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pentr d topo  (New England Biolabs)


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    Structured Review

    New England Biolabs pentr d topo
    Pentr D Topo, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 95/100, based on 443 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/pentr+d+topo/Topoisomerase+I/bio_rxiv__2025__10__01__679805-42-19-21
    Average 95 stars, based on 443 article reviews
    pentr d topo - by Bioz Stars, 2026-09
    95/100 stars

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    Related Articles

    Amplification:

    Article Title: HNF1A is a novel BRD4 target and critical for BET-inhibitor response in pancreatic ductal adenocarcinoma
    Article Snippet: .. Human MYC was amplified from AsPC-1 cDNA with primers 5’-AGGCTCCGCGGCCGCCCCCTTCACCATGCCCCTCAACGTTAGCTTCACC - 3’ and 5’-TGGGTCGGCGCGCCCACCCTTTTACGCACAAGAGTTCCGTAGCTG - 3’ and cloned into pENTR/D-TOPO using NEBuilder HiFi DNA Assembly master mix and protocol (New England Biolabs). .. All cDNAs were shuttled into pLenti6.3/UbC/V5-DEST using LR Clonase II enzyme mix and protocol. miR30-based BRD4 targeting shRNAs (5’-AACGGTACCAAACACAACTCAATAGTGAAGCCACAGATGTATTGAGTTGTGTTTGGTACCGT G-3’ and 5’-AGACGAGATTGAAATCGACTTATAGTGAAGCCACAGATGTATAAGTCGATTTCAATCTCGTCG-3’) were purchased from Transomic Technologies but subcloned into pENTR/D-TOPO along with non-targeting shRNA (5’-ATCTCGCTTGGGCGAGAGTAAGTAGTGAAGCCACAGATGTACTTACTCTCGCCCAAGCGAGAG-3’). shRNAs were shuttled into pLentipuro5/TRE3G/V5-DEST, an all-in-one doxycycline inducible lentiviral vector developed for this study, using LR Clonase II enzyme mix and protocol.

    Article Title: Targeting FGFR4 abrogates HNF1A-driven metastasis in pancreatic ductal adenocarcinoma
    Article Snippet: .. Human FGFR4 was amplified from UM5 cDNA with primers 5’-CAGGCTCCGCGGCCGCCCCCTTCACCATGCGGCTGCTGCTGGCCCTGTTGG-3’ and 5’-TGGGTCGGCGCGCCCACCCTTTCATGTCTGCACCCCAGACCCGAAGG-3’, digested with SacII and Ascl, and cloned into pENTR/D-TOPO using NEBuilder HiFi DNA Assembly master mix and protocol (New England Biolabs, Ipswich, MA). ..

    Article Title: Dynamics of full-length Arabidopsis myosin XI and its involvement in actin remodeling
    Article Snippet: .. At myosin XI-2-ΔGTD, consisting of amino acid residues 1–1047, which is described as Heavy meromyosin (HMM) by , were generated by PCR amplification from the full-length sequence and subcloned into pENTR/D-TOPO using NEBuilder HiFi DNA Assembly Master Mix (New England Biolabs, Beverly, MA, USA). .. These were transferred into the destination vector pGWB406 for N-terminal GFP tagging by site-specific recombination with Gateway LR Clonase (Thermo Fisher Scientific, Waltham, MA, USA).

    Article Title: Dynamics of full-length Arabidopsis myosin XI and its involvement in actin Remodeling.
    Article Snippet: Plant myosin XI plays a crucial role in intracellular transport, known as cytoplasmic streaming.. Previous studies have identified associations between myosin XI and organelles by using a cargo-binding tail domain that lacks a motor domain.. However, the subcellular localization and dynamics of full-length myosin XI remain poorly understood.

    Article Title: Targeting FGFR4 abrogates HNF1A-driven metastasis in pancreatic ductal adenocarcinoma.
    Article Snippet: .. Human FGFR4 was amplified from UM5 cDNA with primers 5’-CAG GCT CCG CGG CCG CCC CCT TCA CCA TGC GGC TGC TGC TGG CCC TGT TGG-3’ and 5’-TGG GTC GGC GCG CCC ACC CTT TCA TGT CTG CAC CCC AGA CCC GAAGG-3’, digested with SacII and Ascl, and cloned into pENTR/D-TOPO using NEBuilder HiFi DNA Assembly master mix and protocol (New England Biolabs, Ipswich, MA). ..

