a QIAamp Blood DNA kit (Qiagen, Valencia, CA). .. A standard curve for the assay was generated using known quantities of a plasmid containing the HSV-1 ICP22 coding region diluted in glycogen.

Software:

Article Title: Over-Expression of 60s Ribosomal L23a Is Associated with Cellular Proliferation in SAG Resistant Clinical Isolates of Leishmania donovani
Article Snippet: Isolated RNA were treated with DNase and quantified in Gene-quant (Biorad). .. For qRT-PCR primers were designed using Beacon Designer software (Biorad). qRT-PCR was carried out with 12.5 ml of SYBER green PCR master mix (TAKARA), 1 µg of cDNA, and primers at a final concentration of 200 nM in a final volume of 25 µl.

Article Title: Enhanced Formation and Disordered Regulation of NETs in Myeloperoxidase-ANCA–Associated Microscopic Polyangiitis
Article Snippet: The NETs were treated by 1 U/ml DNase I with 10 µ g/ml or 100 µg/ml antihuman MPO antibody (AbD Serotec) at room temperature. .. Before and 10, 20, and 30 minutes after the treatment, the residual NETs were determined using ImageJ software.

Irradiation:

Article Title: Cancer therapies activate RIG-I-like receptor pathway through endogenous non-coding RNAs
Article Snippet: Mock irradiated control reactions either did not generate a signal or were approximately 10 units greater than the plus RT reactions. .. For the quantification of U1 and U2 RNA in RNA purified from pulldown experiments and in fractionated nuclear and cytosolic portions of cell lines, qRT-PCR was conducted on cDNA prepared from DNase I-treated RNA samples, and the following primers were used: Reactions were run on the BioRad iCycler IQ5 in a final volume of 25ul with 4.0uM of the U1 (or U2) forward and reverse primers (or 0.8uM of the forward and reverse primers for 18S , GAPDH , and β-actin ), using 2x Power SYBR® Green Master Mix (LifeTechnologies).

RNA Extraction:

Article Title: Over-Expression of 60s Ribosomal L23a Is Associated with Cellular Proliferation in SAG Resistant Clinical Isolates of Leishmania donovani
Article Snippet: Real time quantitative analysis of 60sRL23a expression in clinical isolates 10 million log phase parasites each of S1, S2, R1, R2, R3 were taken for RNA extraction. .. Isolated RNA were treated with DNase and quantified in Gene-quant (Biorad).

Article Title: Antiproliferative Effects of the Natural Oxadiazine Nocuolin A Are Associated With Impairment of Mitochondrial Oxidative Phosphorylation
Article Snippet: Paragraph title: RNA Extraction ... After exposure, cells were washed with PBS, and total RNA was prepared using RNeasy miniprep kit (Qiagen, Chatsworth, CA) with a removal of DNA contamination step by DNAse I digestion (BioRad Laboratories, USA).

Article Title: The Hsp70 co-chaperone Ydj1/HDJ2 regulates ribonucleotide reductase activity
Article Snippet: Cells were treated with 200 mM for 2 hours and total RNA was extracted from cells using a GeneJet RNA extraction kit. .. DNAse I activity was stopped by adding 1 μL of 50 mM EDTA and incubating at 65°C for 10 minutes. cDNA synthesis was carried out by iScript reverse transcriptase (BioRad) on aliquots of 1 μg RNA.

Article Title: Dissecting the nascent human transcriptome by analysing the RNA content of transcription factories
Article Snippet: Paragraph title: Isolation of sub-cellular fractions and RNA extraction ... Then, following treatment with DNase I and caspases as above, released ‘factory’ complexes were resolved in two-dimensional acrylamide-agarose composite gels using the Mini-Protean 3 system (BioRad); distributions of nascent transcripts was visualized by autoradiography, while those of RNA polymerase II by western blotting using the iBlot transfer system (Invitrogen) and a mouse monoclonal antibody against its RPB1 subunit (7C2; ref. )—all as described in ref. ( ).

