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  • 99
    New England Biolabs kpni
    In vitro selection process. ( A ) RNA <t>aptamer</t> library format, random region and tetraloop highlighted in black. ( B ) Fraction of RNA recovered from selections against BamHI (blue circles), <t>KpnI</t> (green triangles) and PacI (red squares), as a function of selection round.
    Kpni, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 4092 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    99
    New England Biolabs kpni hf
    Genotyping, survival and tumor progression. ( A ) Genotyping. The ter mutation disrupts a <t>Kpn</t> I restriction site used for genotyping of the ter allele performing <t>PCR</t> amplification and restriction digest. Kpn I digest (black arrows) cleaved the PCR product of 560 bp into 380 bp and 180 bp fragments, N negative control. ( B ) Kaplan-Meyer survival analysis of male and female WKY- Dnd1 ter /Ztm rats carrying heterozygous and homozygous ter alleles compared to wild type animals. ( C ) Sizes of TGCTs and OGCTs after 3, 6 and 9 weeks of age in homozygous WKY- Dnd1 ter /Ztm rats.
    Kpni Hf, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 1190 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/kpni hf/product/New England Biolabs
    Average 99 stars, based on 1190 article reviews
    Price from $9.99 to $1999.99
    kpni hf - by Bioz Stars, 2020-07
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    99
    New England Biolabs kpni bamhi
    Genotyping, survival and tumor progression. ( A ) Genotyping. The ter mutation disrupts a <t>Kpn</t> I restriction site used for genotyping of the ter allele performing <t>PCR</t> amplification and restriction digest. Kpn I digest (black arrows) cleaved the PCR product of 560 bp into 380 bp and 180 bp fragments, N negative control. ( B ) Kaplan-Meyer survival analysis of male and female WKY- Dnd1 ter /Ztm rats carrying heterozygous and homozygous ter alleles compared to wild type animals. ( C ) Sizes of TGCTs and OGCTs after 3, 6 and 9 weeks of age in homozygous WKY- Dnd1 ter /Ztm rats.
    Kpni Bamhi, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 28 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/kpni bamhi/product/New England Biolabs
    Average 99 stars, based on 28 article reviews
    Price from $9.99 to $1999.99
    kpni bamhi - by Bioz Stars, 2020-07
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    99
    New England Biolabs ecori kpni
    Genotyping, survival and tumor progression. ( A ) Genotyping. The ter mutation disrupts a <t>Kpn</t> I restriction site used for genotyping of the ter allele performing <t>PCR</t> amplification and restriction digest. Kpn I digest (black arrows) cleaved the PCR product of 560 bp into 380 bp and 180 bp fragments, N negative control. ( B ) Kaplan-Meyer survival analysis of male and female WKY- Dnd1 ter /Ztm rats carrying heterozygous and homozygous ter alleles compared to wild type animals. ( C ) Sizes of TGCTs and OGCTs after 3, 6 and 9 weeks of age in homozygous WKY- Dnd1 ter /Ztm rats.
    Ecori Kpni, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 34 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/ecori kpni/product/New England Biolabs
    Average 99 stars, based on 34 article reviews
    Price from $9.99 to $1999.99
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    Image Search Results


    In vitro selection process. ( A ) RNA aptamer library format, random region and tetraloop highlighted in black. ( B ) Fraction of RNA recovered from selections against BamHI (blue circles), KpnI (green triangles) and PacI (red squares), as a function of selection round.

    Journal: Nucleic Acids Research

    Article Title: RNA aptamer inhibitors of a restriction endonuclease

    doi: 10.1093/nar/gkv702

    Figure Lengend Snippet: In vitro selection process. ( A ) RNA aptamer library format, random region and tetraloop highlighted in black. ( B ) Fraction of RNA recovered from selections against BamHI (blue circles), KpnI (green triangles) and PacI (red squares), as a function of selection round.

