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monarch spin pcr and dna cleanup kit  (New England Biolabs)


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    New England Biolabs monarch spin pcr and dna cleanup kit
    Monarch Spin Pcr And Dna Cleanup Kit, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 1452 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/dna+cleanup+kit/Monarch+Spin+PCR+%26+DNA+Cleanup+Kit/pmc13010419-14-0-10
    Average 99 stars, based on 1452 article reviews
    monarch spin pcr and dna cleanup kit - by Bioz Stars, 2026-10
    99/100 stars

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    Related Articles

    Amplification:

    Article Title: Investigation of TRMT61B methyltransferase activity on mRNA and its effects on translation
    Article Snippet: Excess primers were removed by treating 50 μl PCR reactions with 3 μl of thermolabile exonuclease 1 (NEB, M0568L) for 4 min at 37°C before heat inactivating for 1 min at 80°C. .. Amplified DNA was then purified using a Monarch Spin PCR and DNA Cleanup Kit (5 μg) (NEB, T1130S). ..

    Purification:

    Article Title: Investigation of TRMT61B methyltransferase activity on mRNA and its effects on translation
    Article Snippet: Excess primers were removed by treating 50 μl PCR reactions with 3 μl of thermolabile exonuclease 1 (NEB, M0568L) for 4 min at 37°C before heat inactivating for 1 min at 80°C. .. Amplified DNA was then purified using a Monarch Spin PCR and DNA Cleanup Kit (5 μg) (NEB, T1130S). ..

    Article Title: DNA-PKcs inhibitor AZD7648 reveals sgRNA cross-contaminants and enhanced sensitivity of genome engineering off-target activity in HSPCs
    Article Snippet: .. For next generation sequencing (NGS), regions of interest were PCR-amplified and purified using a PCR and DNA Cleanup Kit (NEB, #T1130). .. To add Illumina adaptors to the amplicons, amplicons were processed using the NEBNext ® UltraTM II DNA Library Prep Kit for Illumina (NEB, #E7645S), and indexed using NEBNext ® Multiplex Oligos for Illumina ® (96 Unique Dual Index Primer Pairs) (NEB, #E6440S) following the manufacturer instructions.

    Article Title: Molecular insights into the dual activation of PomZ, a ParA/MinD P-loop ATPase, by the two ATPase-activating proteins PomX and PomY.
    Article Snippet: .. After purification with a Monarch Spin PCR and DNA Cleanup kit (New England Biolabs), the double-biotinyla ted fragment (100 nM) was immobilized on the biosensor in BLI binding buffer (50 mM HEPES/NaOH [pH 7.2], 50 mM KCl, 0.1 mM EDTA, 10% [vol/vol] glycerol, 10 mM MgCl2, 1 mM β-mercaptoethanol, 0.05% [vol/vol] Tween 20), and a stable baseline was established. ..

    Article Title: DNA-PKcs inhibitor AZD7648 reveals sgRNA cross-contaminants and enhanced sensitivity of genome engineering off-target activity in HSPCs.
    Article Snippet: .. For next generation sequencing (NGS), regions of interest were PCRamplified and purified using a PCR and DNA Cleanup Kit (NEB, #T1130). .. To add Illumina adaptors to the amplicons, amplicons were processed using the NEBNext ® UltraTM II DNA Library Prep Kit for Illumina (NEB, #E7645S), and indexed using NEBNext ® Multiplex Oligos for Illumina ® (96 Unique Dual Index Primer Pairs) (NEB, #E6440S) following the manufacturer instructions.

    Article Title: Integration of ploidy, Orc1/Cdc6 homolog function, and lysine acetylation with phosphate limitation and UV stress responses of Haloferax volcanii.
    Article Snippet: .. PCR products of expected size were purified using Monarch PCR and DNA Cleanup Kit (NEB, cat. no. T1130L). .. The purified PCR products (insert) and plasmid pJAM503 (vector) were cut with NdeI and BlpI in 1X rCutsmart buffer for 2 h at 37 °C according to the supplier (NEB).

    Polymerase Chain Reaction:

    Article Title: Investigation of TRMT61B methyltransferase activity on mRNA and its effects on translation
    Article Snippet: Excess primers were removed by treating 50 μl PCR reactions with 3 μl of thermolabile exonuclease 1 (NEB, M0568L) for 4 min at 37°C before heat inactivating for 1 min at 80°C. .. Amplified DNA was then purified using a Monarch Spin PCR and DNA Cleanup Kit (5 μg) (NEB, T1130S). ..

