atp  (New England Biolabs)


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  • 99
    Name:
    Adenosine 5 Triphosphate ATP
    Description:
    Adenosine 5 Triphosphate ATP 5 ml
    Catalog Number:
    p0756l
    Price:
    140
    Size:
    5 ml
    Category:
    Nucleotides
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    Structured Review

    New England Biolabs atp
    Adenosine 5 Triphosphate ATP
    Adenosine 5 Triphosphate ATP 5 ml
    https://www.bioz.com/result/atp/product/New England Biolabs
    Average 99 stars, based on 399 article reviews
    Price from $9.99 to $1999.99
    atp - by Bioz Stars, 2020-03
    99/100 stars

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    Related Articles

    Clone Assay:

    Article Title: Methodologies for In Vitro Cloning of Small RNAs and Application for Plant Genome(s)
    Article Snippet: Paragraph title: 3. Cloning with Adenylated Linkers ... A truncated T4 RNA Ligase called T4 RNL-2 truncated, that specifically and efficiently ligates adenylated linkers to RNAs in the absence of ATP without producing side reactions is available from New England BioLabs [ – ].

    Article Title: Longitudinal assessment of tumor development using cancer avatars derived from genetically engineered pluripotent stem cells
    Article Snippet: .. Annealed oligonucleotides were cloned into px458 by incubating 25 ng px458, 1 μM annealed oligonucleotides, 1× CutSmart buffer (New England Biolabs), 1 mM ATP (New England Biolabs), 10U BBSI-HF (New England Biolabs) and 200U T4 ligase (New England Biolabs) at 37 °C for 5 minutes, 23 °C for 5 min for 30 cycles. .. Correct cloning of each sgRNA sequence was confirmed by Sanger sequencing using U6 sequencing primer: 5′-GATACAAGGCTGTTAGAGAGATAATT-3′.

    Amplification:

    Article Title: Identification of the Maize Gravitropism Gene lazy plant1 by a Transposon-Tagging Genome Resequencing Strategy
    Article Snippet: The reaction buffer was exchanged with 10 mM Tris pH 8.0 and the adenylated fragments were ligated to Illumina paired-end adapters ( ) using the following conditions: 19.6 µl of adenylated fragments in a 30 µl reaction containing adapters (final concentration 0.33 µM), 3,000 units T4 DNA Ligase (NEB), and 1X T4 DNA Ligase Reaction Buffer (NEB) supplemented with 2 mM ATP (NEB). .. The adapted fragments were amplified by PCR using modified Illumina PCR primers ( ).

    Synthesized:

    Article Title: Methodologies for In Vitro Cloning of Small RNAs and Application for Plant Genome(s)
    Article Snippet: The synthesis reaction begins with an deoxyoligonucleotide synthesized with a 3′ block, such as ddC, and a 5′ phosphate. .. A truncated T4 RNA Ligase called T4 RNL-2 truncated, that specifically and efficiently ligates adenylated linkers to RNAs in the absence of ATP without producing side reactions is available from New England BioLabs [ – ].

    Article Title: A high resolution map of a cyanobacterial transcriptome
    Article Snippet: Gels were stained with Sybr Gold (Invitrogen) and a 25- to 30-nucleotide band was excised using a synthesized 28-nucleotide RNA and denatured 10-bp DNA ladder (Invitrogen) as standards. .. The reaction was precipitated, resuspended, briefly denatured, and poly-(A) tailed in a 25 μl reaction with 1 × poly-(A) polymerase buffer (NEB), 5 units SUPERase·In, 1 mM ATP, and 1.25 units E. coli poly-(A) polymerase (NEB) at 37°C for 10 minutes.

    Blocking Assay:

    Article Title: Methodologies for In Vitro Cloning of Small RNAs and Application for Plant Genome(s)
    Article Snippet: The synthesis reaction begins with an deoxyoligonucleotide synthesized with a 3′ block, such as ddC, and a 5′ phosphate. .. A truncated T4 RNA Ligase called T4 RNL-2 truncated, that specifically and efficiently ligates adenylated linkers to RNAs in the absence of ATP without producing side reactions is available from New England BioLabs [ – ].

    Incubation:

    Article Title: Identification of the Maize Gravitropism Gene lazy plant1 by a Transposon-Tagging Genome Resequencing Strategy
    Article Snippet: The reaction buffer was exchanged with 10 mM Tris pH 8.0 and the adenylated fragments were ligated to Illumina paired-end adapters ( ) using the following conditions: 19.6 µl of adenylated fragments in a 30 µl reaction containing adapters (final concentration 0.33 µM), 3,000 units T4 DNA Ligase (NEB), and 1X T4 DNA Ligase Reaction Buffer (NEB) supplemented with 2 mM ATP (NEB). .. Reactions were incubated at 20° for 60 min followed by 65° for 15 min. Unligated adapters were removed using the QIAquick PCR Purification Kit (Qiagen) according to the manufacturer’s protocol.