    Article Snippet: Binding reactions contain radiolabeled aptamer (13 nM) and the indicated concentration of KpnI in New England Biolabs 1.1 buffer (10 mM Bis-Tris-Propane-HCl, pH 7, 10 mM MgCl2 , 100 μg/ml bovine serum albumin (BSA)) for 30 min at 37°C.

    Techniques: In Vitro, Selection

    Quantitation of KpnI binding affinity by electrophoretic gel mobility shift assay for ( A ) aptamer 20; ( B ) aptamer 24; ( C ) aptamer 29; and ( D ) aptamer 30. Replicate data are shown as black and gray points.

    Journal: Nucleic Acids Research

    Article Title: RNA aptamer inhibitors of a restriction endonuclease

    doi: 10.1093/nar/gkv702

    Figure Lengend Snippet: Quantitation of KpnI binding affinity by electrophoretic gel mobility shift assay for ( A ) aptamer 20; ( B ) aptamer 24; ( C ) aptamer 29; and ( D ) aptamer 30. Replicate data are shown as black and gray points.

    Article Snippet: Binding reactions contain radiolabeled aptamer (13 nM) and the indicated concentration of KpnI in New England Biolabs 1.1 buffer (10 mM Bis-Tris-Propane-HCl, pH 7, 10 mM MgCl2 , 100 μg/ml bovine serum albumin (BSA)) for 30 min at 37°C.

    Techniques: Quantitation Assay, Binding Assay, Mobility Shift

    Titration of 50 nM KpnI with high affinity radiolabeled aptamer 20 in the concentration range 100 pM–500 nM.

    Journal: Nucleic Acids Research

    Article Title: RNA aptamer inhibitors of a restriction endonuclease

    doi: 10.1093/nar/gkv702

    Figure Lengend Snippet: Titration of 50 nM KpnI with high affinity radiolabeled aptamer 20 in the concentration range 100 pM–500 nM.

    Article Snippet: Binding reactions contain radiolabeled aptamer (13 nM) and the indicated concentration of KpnI in New England Biolabs 1.1 buffer (10 mM Bis-Tris-Propane-HCl, pH 7, 10 mM MgCl2 , 100 μg/ml bovine serum albumin (BSA)) for 30 min at 37°C.

    Techniques: Titration, Concentration Assay

    Example of anti-KpnI aptamer 20 binding to KpnI as measured by quantitative electrophoretic gel mobility shift assay. A total of 13 nM radiolabeled RNA aptamer titrated with increasing concentrations of KpnI as indicated.

    Journal: Nucleic Acids Research

    Article Title: RNA aptamer inhibitors of a restriction endonuclease

    doi: 10.1093/nar/gkv702

    Figure Lengend Snippet: Example of anti-KpnI aptamer 20 binding to KpnI as measured by quantitative electrophoretic gel mobility shift assay. A total of 13 nM radiolabeled RNA aptamer titrated with increasing concentrations of KpnI as indicated.

    Article Snippet: Binding reactions contain radiolabeled aptamer (13 nM) and the indicated concentration of KpnI in New England Biolabs 1.1 buffer (10 mM Bis-Tris-Propane-HCl, pH 7, 10 mM MgCl2 , 100 μg/ml bovine serum albumin (BSA)) for 30 min at 37°C.

    Techniques: Binding Assay, Mobility Shift

    Example gels showing results of qualitative screens for aptamer activity. ( A ) Electrophoretic gel mobility shift binding screen. Radiolabeled aptamer candidates (4 nM) were exposed to their corresponding protein targets, in this case KpnI (20 nM; even lanes). ( B ) Restriction inhibition screen. Fluorescent DNA probe (20 nM, see panel C ) was exposed to REase that had been incubated with a high concentration of the indicated RNA aptamers (40 μM). The examples shown are RNA aptamers against KpnI.