    Article Title: DNA-PKcs inhibitor AZD7648 reveals sgRNA cross-contaminants and enhanced sensitivity of genome engineering off-target activity in HSPCs
    Article Snippet: .. For next generation sequencing (NGS), regions of interest were PCR-amplified and purified using a PCR and DNA Cleanup Kit (NEB, #T1130). .. To add Illumina adaptors to the amplicons, amplicons were processed using the NEBNext ® UltraTM II DNA Library Prep Kit for Illumina (NEB, #E7645S), and indexed using NEBNext ® Multiplex Oligos for Illumina ® (96 Unique Dual Index Primer Pairs) (NEB, #E6440S) following the manufacturer instructions.

    Article Title: Coordinated synthesis of double-stranded DNA by a dual reverse transcriptase immune system
    Article Snippet: Following lysis, DNA was purified with the Genomic DNA Clean & Concentrator-25 kit (Zymo). .. Following incubation at 55 °C for 7 minutes, the reaction was treated with 16 U mL −1 Proteinase K (NEB) and cleaned up with the Monarch Spin PCR and DNA Cleanup kit (NEB) kit. .. PCR amplification and Illumina barcoding was done for 20 cycles with KAPA HiFi Hotstart ReadyMix, with an annealing temperature of 63 °C and an extension time of 1 min.

    Article Title: Molecular insights into the dual activation of PomZ, a ParA/MinD P-loop ATPase, by the two ATPase-activating proteins PomX and PomY.
    Article Snippet: .. After purification with a Monarch Spin PCR and DNA Cleanup kit (New England Biolabs), the double-biotinyla ted fragment (100 nM) was immobilized on the biosensor in BLI binding buffer (50 mM HEPES/NaOH [pH 7.2], 50 mM KCl, 0.1 mM EDTA, 10% [vol/vol] glycerol, 10 mM MgCl2, 1 mM β-mercaptoethanol, 0.05% [vol/vol] Tween 20), and a stable baseline was established. ..

    Article Title: DNA-PKcs inhibitor AZD7648 reveals sgRNA cross-contaminants and enhanced sensitivity of genome engineering off-target activity in HSPCs.
    Article Snippet: .. For next generation sequencing (NGS), regions of interest were PCRamplified and purified using a PCR and DNA Cleanup Kit (NEB, #T1130). .. To add Illumina adaptors to the amplicons, amplicons were processed using the NEBNext ® UltraTM II DNA Library Prep Kit for Illumina (NEB, #E7645S), and indexed using NEBNext ® Multiplex Oligos for Illumina ® (96 Unique Dual Index Primer Pairs) (NEB, #E6440S) following the manufacturer instructions.

    Article Title: Protocol for detecting in vitro riboswitch conformational switching using a fluorescence anisotropy single-stranded RNA-targeting approach.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Chemicals, peptides, and recombinant proteins HBS-N buffer 10X Cytiva Lifesciences #BR100828 MgCl 2 (1 M) InvitrogenTM #AM9530G Diethyl pyrocarbonate (DEPC) Bio Basic #DB0154 TritonTM X-100 Bio Basic #TB0198 Nuclease-Free Water (not DEPC-treated) Thermo Fisher ScientificTM #AM9937 Milli-Q water N/A N/A PhusionTM High-Fidelity DNA Polymerase New England Biolabs M0530S Deoxynucleotide (dNTP) Solution Mix New England Biolabs N0447S Critical commercial assays MEGAshortscriptTM T7 Transcription Kit InvitrogenTM AM1354 Monarch® Spin PCR and DNA Cleanup Kit (5 μg) New England Biolabs #T1130S Monarch® Spin RNA Cleanup Kit New England Biolabs #T2040S Software and algorithms GraphPad Prism 9 GraphPad N/A Gen5 Microplate Reader and Imager Software Agilent Technologies 11-120-510 Other NanoDropTM One Microvolume UV-Vis Spectrophotometer Thermo Fisher ScientificTM #13400519 96-well conical black plate Thermo Fisher ScientificTM #249945 BioTek Cytation 5 plate reader Agilent Technologies CYT5MF Green Fluorescence Polarization Optical Filter Cube Agilent Technologies #8040561 FisherbrandTM Mini Vortex Mixer Thermo Fisher ScientificTM 14-955-151 EZee Mini-Centrifuges for 0.2/0.5/1.5/2.0 mL Tubes & PCR 8 Strips, Blue SCILOGEX #914031419999 5415C Centrifuge Eppendorf EP-5415C Pyrex® round media storage bottles and reusable screw caps Corning® Life Sciences CLS13951L Digital Dry Bath, 115V Bio-Rad #1660562 ProFlexTM PCR System, 3 3 32-well Thermo Fisher ScientificTM #4484073 150 mL Vacuum Filter, 0.22 μm pore, PES Membrane, Sterile Corning® Life Sciences #431153 STAR Protocols 7, 104439, June 19, 2026 7 Alternatives: The fluorescence polarization buffers can be prepared using molecular biology grade HEPES, NaCl and MgCl 2 solutions. pH should be monitored and adjusted to 7.4 ± 0.1. ..