    Article Title: RNAs Containing Modified Nucleotides Fail To Trigger RIG-I Conformational Changes for Innate Immune Signaling
    Article Snippet: The reaction volume was 500 µl and included 1 mg to 2 mg total lysate protein, RNA (33 nM to 1 µM), and 2 mM AMP-PNP (Roche) or ATP (New England Biolabs). .. The reaction mixtures were incubated for 30 min at room temperature to permit RIG-I:RNA complex formation.

    Article Title: 12R‐lipoxygenase activity is reduced in photodamaged facial stratum corneum. A novel activity assay indicates a key function in corneocyte maturation
    Article Snippet: Each tape was incubated with 0.1% Tergitol™‐NP40 in 50 mmol L−1 Tris (Sigma‐Aldrich) with Pierce™ Protease Inhibitor Tablets (1 per 10 mL; Thermo Fisher Scientific) for 20 min on a shaker with 600 rpm at 4°C. .. The reaction buffer was composed of 50 mmol L−1 Tris, 4 mmol L−1 CaCl2 , 4 mmol L−1 EDTA, 0–50 μ mol L−1 ethyl linoleic acid (Sigma‐Aldrich), 5 μ mol L−1 ATP (New England Biolabs, Hitchin, U.K.) and 5 μ mol L−1 2′,7′‐dichlorodihydrofluorescein diacetate (H2 DCFDA) (Thermo Fisher Scientific).

    Article Title: Rapid Identification of Major QTLs Associated with Rice Grain Weight and Their Utilization
    Article Snippet: .. In short, genomic DNA of two DNA bulks and two parents were incubated at 37°C with Mse I (New England Biolabs, NEB), T4 DNA ligase (NEB), ATP (NEB), and Mse I adapter. ..

    Article Title: Signal-dependent fra-2 regulation in skeletal muscle reserve and satellite cells
    Article Snippet: .. In-gel digestion and mass spectrometry analysis The kinase assay as indicated above was repeated, replacing the radiolabelled γ32 P-ATP with unlabeled ATP (NEB, P0756S), and the band shift was observed once again in a Coomassie blue-stained gel when GST-Fra-2 was incubated with ERK 2; however, an 8% SDS-PAGE was run to achieve greater resolution of the bands. ..

    Article Title: Mechanosensitive pannexin-1 channels mediate microvascular metastatic cell survival
    Article Snippet: For PANX1 inhibition, cells were incubated with 100 µM 10 Panx1 or scrambled peptides for 10 min in 100% PBS. .. For ATP rescue experiments, 100 µM ATP (NEB) was added to the 10 Panx1 hypotonic solution, and an equivalent volume of water was added to the control hypotonic solution.

    Mass Spectrometry:

    Article Title: Signal-dependent fra-2 regulation in skeletal muscle reserve and satellite cells
    Article Snippet: .. In-gel digestion and mass spectrometry analysis The kinase assay as indicated above was repeated, replacing the radiolabelled γ32 P-ATP with unlabeled ATP (NEB, P0756S), and the band shift was observed once again in a Coomassie blue-stained gel when GST-Fra-2 was incubated with ERK 2; however, an 8% SDS-PAGE was run to achieve greater resolution of the bands. ..

    Modification:

    Article Title: Identification of the Maize Gravitropism Gene lazy plant1 by a Transposon-Tagging Genome Resequencing Strategy
    Article Snippet: The reaction buffer was exchanged with 10 mM Tris pH 8.0 and the adenylated fragments were ligated to Illumina paired-end adapters ( ) using the following conditions: 19.6 µl of adenylated fragments in a 30 µl reaction containing adapters (final concentration 0.33 µM), 3,000 units T4 DNA Ligase (NEB), and 1X T4 DNA Ligase Reaction Buffer (NEB) supplemented with 2 mM ATP (NEB). .. The adapted fragments were amplified by PCR using modified Illumina PCR primers ( ).

    Article Title: Rapid Identification of Major QTLs Associated with Rice Grain Weight and Their Utilization
    Article Snippet: SLAF library construction and sequencing The construction of SLAF library followed the methods proposed by Sun et al [ ] with little modification. .. In short, genomic DNA of two DNA bulks and two parents were incubated at 37°C with Mse I (New England Biolabs, NEB), T4 DNA ligase (NEB), ATP (NEB), and Mse I adapter.

    Kinase Assay:

    Article Title: Signal-dependent fra-2 regulation in skeletal muscle reserve and satellite cells
    Article Snippet: .. In-gel digestion and mass spectrometry analysis The kinase assay as indicated above was repeated, replacing the radiolabelled γ32 P-ATP with unlabeled ATP (NEB, P0756S), and the band shift was observed once again in a Coomassie blue-stained gel when GST-Fra-2 was incubated with ERK 2; however, an 8% SDS-PAGE was run to achieve greater resolution of the bands. ..