    Article Title: Targeting FGFR4 Abrogates HNF1A-driven Metastasis in Pancreatic Ductal Adenocarcinoma
    Article Snippet: .. Human FGFR4 was amplified from UM5 cDNA with primers 5’-CAGGCTCCGCGGCCGCCCCCTTCACCATGCGGCTGCTGCTGGCCCTGTTGG-3’ and 5’-TGGGTCGGCGCGCCCACCCTTTCATGTCTGCACCCCAGACCCGAAGG-3’, digested with SacII and Ascl, and cloned into pENTR/D-TOPO using NEBuilder HiFi DNA Assembly master mix and protocol (New England Biolabs, Ipswich, MA). ..

    Clone Assay:

    Article Title: HNF1A is a novel BRD4 target and critical for BET-inhibitor response in pancreatic ductal adenocarcinoma
    Article Snippet: .. Human MYC was amplified from AsPC-1 cDNA with primers 5’-AGGCTCCGCGGCCGCCCCCTTCACCATGCCCCTCAACGTTAGCTTCACC - 3’ and 5’-TGGGTCGGCGCGCCCACCCTTTTACGCACAAGAGTTCCGTAGCTG - 3’ and cloned into pENTR/D-TOPO using NEBuilder HiFi DNA Assembly master mix and protocol (New England Biolabs). .. All cDNAs were shuttled into pLenti6.3/UbC/V5-DEST using LR Clonase II enzyme mix and protocol. miR30-based BRD4 targeting shRNAs (5’-AACGGTACCAAACACAACTCAATAGTGAAGCCACAGATGTATTGAGTTGTGTTTGGTACCGT G-3’ and 5’-AGACGAGATTGAAATCGACTTATAGTGAAGCCACAGATGTATAAGTCGATTTCAATCTCGTCG-3’) were purchased from Transomic Technologies but subcloned into pENTR/D-TOPO along with non-targeting shRNA (5’-ATCTCGCTTGGGCGAGAGTAAGTAGTGAAGCCACAGATGTACTTACTCTCGCCCAAGCGAGAG-3’). shRNAs were shuttled into pLentipuro5/TRE3G/V5-DEST, an all-in-one doxycycline inducible lentiviral vector developed for this study, using LR Clonase II enzyme mix and protocol.

    Article Title: Targeting FGFR4 abrogates HNF1A-driven metastasis in pancreatic ductal adenocarcinoma
    Article Snippet: .. Human FGFR4 was amplified from UM5 cDNA with primers 5’-CAGGCTCCGCGGCCGCCCCCTTCACCATGCGGCTGCTGCTGGCCCTGTTGG-3’ and 5’-TGGGTCGGCGCGCCCACCCTTTCATGTCTGCACCCCAGACCCGAAGG-3’, digested with SacII and Ascl, and cloned into pENTR/D-TOPO using NEBuilder HiFi DNA Assembly master mix and protocol (New England Biolabs, Ipswich, MA). ..

    Article Title: Targeting FGFR4 Abrogates HNF1A-driven Metastasis in Pancreatic Ductal Adenocarcinoma
    Article Snippet: .. For labeling cells with firefly luciferase, PatGFP (a variant of EGFP containing the following mutations: S31R, Y40N, S73A, F100S, N106T, Y146F, N150K, M154T, V164A, I168T, I172V, A207V) was fused to the N-terminus of firefly luciferase Luc2 (Promega) (subcloned from pGL4.10) and cloned into pENTR/D-TOPO using Gibson 35 Assembly (New England Biolabs). ..

    Article Title: Two genetically linked Arabidopsis TIR-type NLRs are required for immunity and interact with NLRs encoded in a segmentally duplicated genomic region
    Article Snippet: The full-length genomic sequences (with or without promoter region) were PCR amplified without stop codon, using gene specific primers listed in , and cloned into pENTR/D-TOPO (ThermoFisher Scientific, https://www.thermofisher.com ) Gateway entry vectors. .. The generation of truncations, or site-directed mutagenesis, was conducted by sub-cloning into pENTR/D-TOPO and/or mutagenesis PCR ( Q5 ® Site-Directed Mutagenesis Kit, NEB), using primers listed in and respective pENTR/D-TOPO entry clones as templates. .. The pENTR/D-TOPO GUS + intron and TN13 entry vectors ( Roth et al ., 2017 ), the ER-ck ( Nelson et al ., 2007 ), and NRG1 ( Lapin et al ., 2019 ) expression vectors were described previously.