    Article Title: Intragenic Transcription from Defective HIV Proviruses Triggers Interferon Responses in Myeloid Cells
    Article Snippet: .. SDS was used to denature the enzyme, then PCR cleanup performed to purify the annealed primers using Monarch Spin PCR and DNA Cleanup Kit (New England Biolabs Catalog No. T1130L). .. This product and the BW1721 backbone were digested separately with BbsI at 37°C for 2 hours then purified via PCR cleanup kit (New England Biolabs Catalog No. T1130L).

    Article Title: Integration of ploidy, Orc1/Cdc6 homolog function, and lysine acetylation with phosphate limitation and UV stress responses of Haloferax volcanii.
    Article Snippet: .. PCR products of expected size were purified using Monarch PCR and DNA Cleanup Kit (NEB, cat. no. T1130L). .. The purified PCR products (insert) and plasmid pJAM503 (vector) were cut with NdeI and BlpI in 1X rCutsmart buffer for 2 h at 37 °C according to the supplier (NEB).

    Next-Generation Sequencing:

    Article Title: DNA-PKcs inhibitor AZD7648 reveals sgRNA cross-contaminants and enhanced sensitivity of genome engineering off-target activity in HSPCs
    Article Snippet: .. For next generation sequencing (NGS), regions of interest were PCR-amplified and purified using a PCR and DNA Cleanup Kit (NEB, #T1130). .. To add Illumina adaptors to the amplicons, amplicons were processed using the NEBNext ® UltraTM II DNA Library Prep Kit for Illumina (NEB, #E7645S), and indexed using NEBNext ® Multiplex Oligos for Illumina ® (96 Unique Dual Index Primer Pairs) (NEB, #E6440S) following the manufacturer instructions.

    Article Title: DNA-PKcs inhibitor AZD7648 reveals sgRNA cross-contaminants and enhanced sensitivity of genome engineering off-target activity in HSPCs.
    Article Snippet: .. For next generation sequencing (NGS), regions of interest were PCRamplified and purified using a PCR and DNA Cleanup Kit (NEB, #T1130). .. To add Illumina adaptors to the amplicons, amplicons were processed using the NEBNext ® UltraTM II DNA Library Prep Kit for Illumina (NEB, #E7645S), and indexed using NEBNext ® Multiplex Oligos for Illumina ® (96 Unique Dual Index Primer Pairs) (NEB, #E6440S) following the manufacturer instructions.

    Incubation:

    Article Title: Coordinated synthesis of double-stranded DNA by a dual reverse transcriptase immune system
    Article Snippet: Following lysis, DNA was purified with the Genomic DNA Clean & Concentrator-25 kit (Zymo). .. Following incubation at 55 °C for 7 minutes, the reaction was treated with 16 U mL −1 Proteinase K (NEB) and cleaned up with the Monarch Spin PCR and DNA Cleanup kit (NEB) kit. .. PCR amplification and Illumina barcoding was done for 20 cycles with KAPA HiFi Hotstart ReadyMix, with an annealing temperature of 63 °C and an extension time of 1 min.

    Binding Assay:

    Article Title: Molecular insights into the dual activation of PomZ, a ParA/MinD P-loop ATPase, by the two ATPase-activating proteins PomX and PomY.
    Article Snippet: .. After purification with a Monarch Spin PCR and DNA Cleanup kit (New England Biolabs), the double-biotinyla ted fragment (100 nM) was immobilized on the biosensor in BLI binding buffer (50 mM HEPES/NaOH [pH 7.2], 50 mM KCl, 0.1 mM EDTA, 10% [vol/vol] glycerol, 10 mM MgCl2, 1 mM β-mercaptoethanol, 0.05% [vol/vol] Tween 20), and a stable baseline was established. ..