    High Performance Liquid Chromatography:

    Article Title: Signal-dependent fra-2 regulation in skeletal muscle reserve and satellite cells
    Article Snippet: In-gel digestion and mass spectrometry analysis The kinase assay as indicated above was repeated, replacing the radiolabelled γ32 P-ATP with unlabeled ATP (NEB, P0756S), and the band shift was observed once again in a Coomassie blue-stained gel when GST-Fra-2 was incubated with ERK 2; however, an 8% SDS-PAGE was run to achieve greater resolution of the bands. .. Tryptic peptides were loaded onto a HPLC Chip (160 nl high-capacity sample enrichment column and 75 μ m × 150 mm SB-C18 separation column; Agilent Technologies, Santa Clara, CA, USA) and separated by flow rate at 300 nl per minute, with solvent A (0.2% (v/v) formic acid in water) and solvent B (100% acetonitrile) and the following gradients: at 0, 50, 54 and 56 min after injection with 3, 35, 80 and 100% solvent B, respectively.

    Flow Cytometry:

    Article Title: Signal-dependent fra-2 regulation in skeletal muscle reserve and satellite cells
    Article Snippet: In-gel digestion and mass spectrometry analysis The kinase assay as indicated above was repeated, replacing the radiolabelled γ32 P-ATP with unlabeled ATP (NEB, P0756S), and the band shift was observed once again in a Coomassie blue-stained gel when GST-Fra-2 was incubated with ERK 2; however, an 8% SDS-PAGE was run to achieve greater resolution of the bands. .. Tryptic peptides were loaded onto a HPLC Chip (160 nl high-capacity sample enrichment column and 75 μ m × 150 mm SB-C18 separation column; Agilent Technologies, Santa Clara, CA, USA) and separated by flow rate at 300 nl per minute, with solvent A (0.2% (v/v) formic acid in water) and solvent B (100% acetonitrile) and the following gradients: at 0, 50, 54 and 56 min after injection with 3, 35, 80 and 100% solvent B, respectively.

    Ligation:

    Article Title: Methodologies for In Vitro Cloning of Small RNAs and Application for Plant Genome(s)
    Article Snippet: Aravin and Tuschl [ ] showed that the enzyme itself in commercial preparations of T4 RNA Ligase is adenylated and that this can cause circularization of the target RNA species and other unwanted side reactions that severely reduce production of the desired ligation product. .. A truncated T4 RNA Ligase called T4 RNL-2 truncated, that specifically and efficiently ligates adenylated linkers to RNAs in the absence of ATP without producing side reactions is available from New England BioLabs [ – ].

    Article Title: Comparative analysis of the end-joining activity of several DNA ligases
    Article Snippet: .. General materials T4 DNA ligase reaction buffer (50 mM Tris-HCl pH 7.5 @ 25°C, 1 mM ATP and 10 mM MgCl2 ) as a 10x stock, NEBNext® Quick Ligation reaction buffer (66 mM Tris pH 7.6 @ 25°C, 10 mM MgCl2 , 1 mM DTT, 1 mM ATP, 6% Polyethylene glycol (PEG 6000)) as a 5x stock, restriction endonucleases EcoRV, NruI, BstNI, Hpy188I, NdeI, BamHI, as well as λ DNA, 1 M DTT, 6x Purple Loading Dye with SDS, Proteinase K and 10 mM ATP were obtained from New England Biolabs (NEB, Ipswich, MA). .. Tris-HCl (1 M pH 7.5 @ 25°C) was obtained from Amresco (Solon, OH).

    Article Title: Rapid Identification of Major QTLs Associated with Rice Grain Weight and Their Utilization
    Article Snippet: In short, genomic DNA of two DNA bulks and two parents were incubated at 37°C with Mse I (New England Biolabs, NEB), T4 DNA ligase (NEB), ATP (NEB), and Mse I adapter. .. The PCR reaction was performed using diluted restriction ligation samples, dNTP, Taq DNA polymerase (NEB) and Mse I primer containing barcode 1.

    Article Title: Comprehensive whole DNA methylome analysis by integrating MeDIP-seq and MRE-seq
    Article Snippet: Denosine 5´-Triphosphate (ATP) (NEB; cat. no. P0756S). .. Reagents for adapter ligation.

    Protease Inhibitor:

    Article Title: 12R‐lipoxygenase activity is reduced in photodamaged facial stratum corneum. A novel activity assay indicates a key function in corneocyte maturation
    Article Snippet: Each tape was incubated with 0.1% Tergitol™‐NP40 in 50 mmol L−1 Tris (Sigma‐Aldrich) with Pierce™ Protease Inhibitor Tablets (1 per 10 mL; Thermo Fisher Scientific) for 20 min on a shaker with 600 rpm at 4°C. .. The reaction buffer was composed of 50 mmol L−1 Tris, 4 mmol L−1 CaCl2 , 4 mmol L−1 EDTA, 0–50 μ mol L−1 ethyl linoleic acid (Sigma‐Aldrich), 5 μ mol L−1 ATP (New England Biolabs, Hitchin, U.K.) and 5 μ mol L−1 2′,7′‐dichlorodihydrofluorescein diacetate (H2 DCFDA) (Thermo Fisher Scientific).