    Journal: Nucleic Acids Research

    Article Title: RNA aptamer inhibitors of a restriction endonuclease

    doi: 10.1093/nar/gkv702

    Figure Lengend Snippet: Example gels showing results of qualitative screens for aptamer activity. ( A ) Electrophoretic gel mobility shift binding screen. Radiolabeled aptamer candidates (4 nM) were exposed to their corresponding protein targets, in this case KpnI (20 nM; even lanes). ( B ) Restriction inhibition screen. Fluorescent DNA probe (20 nM, see panel C ) was exposed to REase that had been incubated with a high concentration of the indicated RNA aptamers (40 μM). The examples shown are RNA aptamers against KpnI.

    Article Snippet: Binding reactions contain radiolabeled aptamer (13 nM) and the indicated concentration of KpnI in New England Biolabs 1.1 buffer (10 mM Bis-Tris-Propane-HCl, pH 7, 10 mM MgCl2 , 100 μg/ml bovine serum albumin (BSA)) for 30 min at 37°C.

    Techniques: Activity Assay, Mobility Shift, Binding Assay, Inhibition, Incubation, Concentration Assay

    Competition gel shi ft assay showing inhibition of KpnI binding to fluorescent DNA probe in the presence of 100 pM–10 μM anti-KpnI RNA aptamers. ( A ) Aptamer 20, ( B ) aptamer 24.

    Journal: Nucleic Acids Research

    Article Title: RNA aptamer inhibitors of a restriction endonuclease

    doi: 10.1093/nar/gkv702

    Figure Lengend Snippet: Competition gel shi ft assay showing inhibition of KpnI binding to fluorescent DNA probe in the presence of 100 pM–10 μM anti-KpnI RNA aptamers. ( A ) Aptamer 20, ( B ) aptamer 24.

    Article Snippet: Binding reactions contain radiolabeled aptamer (13 nM) and the indicated concentration of KpnI in New England Biolabs 1.1 buffer (10 mM Bis-Tris-Propane-HCl, pH 7, 10 mM MgCl2 , 100 μg/ml bovine serum albumin (BSA)) for 30 min at 37°C.

    Techniques: Inhibition, Binding Assay

    ( A ) In-line probing ( 36 ) of high-affinity anti-KpnI aptamers 20, 24, 29, 30. (UN: unmodified samples (lane 1, 6, 11 and 16); T1: RNAse T1 digestions (lane 2, 7, 12 and 17); OH: alkaline hydrolysis reactions (lane 3, 8, 13 and 18); IN: In-line attack reactions after 24 h (lane 4, 9, 14 and 19) and 48 h (lane 5, 10, 15 and 20). ( B ) Predicted secondary structure of aptamer 20 and validation by in-line probing shown as color-coded heat map (red, high in-line attack rate; white, intermediate in-line attack rate; blue, low in-line attack rate). Black box highlights the nucleotides that were randomized in the original library.

    Journal: Nucleic Acids Research

    Article Title: RNA aptamer inhibitors of a restriction endonuclease

    doi: 10.1093/nar/gkv702

    Figure Lengend Snippet: ( A ) In-line probing ( 36 ) of high-affinity anti-KpnI aptamers 20, 24, 29, 30. (UN: unmodified samples (lane 1, 6, 11 and 16); T1: RNAse T1 digestions (lane 2, 7, 12 and 17); OH: alkaline hydrolysis reactions (lane 3, 8, 13 and 18); IN: In-line attack reactions after 24 h (lane 4, 9, 14 and 19) and 48 h (lane 5, 10, 15 and 20). ( B ) Predicted secondary structure of aptamer 20 and validation by in-line probing shown as color-coded heat map (red, high in-line attack rate; white, intermediate in-line attack rate; blue, low in-line attack rate). Black box highlights the nucleotides that were randomized in the original library.

    Article Snippet: Binding reactions contain radiolabeled aptamer (13 nM) and the indicated concentration of KpnI in New England Biolabs 1.1 buffer (10 mM Bis-Tris-Propane-HCl, pH 7, 10 mM MgCl2 , 100 μg/ml bovine serum albumin (BSA)) for 30 min at 37°C.