    Recombinant:

    Article Title: Protocol for detecting in vitro riboswitch conformational switching using a fluorescence anisotropy single-stranded RNA-targeting approach.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Chemicals, peptides, and recombinant proteins HBS-N buffer 10X Cytiva Lifesciences #BR100828 MgCl 2 (1 M) InvitrogenTM #AM9530G Diethyl pyrocarbonate (DEPC) Bio Basic #DB0154 TritonTM X-100 Bio Basic #TB0198 Nuclease-Free Water (not DEPC-treated) Thermo Fisher ScientificTM #AM9937 Milli-Q water N/A N/A PhusionTM High-Fidelity DNA Polymerase New England Biolabs M0530S Deoxynucleotide (dNTP) Solution Mix New England Biolabs N0447S Critical commercial assays MEGAshortscriptTM T7 Transcription Kit InvitrogenTM AM1354 Monarch® Spin PCR and DNA Cleanup Kit (5 μg) New England Biolabs #T1130S Monarch® Spin RNA Cleanup Kit New England Biolabs #T2040S Software and algorithms GraphPad Prism 9 GraphPad N/A Gen5 Microplate Reader and Imager Software Agilent Technologies 11-120-510 Other NanoDropTM One Microvolume UV-Vis Spectrophotometer Thermo Fisher ScientificTM #13400519 96-well conical black plate Thermo Fisher ScientificTM #249945 BioTek Cytation 5 plate reader Agilent Technologies CYT5MF Green Fluorescence Polarization Optical Filter Cube Agilent Technologies #8040561 FisherbrandTM Mini Vortex Mixer Thermo Fisher ScientificTM 14-955-151 EZee Mini-Centrifuges for 0.2/0.5/1.5/2.0 mL Tubes & PCR 8 Strips, Blue SCILOGEX #914031419999 5415C Centrifuge Eppendorf EP-5415C Pyrex® round media storage bottles and reusable screw caps Corning® Life Sciences CLS13951L Digital Dry Bath, 115V Bio-Rad #1660562 ProFlexTM PCR System, 3 3 32-well Thermo Fisher ScientificTM #4484073 150 mL Vacuum Filter, 0.22 μm pore, PES Membrane, Sterile Corning® Life Sciences #431153 STAR Protocols 7, 104439, June 19, 2026 7 Alternatives: The fluorescence polarization buffers can be prepared using molecular biology grade HEPES, NaCl and MgCl 2 solutions. pH should be monitored and adjusted to 7.4 ± 0.1. ..

    Software:

    Article Title: Protocol for detecting in vitro riboswitch conformational switching using a fluorescence anisotropy single-stranded RNA-targeting approach.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Chemicals, peptides, and recombinant proteins HBS-N buffer 10X Cytiva Lifesciences #BR100828 MgCl 2 (1 M) InvitrogenTM #AM9530G Diethyl pyrocarbonate (DEPC) Bio Basic #DB0154 TritonTM X-100 Bio Basic #TB0198 Nuclease-Free Water (not DEPC-treated) Thermo Fisher ScientificTM #AM9937 Milli-Q water N/A N/A PhusionTM High-Fidelity DNA Polymerase New England Biolabs M0530S Deoxynucleotide (dNTP) Solution Mix New England Biolabs N0447S Critical commercial assays MEGAshortscriptTM T7 Transcription Kit InvitrogenTM AM1354 Monarch® Spin PCR and DNA Cleanup Kit (5 μg) New England Biolabs #T1130S Monarch® Spin RNA Cleanup Kit New England Biolabs #T2040S Software and algorithms GraphPad Prism 9 GraphPad N/A Gen5 Microplate Reader and Imager Software Agilent Technologies 11-120-510 Other NanoDropTM One Microvolume UV-Vis Spectrophotometer Thermo Fisher ScientificTM #13400519 96-well conical black plate Thermo Fisher ScientificTM #249945 BioTek Cytation 5 plate reader Agilent Technologies CYT5MF Green Fluorescence Polarization Optical Filter Cube Agilent Technologies #8040561 FisherbrandTM Mini Vortex Mixer Thermo Fisher ScientificTM 14-955-151 EZee Mini-Centrifuges for 0.2/0.5/1.5/2.0 mL Tubes & PCR 8 Strips, Blue SCILOGEX #914031419999 5415C Centrifuge Eppendorf EP-5415C Pyrex® round media storage bottles and reusable screw caps Corning® Life Sciences CLS13951L Digital Dry Bath, 115V Bio-Rad #1660562 ProFlexTM PCR System, 3 3 32-well Thermo Fisher ScientificTM #4484073 150 mL Vacuum Filter, 0.22 μm pore, PES Membrane, Sterile Corning® Life Sciences #431153 STAR Protocols 7, 104439, June 19, 2026 7 Alternatives: The fluorescence polarization buffers can be prepared using molecular biology grade HEPES, NaCl and MgCl 2 solutions. pH should be monitored and adjusted to 7.4 ± 0.1. ..