    Cell Culture:

    Article Title: Longitudinal assessment of tumor development using cancer avatars derived from genetically engineered pluripotent stem cells
    Article Snippet: Annealed oligonucleotides were cloned into px458 by incubating 25 ng px458, 1 μM annealed oligonucleotides, 1× CutSmart buffer (New England Biolabs), 1 mM ATP (New England Biolabs), 10U BBSI-HF (New England Biolabs) and 200U T4 ligase (New England Biolabs) at 37 °C for 5 minutes, 23 °C for 5 min for 30 cycles. .. Human iPSCs were cultured in 10 µM Y-27632 RHO/ROCK pathway inhibitor for 2 h before dissociation.

    Inhibition:

    Article Title: Mechanosensitive pannexin-1 channels mediate microvascular metastatic cell survival
    Article Snippet: For PANX1 inhibition, cells were incubated with 100 µM 10 Panx1 or scrambled peptides for 10 min in 100% PBS. .. For ATP rescue experiments, 100 µM ATP (NEB) was added to the 10 Panx1 hypotonic solution, and an equivalent volume of water was added to the control hypotonic solution.

    Sequencing:

    Article Title: Longitudinal assessment of tumor development using cancer avatars derived from genetically engineered pluripotent stem cells
    Article Snippet: Annealed oligonucleotides were cloned into px458 by incubating 25 ng px458, 1 μM annealed oligonucleotides, 1× CutSmart buffer (New England Biolabs), 1 mM ATP (New England Biolabs), 10U BBSI-HF (New England Biolabs) and 200U T4 ligase (New England Biolabs) at 37 °C for 5 minutes, 23 °C for 5 min for 30 cycles. .. Correct cloning of each sgRNA sequence was confirmed by Sanger sequencing using U6 sequencing primer: 5′-GATACAAGGCTGTTAGAGAGATAATT-3′.

    Article Title: Rapid Identification of Major QTLs Associated with Rice Grain Weight and Their Utilization
    Article Snippet: Paragraph title: SLAF library construction and sequencing ... In short, genomic DNA of two DNA bulks and two parents were incubated at 37°C with Mse I (New England Biolabs, NEB), T4 DNA ligase (NEB), ATP (NEB), and Mse I adapter.

    Injection:

    Article Title: Signal-dependent fra-2 regulation in skeletal muscle reserve and satellite cells
    Article Snippet: In-gel digestion and mass spectrometry analysis The kinase assay as indicated above was repeated, replacing the radiolabelled γ32 P-ATP with unlabeled ATP (NEB, P0756S), and the band shift was observed once again in a Coomassie blue-stained gel when GST-Fra-2 was incubated with ERK 2; however, an 8% SDS-PAGE was run to achieve greater resolution of the bands. .. Tryptic peptides were loaded onto a HPLC Chip (160 nl high-capacity sample enrichment column and 75 μ m × 150 mm SB-C18 separation column; Agilent Technologies, Santa Clara, CA, USA) and separated by flow rate at 300 nl per minute, with solvent A (0.2% (v/v) formic acid in water) and solvent B (100% acetonitrile) and the following gradients: at 0, 50, 54 and 56 min after injection with 3, 35, 80 and 100% solvent B, respectively.

    Binding Assay:

    Article Title: RNAs Containing Modified Nucleotides Fail To Trigger RIG-I Conformational Changes for Innate Immune Signaling
    Article Snippet: Confluent 10-cm-diameter dishes of Huh7 or doxycycline-induced 293TdoxRIG-I cells were scraped in binding buffer (25 mM Tris HCl [pH 7.5], 150 mM NaCl, 1.5 mM MgCl2 ) supplemented with 0.5% Triton X-100 without protease inhibitors. .. The reaction volume was 500 µl and included 1 mg to 2 mg total lysate protein, RNA (33 nM to 1 µM), and 2 mM AMP-PNP (Roche) or ATP (New England Biolabs).

    RNA Sequencing Assay:

    Article Title: A high resolution map of a cyanobacterial transcriptome
    Article Snippet: Paragraph title: Strand-specific RNA sequencing ... The reaction was precipitated, resuspended, briefly denatured, and poly-(A) tailed in a 25 μl reaction with 1 × poly-(A) polymerase buffer (NEB), 5 units SUPERase·In, 1 mM ATP, and 1.25 units E. coli poly-(A) polymerase (NEB) at 37°C for 10 minutes.

    Magnetic Beads:

    Article Title: Transposon insertion profiling by sequencing (TIPseq) for mapping LINE-1 insertions in the human genome
    Article Snippet: Reagents Molecular biology grade water (Corning, cat. no. 46–000-CM) Oligonucleotides and primers (IDT), see Table 25 mM MgCl2 (Life Technologies, cat. no. R0971) 10 mM Tris-EDTA (TE) buffer, pH 8.0 (Quality Biological, cat. no. 351–011-131) 1 M Tris-HCl buffer, pH 8.0 (Quality Biological, cat. no. 351–007-101) Ethanol, Absolute (200 Proof), Molecular Biology Grade (Fisher Scientific, cat. no. BP2818500) (CAUTION Ethanol is highly flammable) Ase I (NEB, cat. no. R0526S) BspH I (NEB, cat. no. R0517S) BstY I (NEB, cat. no. R0523S) Hind III (NEB, cat. no. R0104S) Nco I (NEB, cat. no. R0193S) Pst I (NEB, cat. no. R0140S) RNase cocktail enzyme mix (Life Technologies, cat. no. AM2286) T4 DNA ligase (NEB, cat. no. M0202S) Adenosine 5′-Triphosphate, ATP (NEB, cat. no. P0756S) TaKaRa Ex Taq DNA polymerase, Hot-Start (Clontech, cat. no. RR006A) QiaQuick PCR Purification Kit (Qiagen, cat. no. 28106) Zymoclean Gel DNA Recovery Kit (Zymo Research, cat. no D4002) Ultrapure Agarose (Life Technologies, cat. no. 16500–100) Gel Loading Dye, 6x (NEB, cat. no. B7022S) UltraPure Tris-Acetate-EDTA (TAE) buffer, 10x (Life Technologies, cat. no. 15558–026) Ethidium Bromide solution, 10 mg/mL (Bio-Rad, cat. no. 161–0433) (CAUTION Ethidium bromide is toxic and is a potential mutagen and carcinogen.) .. 2-log ladder (NEB, cat. no. N3200S) Qubit dsDNA HS assay kit (ThermoFisher Scientific, cat. no. Q32851) Agilent DNA 1000 kit (Agilent, cat. no. 5067–1504) Agencourt AMPure XP Magnetic Beads (Beckman Coulter, cat. no. A63882) KAPA HTP Library Preparation Kit for Illumina (KAPA Biosystems, cat. no. KK8234).

    Mutagenesis:

    Article Title: Mechanosensitive pannexin-1 channels mediate microvascular metastatic cell survival
    Article Snippet: When comparing wild-type and mutant PANX1-expressing cells, replicate plates of cells were counted at the time of the assay for normalization. .. For ATP rescue experiments, 100 µM ATP (NEB) was added to the 10 Panx1 hypotonic solution, and an equivalent volume of water was added to the control hypotonic solution.

    Electrophoretic Mobility Shift Assay:

    Article Title: Signal-dependent fra-2 regulation in skeletal muscle reserve and satellite cells
    Article Snippet: .. In-gel digestion and mass spectrometry analysis The kinase assay as indicated above was repeated, replacing the radiolabelled γ32 P-ATP with unlabeled ATP (NEB, P0756S), and the band shift was observed once again in a Coomassie blue-stained gel when GST-Fra-2 was incubated with ERK 2; however, an 8% SDS-PAGE was run to achieve greater resolution of the bands. ..

    Purification:

    Article Title: Identification of the Maize Gravitropism Gene lazy plant1 by a Transposon-Tagging Genome Resequencing Strategy
    Article Snippet: The reaction buffer was exchanged with 10 mM Tris pH 8.0 and the adenylated fragments were ligated to Illumina paired-end adapters ( ) using the following conditions: 19.6 µl of adenylated fragments in a 30 µl reaction containing adapters (final concentration 0.33 µM), 3,000 units T4 DNA Ligase (NEB), and 1X T4 DNA Ligase Reaction Buffer (NEB) supplemented with 2 mM ATP (NEB). .. Reactions were incubated at 20° for 60 min followed by 65° for 15 min. Unligated adapters were removed using the QIAquick PCR Purification Kit (Qiagen) according to the manufacturer’s protocol.

    Article Title: Methodologies for In Vitro Cloning of Small RNAs and Application for Plant Genome(s)
    Article Snippet: Once purified, the linker, with the form rApp-(dNTP)n-ddC, will react with the free 3′ hydroxyl of an RNA in the presence of T4 RNA Ligase and the absence of ATP to create a 3′-linkered RNA plus AMP. .. A truncated T4 RNA Ligase called T4 RNL-2 truncated, that specifically and efficiently ligates adenylated linkers to RNAs in the absence of ATP without producing side reactions is available from New England BioLabs [ – ].

    Article Title: Using specific length amplified fragment sequencing to construct the high-density genetic map for Vitis (Vitis vinifera L. × Vitis amurensis Rupr.)
    Article Snippet: The genomic DNA from each sample was treated with Rsa I, Hae III (NEB, Ipswich, MA, USA), T4 DNA ligase (NEB), and ATP (NEB), and maintained at 37°C. .. The PCR products were purified using E.Z.N.A.

    Article Title: Rapid Identification of Major QTLs Associated with Rice Grain Weight and Their Utilization
    Article Snippet: In short, genomic DNA of two DNA bulks and two parents were incubated at 37°C with Mse I (New England Biolabs, NEB), T4 DNA ligase (NEB), ATP (NEB), and Mse I adapter. .. The PCR products were purified using EZNAH Cycle Pure Kit (Omega) and pooled.