    Article Title: Targeting FGFR4 abrogates HNF1A-driven metastasis in pancreatic ductal adenocarcinoma.
    Article Snippet: .. Human FGFR4 was amplified from UM5 cDNA with primers 5’-CAG GCT CCG CGG CCG CCC CCT TCA CCA TGC GGC TGC TGC TGG CCC TGT TGG-3’ and 5’-TGG GTC GGC GCG CCC ACC CTT TCA TGT CTG CAC CCC AGA CCC GAAGG-3’, digested with SacII and Ascl, and cloned into pENTR/D-TOPO using NEBuilder HiFi DNA Assembly master mix and protocol (New England Biolabs, Ipswich, MA). ..

    Article Title: Targeting FGFR4 Abrogates HNF1A-driven Metastasis in Pancreatic Ductal Adenocarcinoma
    Article Snippet: .. Human FGFR4 was amplified from UM5 cDNA with primers 5’-CAGGCTCCGCGGCCGCCCCCTTCACCATGCGGCTGCTGCTGGCCCTGTTGG-3’ and 5’-TGGGTCGGCGCGCCCACCCTTTCATGTCTGCACCCCAGACCCGAAGG-3’, digested with SacII and Ascl, and cloned into pENTR/D-TOPO using NEBuilder HiFi DNA Assembly master mix and protocol (New England Biolabs, Ipswich, MA). ..

    Labeling:

    Article Title: Targeting FGFR4 Abrogates HNF1A-driven Metastasis in Pancreatic Ductal Adenocarcinoma
    Article Snippet: .. For labeling cells with firefly luciferase, PatGFP (a variant of EGFP containing the following mutations: S31R, Y40N, S73A, F100S, N106T, Y146F, N150K, M154T, V164A, I168T, I172V, A207V) was fused to the N-terminus of firefly luciferase Luc2 (Promega) (subcloned from pGL4.10) and cloned into pENTR/D-TOPO using Gibson 35 Assembly (New England Biolabs). ..

    Luciferase:

    Article Title: Targeting FGFR4 Abrogates HNF1A-driven Metastasis in Pancreatic Ductal Adenocarcinoma
    Article Snippet: .. For labeling cells with firefly luciferase, PatGFP (a variant of EGFP containing the following mutations: S31R, Y40N, S73A, F100S, N106T, Y146F, N150K, M154T, V164A, I168T, I172V, A207V) was fused to the N-terminus of firefly luciferase Luc2 (Promega) (subcloned from pGL4.10) and cloned into pENTR/D-TOPO using Gibson 35 Assembly (New England Biolabs). ..

    Variant Assay:

    Article Title: Targeting FGFR4 Abrogates HNF1A-driven Metastasis in Pancreatic Ductal Adenocarcinoma
    Article Snippet: .. For labeling cells with firefly luciferase, PatGFP (a variant of EGFP containing the following mutations: S31R, Y40N, S73A, F100S, N106T, Y146F, N150K, M154T, V164A, I168T, I172V, A207V) was fused to the N-terminus of firefly luciferase Luc2 (Promega) (subcloned from pGL4.10) and cloned into pENTR/D-TOPO using Gibson 35 Assembly (New England Biolabs). ..

    Generated:

    Article Title: Dynamics of full-length Arabidopsis myosin XI and its involvement in actin remodeling
    Article Snippet: .. At myosin XI-2-ΔGTD, consisting of amino acid residues 1–1047, which is described as Heavy meromyosin (HMM) by , were generated by PCR amplification from the full-length sequence and subcloned into pENTR/D-TOPO using NEBuilder HiFi DNA Assembly Master Mix (New England Biolabs, Beverly, MA, USA). .. These were transferred into the destination vector pGWB406 for N-terminal GFP tagging by site-specific recombination with Gateway LR Clonase (Thermo Fisher Scientific, Waltham, MA, USA).

    Article Title: Dynamics of full-length Arabidopsis myosin XI and its involvement in actin Remodeling.
    Article Snippet: Plant myosin XI plays a crucial role in intracellular transport, known as cytoplasmic streaming.. Previous studies have identified associations between myosin XI and organelles by using a cargo-binding tail domain that lacks a motor domain.. However, the subcellular localization and dynamics of full-length myosin XI remain poorly understood.