    Spectrophotometry:

    Article Title: Protocol for detecting in vitro riboswitch conformational switching using a fluorescence anisotropy single-stranded RNA-targeting approach.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Chemicals, peptides, and recombinant proteins HBS-N buffer 10X Cytiva Lifesciences #BR100828 MgCl 2 (1 M) InvitrogenTM #AM9530G Diethyl pyrocarbonate (DEPC) Bio Basic #DB0154 TritonTM X-100 Bio Basic #TB0198 Nuclease-Free Water (not DEPC-treated) Thermo Fisher ScientificTM #AM9937 Milli-Q water N/A N/A PhusionTM High-Fidelity DNA Polymerase New England Biolabs M0530S Deoxynucleotide (dNTP) Solution Mix New England Biolabs N0447S Critical commercial assays MEGAshortscriptTM T7 Transcription Kit InvitrogenTM AM1354 Monarch® Spin PCR and DNA Cleanup Kit (5 μg) New England Biolabs #T1130S Monarch® Spin RNA Cleanup Kit New England Biolabs #T2040S Software and algorithms GraphPad Prism 9 GraphPad N/A Gen5 Microplate Reader and Imager Software Agilent Technologies 11-120-510 Other NanoDropTM One Microvolume UV-Vis Spectrophotometer Thermo Fisher ScientificTM #13400519 96-well conical black plate Thermo Fisher ScientificTM #249945 BioTek Cytation 5 plate reader Agilent Technologies CYT5MF Green Fluorescence Polarization Optical Filter Cube Agilent Technologies #8040561 FisherbrandTM Mini Vortex Mixer Thermo Fisher ScientificTM 14-955-151 EZee Mini-Centrifuges for 0.2/0.5/1.5/2.0 mL Tubes & PCR 8 Strips, Blue SCILOGEX #914031419999 5415C Centrifuge Eppendorf EP-5415C Pyrex® round media storage bottles and reusable screw caps Corning® Life Sciences CLS13951L Digital Dry Bath, 115V Bio-Rad #1660562 ProFlexTM PCR System, 3 3 32-well Thermo Fisher ScientificTM #4484073 150 mL Vacuum Filter, 0.22 μm pore, PES Membrane, Sterile Corning® Life Sciences #431153 STAR Protocols 7, 104439, June 19, 2026 7 Alternatives: The fluorescence polarization buffers can be prepared using molecular biology grade HEPES, NaCl and MgCl 2 solutions. pH should be monitored and adjusted to 7.4 ± 0.1. ..

    Fluorescence:

    Article Title: Protocol for detecting in vitro riboswitch conformational switching using a fluorescence anisotropy single-stranded RNA-targeting approach.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Chemicals, peptides, and recombinant proteins HBS-N buffer 10X Cytiva Lifesciences #BR100828 MgCl 2 (1 M) InvitrogenTM #AM9530G Diethyl pyrocarbonate (DEPC) Bio Basic #DB0154 TritonTM X-100 Bio Basic #TB0198 Nuclease-Free Water (not DEPC-treated) Thermo Fisher ScientificTM #AM9937 Milli-Q water N/A N/A PhusionTM High-Fidelity DNA Polymerase New England Biolabs M0530S Deoxynucleotide (dNTP) Solution Mix New England Biolabs N0447S Critical commercial assays MEGAshortscriptTM T7 Transcription Kit InvitrogenTM AM1354 Monarch® Spin PCR and DNA Cleanup Kit (5 μg) New England Biolabs #T1130S Monarch® Spin RNA Cleanup Kit New England Biolabs #T2040S Software and algorithms GraphPad Prism 9 GraphPad N/A Gen5 Microplate Reader and Imager Software Agilent Technologies 11-120-510 Other NanoDropTM One Microvolume UV-Vis Spectrophotometer Thermo Fisher ScientificTM #13400519 96-well conical black plate Thermo Fisher ScientificTM #249945 BioTek Cytation 5 plate reader Agilent Technologies CYT5MF Green Fluorescence Polarization Optical Filter Cube Agilent Technologies #8040561 FisherbrandTM Mini Vortex Mixer Thermo Fisher ScientificTM 14-955-151 EZee Mini-Centrifuges for 0.2/0.5/1.5/2.0 mL Tubes & PCR 8 Strips, Blue SCILOGEX #914031419999 5415C Centrifuge Eppendorf EP-5415C Pyrex® round media storage bottles and reusable screw caps Corning® Life Sciences CLS13951L Digital Dry Bath, 115V Bio-Rad #1660562 ProFlexTM PCR System, 3 3 32-well Thermo Fisher ScientificTM #4484073 150 mL Vacuum Filter, 0.22 μm pore, PES Membrane, Sterile Corning® Life Sciences #431153 STAR Protocols 7, 104439, June 19, 2026 7 Alternatives: The fluorescence polarization buffers can be prepared using molecular biology grade HEPES, NaCl and MgCl 2 solutions. pH should be monitored and adjusted to 7.4 ± 0.1. ..