    Article Title: Transposon insertion profiling by sequencing (TIPseq) for mapping LINE-1 insertions in the human genome
    Article Snippet: .. Reagents Molecular biology grade water (Corning, cat. no. 46–000-CM) Oligonucleotides and primers (IDT), see Table 25 mM MgCl2 (Life Technologies, cat. no. R0971) 10 mM Tris-EDTA (TE) buffer, pH 8.0 (Quality Biological, cat. no. 351–011-131) 1 M Tris-HCl buffer, pH 8.0 (Quality Biological, cat. no. 351–007-101) Ethanol, Absolute (200 Proof), Molecular Biology Grade (Fisher Scientific, cat. no. BP2818500) (CAUTION Ethanol is highly flammable) Ase I (NEB, cat. no. R0526S) BspH I (NEB, cat. no. R0517S) BstY I (NEB, cat. no. R0523S) Hind III (NEB, cat. no. R0104S) Nco I (NEB, cat. no. R0193S) Pst I (NEB, cat. no. R0140S) RNase cocktail enzyme mix (Life Technologies, cat. no. AM2286) T4 DNA ligase (NEB, cat. no. M0202S) Adenosine 5′-Triphosphate, ATP (NEB, cat. no. P0756S) TaKaRa Ex Taq DNA polymerase, Hot-Start (Clontech, cat. no. RR006A) QiaQuick PCR Purification Kit (Qiagen, cat. no. 28106) Zymoclean Gel DNA Recovery Kit (Zymo Research, cat. no D4002) Ultrapure Agarose (Life Technologies, cat. no. 16500–100) Gel Loading Dye, 6x (NEB, cat. no. B7022S) UltraPure Tris-Acetate-EDTA (TAE) buffer, 10x (Life Technologies, cat. no. 15558–026) Ethidium Bromide solution, 10 mg/mL (Bio-Rad, cat. no. 161–0433) (CAUTION Ethidium bromide is toxic and is a potential mutagen and carcinogen.) .. 2-log ladder (NEB, cat. no. N3200S) Qubit dsDNA HS assay kit (ThermoFisher Scientific, cat. no. Q32851) Agilent DNA 1000 kit (Agilent, cat. no. 5067–1504) Agencourt AMPure XP Magnetic Beads (Beckman Coulter, cat. no. A63882) KAPA HTP Library Preparation Kit for Illumina (KAPA Biosystems, cat. no. KK8234).

    Article Title: The non-canonical poly(A) polymerase FAM46C acts as an onco-suppressor in multiple myeloma
    Article Snippet: .. Polyadenylation assay 150 ng of purified recombinant protein was mixed with 32 P-labeled RNA substrate (A)15 in the presence of 1 mM ATP (NEB), 2 U/µl RNasine (Fermentas), 0.5 mM Mg2+ , or Mn2+ (or both) in PAP buffer (25 mM Tris-HCl pH 7.0, 50 mM KCl, 0.02 mM EDTA, 0.2 mM DTT, 100 µg/ml BSA [Invitrogen], and 10% glycerol). ..

    Polymerase Chain Reaction:

    Article Title: Identification of the Maize Gravitropism Gene lazy plant1 by a Transposon-Tagging Genome Resequencing Strategy
    Article Snippet: The reaction buffer was exchanged with 10 mM Tris pH 8.0 and the adenylated fragments were ligated to Illumina paired-end adapters ( ) using the following conditions: 19.6 µl of adenylated fragments in a 30 µl reaction containing adapters (final concentration 0.33 µM), 3,000 units T4 DNA Ligase (NEB), and 1X T4 DNA Ligase Reaction Buffer (NEB) supplemented with 2 mM ATP (NEB). .. Reactions were incubated at 20° for 60 min followed by 65° for 15 min. Unligated adapters were removed using the QIAquick PCR Purification Kit (Qiagen) according to the manufacturer’s protocol.

    Article Title: Using specific length amplified fragment sequencing to construct the high-density genetic map for Vitis (Vitis vinifera L. × Vitis amurensis Rupr.)
    Article Snippet: The genomic DNA from each sample was treated with Rsa I, Hae III (NEB, Ipswich, MA, USA), T4 DNA ligase (NEB), and ATP (NEB), and maintained at 37°C. .. The restriction-ligation reaction solutions were diluted and mixed with dNTP, Taq DNA polymerase (NEB), and Hae III primer for polymerase chain reaction (PCR) analyses.

    Article Title: Rapid Identification of Major QTLs Associated with Rice Grain Weight and Their Utilization
    Article Snippet: In short, genomic DNA of two DNA bulks and two parents were incubated at 37°C with Mse I (New England Biolabs, NEB), T4 DNA ligase (NEB), ATP (NEB), and Mse I adapter. .. The PCR reaction was performed using diluted restriction ligation samples, dNTP, Taq DNA polymerase (NEB) and Mse I primer containing barcode 1.