Agarose Gel Electrophoresis:

Article Title: Activation of Silenced Cytokine Gene Promoters by the Synergistic Effect of TBP-TALE and VP64-TALE Activators
Article Snippet: Primer specificity was confirmed by agarose gel electrophoresis and melt curve analysis. .. To determine percent accessibility to DNase I digestion, the EpiQ chromatin analysis tool (Bio-Rad) was used to analyze each sample using the following equation: % Accessibility to DNase I = (1 − 2ΔCt ) × 100.

Article Title: Antiproliferative Effects of the Natural Oxadiazine Nocuolin A Are Associated With Impairment of Mitochondrial Oxidative Phosphorylation
Article Snippet: After exposure, cells were washed with PBS, and total RNA was prepared using RNeasy miniprep kit (Qiagen, Chatsworth, CA) with a removal of DNA contamination step by DNAse I digestion (BioRad Laboratories, USA). .. The quantification of RNA was determined on a Biotek, HT Synergy reader using a Take3™ multi-volume plate, and the quality of RNA was verified on an 1% agarose gel.

Electrophoresis:

Article Title: DNase-chip: a high-resolution method to identify DNase I hypersensitive sites using tiled microarrays
Article Snippet: .. We used pulsed field gel electrophoresis (pulse time, 20–60 s for 18 h) to identify the three concentrations of DNase I to be used for DNase-chip (Bio-Rad). .. After digestion with concentration ‘A’, most DNA was very high molecular weight ( > 1,000 kb), but there was some digestion resulting in smaller fragments (50–1,000 kb).

Ethanol Precipitation:

Article Title: Virulence Gene Profiling and Pathogenicity Characterization of Non-Typhoidal Salmonella Accounted for Invasive Disease in Humans
Article Snippet: .. Purified RNA was secondarily treated with an RNase-free DNase I followed by ethanol-precipitation and 150 ng of DNase I-treated RNA was subjected to a first strand cDNA synthesis, using the iScript cDNA synthesis kit (Bio-Rad Laboratories) according to the kit protocol. .. 2 µl from the reverse transcription reaction were used as a template for a PCR amplification using the primers listed in .

Quantitation Assay:

Article Title: The Hsp70 co-chaperone Ydj1/HDJ2 regulates ribonucleotide reductase activity
Article Snippet: Paragraph title: Quantitation of yeast RNR subunit transcription ... DNAse I activity was stopped by adding 1 μL of 50 mM EDTA and incubating at 65°C for 10 minutes. cDNA synthesis was carried out by iScript reverse transcriptase (BioRad) on aliquots of 1 μg RNA.

Spectrophotometry:

Article Title: Social Isolation Stress Induces Anxious-Depressive-Like Behavior and Alterations of Neuroplasticity-Related Genes in Adult Male Mice
Article Snippet: .. RNA Isolation and Reverse Transcription Total RNA from HPC and PFC was extracted using the Direct-zol RNA MiniPrep (Zymo Research, purchased by Euroclone, Milan, Italy) according to manufacturer's instructions and then quantified by absorption at A 260 nm measured by UV spectrophotometry (NanoVue, GE Healthcare Europe GmbH, Milan, Italy). cDNA was synthesized from 1 μ g of DNase-treated total RNA using the iScript kit (Biorad, Milan, Italy) according to manufacturer's instructions. .. Quantitative Real-Time PCR qPCR analysis of mRNA expression levels was performed on a 7900HT Fast PCR System (Applied Biosystems, Monza, Italy) and iTaq Universal SYBR Green supermix (Biorad), as previously described [ ].

Concentration Assay:

Article Title: Over-Expression of 60s Ribosomal L23a Is Associated with Cellular Proliferation in SAG Resistant Clinical Isolates of Leishmania donovani
Article Snippet: Isolated RNA were treated with DNase and quantified in Gene-quant (Biorad). .. For qRT-PCR primers were designed using Beacon Designer software (Biorad). qRT-PCR was carried out with 12.5 ml of SYBER green PCR master mix (TAKARA), 1 µg of cDNA, and primers at a final concentration of 200 nM in a final volume of 25 µl.