    Membrane:

    Article Title: Protocol for detecting in vitro riboswitch conformational switching using a fluorescence anisotropy single-stranded RNA-targeting approach.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Chemicals, peptides, and recombinant proteins HBS-N buffer 10X Cytiva Lifesciences #BR100828 MgCl 2 (1 M) InvitrogenTM #AM9530G Diethyl pyrocarbonate (DEPC) Bio Basic #DB0154 TritonTM X-100 Bio Basic #TB0198 Nuclease-Free Water (not DEPC-treated) Thermo Fisher ScientificTM #AM9937 Milli-Q water N/A N/A PhusionTM High-Fidelity DNA Polymerase New England Biolabs M0530S Deoxynucleotide (dNTP) Solution Mix New England Biolabs N0447S Critical commercial assays MEGAshortscriptTM T7 Transcription Kit InvitrogenTM AM1354 Monarch® Spin PCR and DNA Cleanup Kit (5 μg) New England Biolabs #T1130S Monarch® Spin RNA Cleanup Kit New England Biolabs #T2040S Software and algorithms GraphPad Prism 9 GraphPad N/A Gen5 Microplate Reader and Imager Software Agilent Technologies 11-120-510 Other NanoDropTM One Microvolume UV-Vis Spectrophotometer Thermo Fisher ScientificTM #13400519 96-well conical black plate Thermo Fisher ScientificTM #249945 BioTek Cytation 5 plate reader Agilent Technologies CYT5MF Green Fluorescence Polarization Optical Filter Cube Agilent Technologies #8040561 FisherbrandTM Mini Vortex Mixer Thermo Fisher ScientificTM 14-955-151 EZee Mini-Centrifuges for 0.2/0.5/1.5/2.0 mL Tubes & PCR 8 Strips, Blue SCILOGEX #914031419999 5415C Centrifuge Eppendorf EP-5415C Pyrex® round media storage bottles and reusable screw caps Corning® Life Sciences CLS13951L Digital Dry Bath, 115V Bio-Rad #1660562 ProFlexTM PCR System, 3 3 32-well Thermo Fisher ScientificTM #4484073 150 mL Vacuum Filter, 0.22 μm pore, PES Membrane, Sterile Corning® Life Sciences #431153 STAR Protocols 7, 104439, June 19, 2026 7 Alternatives: The fluorescence polarization buffers can be prepared using molecular biology grade HEPES, NaCl and MgCl 2 solutions. pH should be monitored and adjusted to 7.4 ± 0.1. ..

    Sterility:

    Article Title: Protocol for detecting in vitro riboswitch conformational switching using a fluorescence anisotropy single-stranded RNA-targeting approach.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Chemicals, peptides, and recombinant proteins HBS-N buffer 10X Cytiva Lifesciences #BR100828 MgCl 2 (1 M) InvitrogenTM #AM9530G Diethyl pyrocarbonate (DEPC) Bio Basic #DB0154 TritonTM X-100 Bio Basic #TB0198 Nuclease-Free Water (not DEPC-treated) Thermo Fisher ScientificTM #AM9937 Milli-Q water N/A N/A PhusionTM High-Fidelity DNA Polymerase New England Biolabs M0530S Deoxynucleotide (dNTP) Solution Mix New England Biolabs N0447S Critical commercial assays MEGAshortscriptTM T7 Transcription Kit InvitrogenTM AM1354 Monarch® Spin PCR and DNA Cleanup Kit (5 μg) New England Biolabs #T1130S Monarch® Spin RNA Cleanup Kit New England Biolabs #T2040S Software and algorithms GraphPad Prism 9 GraphPad N/A Gen5 Microplate Reader and Imager Software Agilent Technologies 11-120-510 Other NanoDropTM One Microvolume UV-Vis Spectrophotometer Thermo Fisher ScientificTM #13400519 96-well conical black plate Thermo Fisher ScientificTM #249945 BioTek Cytation 5 plate reader Agilent Technologies CYT5MF Green Fluorescence Polarization Optical Filter Cube Agilent Technologies #8040561 FisherbrandTM Mini Vortex Mixer Thermo Fisher ScientificTM 14-955-151 EZee Mini-Centrifuges for 0.2/0.5/1.5/2.0 mL Tubes & PCR 8 Strips, Blue SCILOGEX #914031419999 5415C Centrifuge Eppendorf EP-5415C Pyrex® round media storage bottles and reusable screw caps Corning® Life Sciences CLS13951L Digital Dry Bath, 115V Bio-Rad #1660562 ProFlexTM PCR System, 3 3 32-well Thermo Fisher ScientificTM #4484073 150 mL Vacuum Filter, 0.22 μm pore, PES Membrane, Sterile Corning® Life Sciences #431153 STAR Protocols 7, 104439, June 19, 2026 7 Alternatives: The fluorescence polarization buffers can be prepared using molecular biology grade HEPES, NaCl and MgCl 2 solutions. pH should be monitored and adjusted to 7.4 ± 0.1. ..