    Article Title: Transposon insertion profiling by sequencing (TIPseq) for mapping LINE-1 insertions in the human genome
    Article Snippet: .. Reagents Molecular biology grade water (Corning, cat. no. 46–000-CM) Oligonucleotides and primers (IDT), see Table 25 mM MgCl2 (Life Technologies, cat. no. R0971) 10 mM Tris-EDTA (TE) buffer, pH 8.0 (Quality Biological, cat. no. 351–011-131) 1 M Tris-HCl buffer, pH 8.0 (Quality Biological, cat. no. 351–007-101) Ethanol, Absolute (200 Proof), Molecular Biology Grade (Fisher Scientific, cat. no. BP2818500) (CAUTION Ethanol is highly flammable) Ase I (NEB, cat. no. R0526S) BspH I (NEB, cat. no. R0517S) BstY I (NEB, cat. no. R0523S) Hind III (NEB, cat. no. R0104S) Nco I (NEB, cat. no. R0193S) Pst I (NEB, cat. no. R0140S) RNase cocktail enzyme mix (Life Technologies, cat. no. AM2286) T4 DNA ligase (NEB, cat. no. M0202S) Adenosine 5′-Triphosphate, ATP (NEB, cat. no. P0756S) TaKaRa Ex Taq DNA polymerase, Hot-Start (Clontech, cat. no. RR006A) QiaQuick PCR Purification Kit (Qiagen, cat. no. 28106) Zymoclean Gel DNA Recovery Kit (Zymo Research, cat. no D4002) Ultrapure Agarose (Life Technologies, cat. no. 16500–100) Gel Loading Dye, 6x (NEB, cat. no. B7022S) UltraPure Tris-Acetate-EDTA (TAE) buffer, 10x (Life Technologies, cat. no. 15558–026) Ethidium Bromide solution, 10 mg/mL (Bio-Rad, cat. no. 161–0433) (CAUTION Ethidium bromide is toxic and is a potential mutagen and carcinogen.) .. 2-log ladder (NEB, cat. no. N3200S) Qubit dsDNA HS assay kit (ThermoFisher Scientific, cat. no. Q32851) Agilent DNA 1000 kit (Agilent, cat. no. 5067–1504) Agencourt AMPure XP Magnetic Beads (Beckman Coulter, cat. no. A63882) KAPA HTP Library Preparation Kit for Illumina (KAPA Biosystems, cat. no. KK8234).

    Selection:

    Article Title: A high resolution map of a cyanobacterial transcriptome
    Article Snippet: Fragmented RNA was resuspended in RNA loading buffer (Fisher, Pittsburg, PA, USA), briefly denatured, and loaded in a 15% TBE-Urea polyacrylamide gel (BioRad, Hercules, CA, USA) for size selection. .. The reaction was precipitated, resuspended, briefly denatured, and poly-(A) tailed in a 25 μl reaction with 1 × poly-(A) polymerase buffer (NEB), 5 units SUPERase·In, 1 mM ATP, and 1.25 units E. coli poly-(A) polymerase (NEB) at 37°C for 10 minutes.

    Polyacrylamide Gel Electrophoresis:

    Article Title: Methodologies for In Vitro Cloning of Small RNAs and Application for Plant Genome(s)
    Article Snippet: A truncated T4 RNA Ligase called T4 RNL-2 truncated, that specifically and efficiently ligates adenylated linkers to RNAs in the absence of ATP without producing side reactions is available from New England BioLabs [ – ]. .. Once the target small RNAs are 3′ ligated, any unligated linkers are removed by a denaturing polyacrylamide gel electrophoresis (dPAGE) purification of the ligated material.

    Article Title: The non-canonical poly(A) polymerase FAM46C acts as an onco-suppressor in multiple myeloma
    Article Snippet: Polyadenylation assay 150 ng of purified recombinant protein was mixed with 32 P-labeled RNA substrate (A)15 in the presence of 1 mM ATP (NEB), 2 U/µl RNasine (Fermentas), 0.5 mM Mg2+ , or Mn2+ (or both) in PAP buffer (25 mM Tris-HCl pH 7.0, 50 mM KCl, 0.02 mM EDTA, 0.2 mM DTT, 100 µg/ml BSA [Invitrogen], and 10% glycerol). .. Reaction products were separated in 8 M urea/15% PAGE in 0.5× TBE.

    Chromatin Immunoprecipitation:

    Article Title: Signal-dependent fra-2 regulation in skeletal muscle reserve and satellite cells
    Article Snippet: In-gel digestion and mass spectrometry analysis The kinase assay as indicated above was repeated, replacing the radiolabelled γ32 P-ATP with unlabeled ATP (NEB, P0756S), and the band shift was observed once again in a Coomassie blue-stained gel when GST-Fra-2 was incubated with ERK 2; however, an 8% SDS-PAGE was run to achieve greater resolution of the bands. .. Tryptic peptides were loaded onto a HPLC Chip (160 nl high-capacity sample enrichment column and 75 μ m × 150 mm SB-C18 separation column; Agilent Technologies, Santa Clara, CA, USA) and separated by flow rate at 300 nl per minute, with solvent A (0.2% (v/v) formic acid in water) and solvent B (100% acetonitrile) and the following gradients: at 0, 50, 54 and 56 min after injection with 3, 35, 80 and 100% solvent B, respectively.