    Polymerase Chain Reaction:

    Article Title: Dynamics of full-length Arabidopsis myosin XI and its involvement in actin remodeling
    Article Snippet: .. At myosin XI-2-ΔGTD, consisting of amino acid residues 1–1047, which is described as Heavy meromyosin (HMM) by , were generated by PCR amplification from the full-length sequence and subcloned into pENTR/D-TOPO using NEBuilder HiFi DNA Assembly Master Mix (New England Biolabs, Beverly, MA, USA). .. These were transferred into the destination vector pGWB406 for N-terminal GFP tagging by site-specific recombination with Gateway LR Clonase (Thermo Fisher Scientific, Waltham, MA, USA).

    Article Title: Two genetically linked Arabidopsis TIR-type NLRs are required for immunity and interact with NLRs encoded in a segmentally duplicated genomic region
    Article Snippet: The full-length genomic sequences (with or without promoter region) were PCR amplified without stop codon, using gene specific primers listed in , and cloned into pENTR/D-TOPO (ThermoFisher Scientific, https://www.thermofisher.com ) Gateway entry vectors. .. The generation of truncations, or site-directed mutagenesis, was conducted by sub-cloning into pENTR/D-TOPO and/or mutagenesis PCR ( Q5 ® Site-Directed Mutagenesis Kit, NEB), using primers listed in and respective pENTR/D-TOPO entry clones as templates. .. The pENTR/D-TOPO GUS + intron and TN13 entry vectors ( Roth et al ., 2017 ), the ER-ck ( Nelson et al ., 2007 ), and NRG1 ( Lapin et al ., 2019 ) expression vectors were described previously.

    Article Title: Dynamics of full-length Arabidopsis myosin XI and its involvement in actin Remodeling.
    Article Snippet: Plant myosin XI plays a crucial role in intracellular transport, known as cytoplasmic streaming.. Previous studies have identified associations between myosin XI and organelles by using a cargo-binding tail domain that lacks a motor domain.. However, the subcellular localization and dynamics of full-length myosin XI remain poorly understood.

    Sequencing:

    Article Title: Dynamics of full-length Arabidopsis myosin XI and its involvement in actin remodeling
    Article Snippet: .. At myosin XI-2-ΔGTD, consisting of amino acid residues 1–1047, which is described as Heavy meromyosin (HMM) by , were generated by PCR amplification from the full-length sequence and subcloned into pENTR/D-TOPO using NEBuilder HiFi DNA Assembly Master Mix (New England Biolabs, Beverly, MA, USA). .. These were transferred into the destination vector pGWB406 for N-terminal GFP tagging by site-specific recombination with Gateway LR Clonase (Thermo Fisher Scientific, Waltham, MA, USA).

    Article Title: Dynamics of full-length Arabidopsis myosin XI and its involvement in actin Remodeling.
    Article Snippet: Plant myosin XI plays a crucial role in intracellular transport, known as cytoplasmic streaming.. Previous studies have identified associations between myosin XI and organelles by using a cargo-binding tail domain that lacks a motor domain.. However, the subcellular localization and dynamics of full-length myosin XI remain poorly understood.

    Mutagenesis:

    Article Title: Two genetically linked Arabidopsis TIR-type NLRs are required for immunity and interact with NLRs encoded in a segmentally duplicated genomic region
    Article Snippet: The full-length genomic sequences (with or without promoter region) were PCR amplified without stop codon, using gene specific primers listed in , and cloned into pENTR/D-TOPO (ThermoFisher Scientific, https://www.thermofisher.com ) Gateway entry vectors. .. The generation of truncations, or site-directed mutagenesis, was conducted by sub-cloning into pENTR/D-TOPO and/or mutagenesis PCR ( Q5 ® Site-Directed Mutagenesis Kit, NEB), using primers listed in and respective pENTR/D-TOPO entry clones as templates. .. The pENTR/D-TOPO GUS + intron and TN13 entry vectors ( Roth et al ., 2017 ), the ER-ck ( Nelson et al ., 2007 ), and NRG1 ( Lapin et al ., 2019 ) expression vectors were described previously.

    Countercurrent Chromatography:

    Article Title: Targeting FGFR4 abrogates HNF1A-driven metastasis in pancreatic ductal adenocarcinoma.
    Article Snippet: .. Human FGFR4 was amplified from UM5 cDNA with primers 5’-CAG GCT CCG CGG CCG CCC CCT TCA CCA TGC GGC TGC TGC TGG CCC TGT TGG-3’ and 5’-TGG GTC GGC GCG CCC ACC CTT TCA TGT CTG CAC CCC AGA CCC GAAGG-3’, digested with SacII and Ascl, and cloned into pENTR/D-TOPO using NEBuilder HiFi DNA Assembly master mix and protocol (New England Biolabs, Ipswich, MA). ..



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