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    New England Biolabs monarch spin pcr dna clean up kit
    Changes in H3K27ac enrichment at the KLF6 enhancer regions following BRD4 and p300 inhibition. (A) Schematic representation of three constituent enhancers located in proximity to the KLF6 locus. (B) Pharmacological inhibition of BRD4 using JQ1 decreased the H3K27ac signal compared with the vehicle control. (C) Pharmacological inhibition of p300 using A-485 decreased the H3K27ac signal compared with the vehicle control. IgG ChIP-quantitative <t>PCR</t> showed minimal enrichment at all KLF6 enhancer regions following treatment with JQ1 and A-485, as well as their respective vehicle controls, confirming low background signal. P-values were determined using unpaired t-test with Welch's correction. *P<0.05. ns, not significant; H3K27ac, acetylation at lysine 27 of histone H3; KLF6, Kruppel-like factor 6; BRD4, bromodomain-containing 4; iSE, Clustered Regularly Interspaced Short Palindromic Repeats Interference-targeted super enhancer; ChIP, chromatin immunoprecipitation.
    Monarch Spin Pcr Dna Clean Up Kit, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    New England Biolabs t1130s
    Changes in H3K27ac enrichment at the KLF6 enhancer regions following BRD4 and p300 inhibition. (A) Schematic representation of three constituent enhancers located in proximity to the KLF6 locus. (B) Pharmacological inhibition of BRD4 using JQ1 decreased the H3K27ac signal compared with the vehicle control. (C) Pharmacological inhibition of p300 using A-485 decreased the H3K27ac signal compared with the vehicle control. IgG ChIP-quantitative <t>PCR</t> showed minimal enrichment at all KLF6 enhancer regions following treatment with JQ1 and A-485, as well as their respective vehicle controls, confirming low background signal. P-values were determined using unpaired t-test with Welch's correction. *P<0.05. ns, not significant; H3K27ac, acetylation at lysine 27 of histone H3; KLF6, Kruppel-like factor 6; BRD4, bromodomain-containing 4; iSE, Clustered Regularly Interspaced Short Palindromic Repeats Interference-targeted super enhancer; ChIP, chromatin immunoprecipitation.
    T1130s, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/dna+cleanup+kit/Monarch+Spin+PCR+%26+DNA+Cleanup+Kit/pmc13107127-99-36-31
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    Changes in H3K27ac enrichment at the KLF6 enhancer regions following BRD4 and p300 inhibition. (A) Schematic representation of three constituent enhancers located in proximity to the KLF6 locus. (B) Pharmacological inhibition of BRD4 using JQ1 decreased the H3K27ac signal compared with the vehicle control. (C) Pharmacological inhibition of p300 using A-485 decreased the H3K27ac signal compared with the vehicle control. IgG ChIP-quantitative PCR showed minimal enrichment at all KLF6 enhancer regions following treatment with JQ1 and A-485, as well as their respective vehicle controls, confirming low background signal. P-values were determined using unpaired t-test with Welch's correction. *P<0.05. ns, not significant; H3K27ac, acetylation at lysine 27 of histone H3; KLF6, Kruppel-like factor 6; BRD4, bromodomain-containing 4; iSE, Clustered Regularly Interspaced Short Palindromic Repeats Interference-targeted super enhancer; ChIP, chromatin immunoprecipitation.

    Journal: Oncology Reports

    Article Title: Perturbation of BRD4 and p300 activity suppresses super enhancer-driven KLF6 expression in renal carcinoma

    doi: 10.3892/or.2026.9118

    Figure Lengend Snippet: Changes in H3K27ac enrichment at the KLF6 enhancer regions following BRD4 and p300 inhibition. (A) Schematic representation of three constituent enhancers located in proximity to the KLF6 locus. (B) Pharmacological inhibition of BRD4 using JQ1 decreased the H3K27ac signal compared with the vehicle control. (C) Pharmacological inhibition of p300 using A-485 decreased the H3K27ac signal compared with the vehicle control. IgG ChIP-quantitative PCR showed minimal enrichment at all KLF6 enhancer regions following treatment with JQ1 and A-485, as well as their respective vehicle controls, confirming low background signal. P-values were determined using unpaired t-test with Welch's correction. *P<0.05. ns, not significant; H3K27ac, acetylation at lysine 27 of histone H3; KLF6, Kruppel-like factor 6; BRD4, bromodomain-containing 4; iSE, Clustered Regularly Interspaced Short Palindromic Repeats Interference-targeted super enhancer; ChIP, chromatin immunoprecipitation.