    Techniques:

    KpnI inhibition by anti-KpnI RNA aptamers. KpnI in the presence of 20 nM fluorescent DNA probe was incubated with anti-KpnI aptamers in the concentration range 10 pM–100 μM. ( A ) Aptamer 20; ( B ) aptamer 24; ( C ) aptamer 29; ( D ) aptamer 30.

    Journal: Nucleic Acids Research

    Article Title: RNA aptamer inhibitors of a restriction endonuclease

    doi: 10.1093/nar/gkv702

    Figure Lengend Snippet: KpnI inhibition by anti-KpnI RNA aptamers. KpnI in the presence of 20 nM fluorescent DNA probe was incubated with anti-KpnI aptamers in the concentration range 10 pM–100 μM. ( A ) Aptamer 20; ( B ) aptamer 24; ( C ) aptamer 29; ( D ) aptamer 30.

    Article Snippet: Binding reactions contain radiolabeled aptamer (13 nM) and the indicated concentration of KpnI in New England Biolabs 1.1 buffer (10 mM Bis-Tris-Propane-HCl, pH 7, 10 mM MgCl2 , 100 μg/ml bovine serum albumin (BSA)) for 30 min at 37°C.

    Techniques: Inhibition, Incubation, Concentration Assay

    Southern blot and PCR analysis for wt AAV DNA at the site of administration. (A) Southern blot of unamplified, Kpn I-digested genomic DNA isolated from the site of wt AAV administration. Liver tissue from animals infected intravenously (lanes 1 and 2), muscle tissue from animals infected intramuscularly (lanes 4 to 6), and nasal tissue from animals infected intranasally either without (lanes 8 and 9) or with (lanes 10 and 11) helper Ad were examined. Liver, muscle, and nasal epithelial DNAs from a saline-injected control animal were also examined (lanes 3, 7, and 12, respectively). Plasmid DNAs equating to 0.1, 1, 10, and 100 copies of wt AAV genomes per cell were included as standards (lanes 13 to 16, respectively). (B) PCR analysis for internal AAV-Rep gene sequences was performed for each of the same samples.

    Journal: Journal of Virology

    Article Title: Latent Adeno-Associated Virus Infection Elicits Humoral but Not Cell-Mediated Immune Responses in a Nonhuman Primate Model

    doi:

    Figure Lengend Snippet: Southern blot and PCR analysis for wt AAV DNA at the site of administration. (A) Southern blot of unamplified, Kpn I-digested genomic DNA isolated from the site of wt AAV administration. Liver tissue from animals infected intravenously (lanes 1 and 2), muscle tissue from animals infected intramuscularly (lanes 4 to 6), and nasal tissue from animals infected intranasally either without (lanes 8 and 9) or with (lanes 10 and 11) helper Ad were examined. Liver, muscle, and nasal epithelial DNAs from a saline-injected control animal were also examined (lanes 3, 7, and 12, respectively). Plasmid DNAs equating to 0.1, 1, 10, and 100 copies of wt AAV genomes per cell were included as standards (lanes 13 to 16, respectively). (B) PCR analysis for internal AAV-Rep gene sequences was performed for each of the same samples.

    Article Snippet: The DNA (30 μg) was digested for 24 h with Kpn I (New England BioLabs) under conditions recommended by the manufacturer.

    Techniques: Southern Blot, Polymerase Chain Reaction, Isolation, Infection, Injection, Plasmid Preparation

    Restriction digestion patterns of PERV clones. A , Five patterns (A-E) of MboI digestion and B , four patterns (a-d) of KpnI digestion were identified in the PCR product amplified by Easy A polymerase high fidelity.

    Journal: Virology Journal

    Article Title: Characterization of PERV in a new conserved pig herd as potential donor animals for xenotransplantation in China

    doi: 10.1186/s12985-014-0212-1

    Figure Lengend Snippet: Restriction digestion patterns of PERV clones. A , Five patterns (A-E) of MboI digestion and B , four patterns (a-d) of KpnI digestion were identified in the PCR product amplified by Easy A polymerase high fidelity.

    Article Snippet: Three hundred single positive clones were picked for PCR amplification, and the PCR products were analyzed using the restriction enzymes KpnI and MboI (New England Biolabs, MA, USA).