    SDS Page:

    Article Title: Signal-dependent fra-2 regulation in skeletal muscle reserve and satellite cells
    Article Snippet: .. In-gel digestion and mass spectrometry analysis The kinase assay as indicated above was repeated, replacing the radiolabelled γ32 P-ATP with unlabeled ATP (NEB, P0756S), and the band shift was observed once again in a Coomassie blue-stained gel when GST-Fra-2 was incubated with ERK 2; however, an 8% SDS-PAGE was run to achieve greater resolution of the bands. ..

    Plasmid Preparation:

    Article Title: Longitudinal assessment of tumor development using cancer avatars derived from genetically engineered pluripotent stem cells
    Article Snippet: Generation of genetically engineered hiPSC clones A plasmid, pSpCas9(BB)-2A-GFP or px458, which expresses Cas9-T2A-GFP and sgRNA , was purchased from Addgene (Plasmid #48138). .. Annealed oligonucleotides were cloned into px458 by incubating 25 ng px458, 1 μM annealed oligonucleotides, 1× CutSmart buffer (New England Biolabs), 1 mM ATP (New England Biolabs), 10U BBSI-HF (New England Biolabs) and 200U T4 ligase (New England Biolabs) at 37 °C for 5 minutes, 23 °C for 5 min for 30 cycles.

    Software:

    Article Title: Characterization of Type II and III Restriction-Modification Systems from Bacillus cereus Strains ATCC 10987 and ATCC 14579
    Article Snippet: Reactions were carried out as previously described ( ) using the indicated amounts (micrograms) of BceSIV with either 1 mM ATP (NEB) or 1 mM GTP (Sigma G8877). .. The maximum apparent velocity ( V max ) was calculated using SoftMax Pro data acquisition and analysis software within the linear range of 20 to 90 s. Control assays were performed in the absence of BceSIV.

    Recombinant:

    Article Title: The non-canonical poly(A) polymerase FAM46C acts as an onco-suppressor in multiple myeloma
    Article Snippet: .. Polyadenylation assay 150 ng of purified recombinant protein was mixed with 32 P-labeled RNA substrate (A)15 in the presence of 1 mM ATP (NEB), 2 U/µl RNasine (Fermentas), 0.5 mM Mg2+ , or Mn2+ (or both) in PAP buffer (25 mM Tris-HCl pH 7.0, 50 mM KCl, 0.02 mM EDTA, 0.2 mM DTT, 100 µg/ml BSA [Invitrogen], and 10% glycerol). ..

    Spectrophotometry:

    Article Title: Characterization of Type II and III Restriction-Modification Systems from Bacillus cereus Strains ATCC 10987 and ATCC 14579
    Article Snippet: Reactions were carried out as previously described ( ) using the indicated amounts (micrograms) of BceSIV with either 1 mM ATP (NEB) or 1 mM GTP (Sigma G8877). .. Reactions were carried out in a UV-transparent clear-bottom 96-well plate at 37°C for 12 min, with data collected every 10 s. The optical density at 340 nm (OD340 ) was read by using a SpectraMax Plus 384 (Molecular Devices, Silicon Valley, CA) spectrophotometer.

    Concentration Assay:

    Article Title: Identification of the Maize Gravitropism Gene lazy plant1 by a Transposon-Tagging Genome Resequencing Strategy
    Article Snippet: .. The reaction buffer was exchanged with 10 mM Tris pH 8.0 and the adenylated fragments were ligated to Illumina paired-end adapters ( ) using the following conditions: 19.6 µl of adenylated fragments in a 30 µl reaction containing adapters (final concentration 0.33 µM), 3,000 units T4 DNA Ligase (NEB), and 1X T4 DNA Ligase Reaction Buffer (NEB) supplemented with 2 mM ATP (NEB). .. Reactions were incubated at 20° for 60 min followed by 65° for 15 min. Unligated adapters were removed using the QIAquick PCR Purification Kit (Qiagen) according to the manufacturer’s protocol.

    Staining:

    Article Title: A high resolution map of a cyanobacterial transcriptome
    Article Snippet: Gels were stained with Sybr Gold (Invitrogen) and a 25- to 30-nucleotide band was excised using a synthesized 28-nucleotide RNA and denatured 10-bp DNA ladder (Invitrogen) as standards. .. The reaction was precipitated, resuspended, briefly denatured, and poly-(A) tailed in a 25 μl reaction with 1 × poly-(A) polymerase buffer (NEB), 5 units SUPERase·In, 1 mM ATP, and 1.25 units E. coli poly-(A) polymerase (NEB) at 37°C for 10 minutes.

    Article Title: Mechanosensitive pannexin-1 channels mediate microvascular metastatic cell survival
    Article Snippet: For ATP rescue experiments, 100 µM ATP (NEB) was added to the 10 Panx1 hypotonic solution, and an equivalent volume of water was added to the control hypotonic solution. .. After deformation, the cells were gently washed twice with 100% PBS, trypsinized, stained with trypan blue (Sigma-Aldrich) and the remaining viable cells were quantified.

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    New England Biolabs adenosine 5 triphosphate atp
    Adenosine 5 Triphosphate Atp, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 32 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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