    Article Snippet: To reverse cross-links and elute bound DNA, 100 μl elution buffer was added and samples were incubated at 65°C with shaking at 1,000 rpm for 3 h. DNA was purified using the Monarch PCR & DNA Cleanup kit (New England BioLabs, Inc.) according to the manufacturer's protocol. qPCR was performed by adding the purified, de-crosslinked DNA to a reaction mix containing 2X PowerUp SYBR Green Master Mix (Thermo Fisher Scientific, Inc.) and 10 μM forward and reverse ChIP-qPCR iSE_1, ChIP qPCR iSE_2 and ChIP qPCR iSE_3 primers ( ).

    Techniques: Inhibition, Control, Real-time Polymerase Chain Reaction, CRISPR, Chromatin Immunoprecipitation

    CRISPR-mediated deacetylation of SE_1 decreases KLF6 expression. (A) Western blot analysis confirmed stable dCas9-HDAC3 expression in 786-M1A cells transduced with single guide RNAs. (B) qPCR analysis showed reduced KLF6 expression in iSE_1-transduced cells compared with NTC cells. P-values were determined by one-way ANOVA followed by Dunnett's multiple-comparison post hoc test. (C) ChIP-qPCR showed decreased H3K27ac enrichment at SE_1 in iSE_1-transduced cells compared with NTC cells. IgG ChIP-qPCR showed minimal enrichment at SE_1 in both NTC and iSE_1 transduced cells, confirming low background signal and antibody specificity. P-values were determined using an unpaired t-test with Welch's correction. *P<0.05, **P<0.005. dCas9-HDAC3, dead Cas9-histone deacetylase 3; qPCR, quantitative PCR; KLF6, Kruppel-like factor 6; iSE, CRISPRi-targeted super enhancer; NTC, non-targeting control; ChIP, chromatin immunoprecipitation; H3K27ac, acetylation at lysine 27 of histone H3; ns, not significant.

    Journal: Oncology Reports

    Article Title: Perturbation of BRD4 and p300 activity suppresses super enhancer-driven KLF6 expression in renal carcinoma

    doi: 10.3892/or.2026.9118

    Figure Lengend Snippet: CRISPR-mediated deacetylation of SE_1 decreases KLF6 expression. (A) Western blot analysis confirmed stable dCas9-HDAC3 expression in 786-M1A cells transduced with single guide RNAs. (B) qPCR analysis showed reduced KLF6 expression in iSE_1-transduced cells compared with NTC cells. P-values were determined by one-way ANOVA followed by Dunnett's multiple-comparison post hoc test. (C) ChIP-qPCR showed decreased H3K27ac enrichment at SE_1 in iSE_1-transduced cells compared with NTC cells. IgG ChIP-qPCR showed minimal enrichment at SE_1 in both NTC and iSE_1 transduced cells, confirming low background signal and antibody specificity. P-values were determined using an unpaired t-test with Welch's correction. *P<0.05, **P<0.005. dCas9-HDAC3, dead Cas9-histone deacetylase 3; qPCR, quantitative PCR; KLF6, Kruppel-like factor 6; iSE, CRISPRi-targeted super enhancer; NTC, non-targeting control; ChIP, chromatin immunoprecipitation; H3K27ac, acetylation at lysine 27 of histone H3; ns, not significant.

    Article Snippet: To reverse cross-links and elute bound DNA, 100 μl elution buffer was added and samples were incubated at 65°C with shaking at 1,000 rpm for 3 h. DNA was purified using the Monarch PCR & DNA Cleanup kit (New England BioLabs, Inc.) according to the manufacturer's protocol. qPCR was performed by adding the purified, de-crosslinked DNA to a reaction mix containing 2X PowerUp SYBR Green Master Mix (Thermo Fisher Scientific, Inc.) and 10 μM forward and reverse ChIP-qPCR iSE_1, ChIP qPCR iSE_2 and ChIP qPCR iSE_3 primers ( ).

    Techniques: CRISPR, Expressing, Western Blot, Transduction, Comparison, ChIP-qPCR, Histone Deacetylase Assay, Real-time Polymerase Chain Reaction, Control, Chromatin Immunoprecipitation