Article Title: Dissecting the nascent human transcriptome by analysing the RNA content of transcription factories
Article Snippet: Intact HUVECs were permeabilized in PB* with 0.025% saponin and RNA polymerases were allowed to extend their transcripts by < 40 nt in the presence of a ‘run-on’ mix (complete PB* plus 100 μM of ATP, CTP and GTP, 0.1 μM UTP, 50 μCi/ml [32 P]UTP and MgCl2 to a concentration equimolar to that of all the triphosphates) that allowed subsequent detection of labelled RNA by autoradiography. .. Then, following treatment with DNase I and caspases as above, released ‘factory’ complexes were resolved in two-dimensional acrylamide-agarose composite gels using the Mini-Protean 3 system (BioRad); distributions of nascent transcripts was visualized by autoradiography, while those of RNA polymerase II by western blotting using the iBlot transfer system (Invitrogen) and a mouse monoclonal antibody against its RPB1 subunit (7C2; ref. )—all as described in ref. ( ).

Article Title: DNase-chip: a high-resolution method to identify DNase I hypersensitive sites using tiled microarrays
Article Snippet: We used pulsed field gel electrophoresis (pulse time, 20–60 s for 18 h) to identify the three concentrations of DNase I to be used for DNase-chip (Bio-Rad). .. After digestion with concentration ‘A’, most DNA was very high molecular weight ( > 1,000 kb), but there was some digestion resulting in smaller fragments (50–1,000 kb).

Molecular Weight:

Article Title: DNase-chip: a high-resolution method to identify DNase I hypersensitive sites using tiled microarrays
Article Snippet: We used pulsed field gel electrophoresis (pulse time, 20–60 s for 18 h) to identify the three concentrations of DNase I to be used for DNase-chip (Bio-Rad). .. After digestion with concentration ‘A’, most DNA was very high molecular weight ( > 1,000 kb), but there was some digestion resulting in smaller fragments (50–1,000 kb).

Marker:

Article Title: Cloning and Analysis of the Capsid Morphogenesis Genes of Pseudomonas aeruginosa Bacteriophage D3: Another Example of Protein Chain Mail?
Article Snippet: Bio-Rad high- and low-molecular-weight marker proteins were similarly prepared. .. To solve the viscosity problem resulting from the release of phage DNA, 0.5 to 1 μl of DNase I (1 mg/ml in 10 mM Tris–10 mM MgCl2 –20% [vol/vol] glycerol) was added to 50 μl of phage lysate and incubated at room temperature for 10 min. For most of the analyses, a Bio-Rad Mini-PROTEAN II apparatus was employed with 10 or 12.5% resolving gels and a 4.5% stacking gel and the buffer systems described by Laemmli ( ).

Staining:

Article Title: Cloning and Analysis of the Capsid Morphogenesis Genes of Pseudomonas aeruginosa Bacteriophage D3: Another Example of Protein Chain Mail?
Article Snippet: To solve the viscosity problem resulting from the release of phage DNA, 0.5 to 1 μl of DNase I (1 mg/ml in 10 mM Tris–10 mM MgCl2 –20% [vol/vol] glycerol) was added to 50 μl of phage lysate and incubated at room temperature for 10 min. For most of the analyses, a Bio-Rad Mini-PROTEAN II apparatus was employed with 10 or 12.5% resolving gels and a 4.5% stacking gel and the buffer systems described by Laemmli ( ). .. The gels were stained with Coomassie brilliant blue G250 in perchloric acid ( ) or the Bio-Rad Silver Stain or Silver Stain Plus kit.