    Techniques: Clone Assay, Polymerase Chain Reaction, Amplification

    Inhibition of KSHV ori-Lyt -dependent DNA replication with (+)-rutamarin. BCBL-1 cells were transfected with a KSHV ori-Lyt -containing plasmid (pOri-A) and an RTA expression vector (pCR3.1-ORF50). The transfected cells were treated with increasing concentrations of (+)-rutamarin and incubated for 72 h. Hirt DNAs were extracted and digested with KpnI/SacI or KpnI/SacI/DpnI. DpnI-resistant viral replicated DNA (Rep'd DNA) was detected by Southern blotting with 32 P-labeled pBluescript plasmid.

    Journal: Antimicrobial Agents and Chemotherapy

    Article Title: Antiviral Activity of (+)-Rutamarin against Kaposi's Sarcoma-Associated Herpesvirus by Inhibition of the Catalytic Activity of Human Topoisomerase II

    doi: 10.1128/AAC.01259-13

    Figure Lengend Snippet: Inhibition of KSHV ori-Lyt -dependent DNA replication with (+)-rutamarin. BCBL-1 cells were transfected with a KSHV ori-Lyt -containing plasmid (pOri-A) and an RTA expression vector (pCR3.1-ORF50). The transfected cells were treated with increasing concentrations of (+)-rutamarin and incubated for 72 h. Hirt DNAs were extracted and digested with KpnI/SacI or KpnI/SacI/DpnI. DpnI-resistant viral replicated DNA (Rep'd DNA) was detected by Southern blotting with 32 P-labeled pBluescript plasmid.

    Article Snippet: The extracted extrachromosomal DNA was treated with RNase A at 25°C for 30 min, followed by proteinase K at 50°C for 30 min. Five micrograms of DNA was digested with KpnI/SacI or KpnI/SacI/DpnI (New England Bio-Labs), separated on a 1% agarose gel, and transferred onto GeneScreen membranes (PerkinElmer, Boston, MA).

    Techniques: Inhibition, Transfection, Plasmid Preparation, Expressing, Incubation, Southern Blot, Labeling

    Genotyping, survival and tumor progression. ( A ) Genotyping. The ter mutation disrupts a Kpn I restriction site used for genotyping of the ter allele performing PCR amplification and restriction digest. Kpn I digest (black arrows) cleaved the PCR product of 560 bp into 380 bp and 180 bp fragments, N negative control. ( B ) Kaplan-Meyer survival analysis of male and female WKY- Dnd1 ter /Ztm rats carrying heterozygous and homozygous ter alleles compared to wild type animals. ( C ) Sizes of TGCTs and OGCTs after 3, 6 and 9 weeks of age in homozygous WKY- Dnd1 ter /Ztm rats.

    Journal: PLoS ONE

    Article Title: The ter Mutation in the Rat Dnd1 Gene Initiates Gonadal Teratomas and Infertility in Both Genders

    doi: 10.1371/journal.pone.0038001

    Figure Lengend Snippet: Genotyping, survival and tumor progression. ( A ) Genotyping. The ter mutation disrupts a Kpn I restriction site used for genotyping of the ter allele performing PCR amplification and restriction digest. Kpn I digest (black arrows) cleaved the PCR product of 560 bp into 380 bp and 180 bp fragments, N negative control. ( B ) Kaplan-Meyer survival analysis of male and female WKY- Dnd1 ter /Ztm rats carrying heterozygous and homozygous ter alleles compared to wild type animals. ( C ) Sizes of TGCTs and OGCTs after 3, 6 and 9 weeks of age in homozygous WKY- Dnd1 ter /Ztm rats.

    Article Snippet: The PCR products were digested by adding 0.5 µl Kpn I-HF, 3 µl NEB4 buffer and 0.3 µl BSA (100×) (NEB, Ipswich, MA).

    Techniques: Mutagenesis, Polymerase Chain Reaction, Amplification, Negative Control