Similar Products

  • Logo
  • About
  • News
  • Press Release
  • Team
  • Advisors
  • Partners
  • Contact
  • Bioz Stars
  • Bioz vStars
  • 99
    Bio-Rad dnase i
    Overview of the approach. ( A ) Strategy. HUVECs were stimulated ± TNFα for 0 or 30 min, and harvested; intact nuclei were isolated in a physiological buffer and digested with DNase I. After spinning, most chromatin (and ‘chromatin-associated’ RNA) is released into the supernatant. The resulting pellet was treated with a mixture of caspases to detach factories (red) from the underlying sub-structure (brown line). Following centrifugation, the supernatant yields ‘factory’ RNA, whilst the pellet contains factory remnants and residual chromatin. Total (ribodepleted), and poly(A) + -enriched RNA fractions were also collected. ( B ) Genome browser view of a typical, constitutively-expressed, gene ( EDN1 ) illustrating read densities obtained by sequencing total, factory and poly(A) +  RNA. ( C ) Average coverage profiles from two biological replicates along 2722 and 2386 concatenated exons and introns, respectively, belonging to 309 TNFα-responsive genes. Plots also include 100 bp up/downstream of exons/introns.
    Dnase I, supplied by Bio-Rad, used in various techniques. Bioz Stars score: 99/100, based on 104 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/dnase i/product/Bio-Rad
    Average 99 stars, based on 104 article reviews
    Price from $9.99 to $1999.99
    dnase i - by Bioz Stars, 2020-04
    99/100 stars
      Buy from Supplier

    Image Search Results


    Overview of the approach. ( A ) Strategy. HUVECs were stimulated ± TNFα for 0 or 30 min, and harvested; intact nuclei were isolated in a physiological buffer and digested with DNase I. After spinning, most chromatin (and ‘chromatin-associated’ RNA) is released into the supernatant. The resulting pellet was treated with a mixture of caspases to detach factories (red) from the underlying sub-structure (brown line). Following centrifugation, the supernatant yields ‘factory’ RNA, whilst the pellet contains factory remnants and residual chromatin. Total (ribodepleted), and poly(A) + -enriched RNA fractions were also collected. ( B ) Genome browser view of a typical, constitutively-expressed, gene ( EDN1 ) illustrating read densities obtained by sequencing total, factory and poly(A) +  RNA. ( C ) Average coverage profiles from two biological replicates along 2722 and 2386 concatenated exons and introns, respectively, belonging to 309 TNFα-responsive genes. Plots also include 100 bp up/downstream of exons/introns.

    Journal: Nucleic Acids Research

    Article Title: Dissecting the nascent human transcriptome by analysing the RNA content of transcription factories

    doi: 10.1093/nar/gkv390

    Figure Lengend Snippet: Overview of the approach. ( A ) Strategy. HUVECs were stimulated ± TNFα for 0 or 30 min, and harvested; intact nuclei were isolated in a physiological buffer and digested with DNase I. After spinning, most chromatin (and ‘chromatin-associated’ RNA) is released into the supernatant. The resulting pellet was treated with a mixture of caspases to detach factories (red) from the underlying sub-structure (brown line). Following centrifugation, the supernatant yields ‘factory’ RNA, whilst the pellet contains factory remnants and residual chromatin. Total (ribodepleted), and poly(A) + -enriched RNA fractions were also collected. ( B ) Genome browser view of a typical, constitutively-expressed, gene ( EDN1 ) illustrating read densities obtained by sequencing total, factory and poly(A) + RNA. ( C ) Average coverage profiles from two biological replicates along 2722 and 2386 concatenated exons and introns, respectively, belonging to 309 TNFα-responsive genes. Plots also include 100 bp up/downstream of exons/introns.

    Article Snippet: Then, following treatment with DNase I and caspases as above, released ‘factory’ complexes were resolved in two-dimensional acrylamide-agarose composite gels using the Mini-Protean 3 system (BioRad); distributions of nascent transcripts was visualized by autoradiography, while those of RNA polymerase II by western blotting using the iBlot transfer system (Invitrogen) and a mouse monoclonal antibody against its RPB1 subunit (7C2; ref. )—all as described in ref. ( ).

    Techniques: Isolation, Centrifugation, Sequencing