cccdna detection Search Results


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  • 99
    New England Biolabs t5 exonuclease
    T5 Exonuclease, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 588 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Thermo Fisher gene exp p s p x pa03453406 s1
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    Qiagen qiaamp dna mini kit
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    GE Healthcare amersham hybond n membrane
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    Bio-Rad sybr green supermix
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    Thermo Fisher rna
    Schematic representation of the <t>HBV</t> X gene breaking points forming junctions with the human genomic sequences. Slim arrows identify breaking points which formed junctions detected in single clones, whereas bold arrows represent those identified in multiple clones. Four black circles depict HBV TATA elements. BCP, basal core promoter; DR, direct repeat region; Enh-II, HBV enhancer II region; Pg <t>RNA,</t> pre-genomic RNA; URR, upstream regulatory region. Numbers mark nucleotide positions according to HBV DNA GenBank X70185 sequence.
    Rna, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 237081 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Thermo Fisher taqman gene expression master mix
    Schematic representation of the <t>HBV</t> X gene breaking points forming junctions with the human genomic sequences. Slim arrows identify breaking points which formed junctions detected in single clones, whereas bold arrows represent those identified in multiple clones. Four black circles depict HBV TATA elements. BCP, basal core promoter; DR, direct repeat region; Enh-II, HBV enhancer II region; Pg <t>RNA,</t> pre-genomic RNA; URR, upstream regulatory region. Numbers mark nucleotide positions according to HBV DNA GenBank X70185 sequence.
    Taqman Gene Expression Master Mix, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 21089 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    PerkinElmer abi prism 7300 sequence detection system
    Schematic representation of the <t>HBV</t> X gene breaking points forming junctions with the human genomic sequences. Slim arrows identify breaking points which formed junctions detected in single clones, whereas bold arrows represent those identified in multiple clones. Four black circles depict HBV TATA elements. BCP, basal core promoter; DR, direct repeat region; Enh-II, HBV enhancer II region; Pg <t>RNA,</t> pre-genomic RNA; URR, upstream regulatory region. Numbers mark nucleotide positions according to HBV DNA GenBank X70185 sequence.
    Abi Prism 7300 Sequence Detection System, supplied by PerkinElmer, used in various techniques. Bioz Stars score: 93/100, based on 203 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Thermo Fisher abi prism 7500 sequence detection system
    Schematic representation of the <t>HBV</t> X gene breaking points forming junctions with the human genomic sequences. Slim arrows identify breaking points which formed junctions detected in single clones, whereas bold arrows represent those identified in multiple clones. Four black circles depict HBV TATA elements. BCP, basal core promoter; DR, direct repeat region; Enh-II, HBV enhancer II region; Pg <t>RNA,</t> pre-genomic RNA; URR, upstream regulatory region. Numbers mark nucleotide positions according to HBV DNA GenBank X70185 sequence.
    Abi Prism 7500 Sequence Detection System, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 17066 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Bio-Techne anti hbsag antibody
    Schematic representation of the <t>HBV</t> X gene breaking points forming junctions with the human genomic sequences. Slim arrows identify breaking points which formed junctions detected in single clones, whereas bold arrows represent those identified in multiple clones. Four black circles depict HBV TATA elements. BCP, basal core promoter; DR, direct repeat region; Enh-II, HBV enhancer II region; Pg <t>RNA,</t> pre-genomic RNA; URR, upstream regulatory region. Numbers mark nucleotide positions according to HBV DNA GenBank X70185 sequence.
    Anti Hbsag Antibody, supplied by Bio-Techne, used in various techniques. Bioz Stars score: 91/100, based on 11 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Beijing Wantai Biological anti hbc
    Schematic representation of the <t>HBV</t> X gene breaking points forming junctions with the human genomic sequences. Slim arrows identify breaking points which formed junctions detected in single clones, whereas bold arrows represent those identified in multiple clones. Four black circles depict HBV TATA elements. BCP, basal core promoter; DR, direct repeat region; Enh-II, HBV enhancer II region; Pg <t>RNA,</t> pre-genomic RNA; URR, upstream regulatory region. Numbers mark nucleotide positions according to HBV DNA GenBank X70185 sequence.
    Anti Hbc, supplied by Beijing Wantai Biological, used in various techniques. Bioz Stars score: 92/100, based on 74 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Bio-Rad hbv dna
    Schematic representation of the <t>HBV</t> X gene breaking points forming junctions with the human genomic sequences. Slim arrows identify breaking points which formed junctions detected in single clones, whereas bold arrows represent those identified in multiple clones. Four black circles depict HBV TATA elements. BCP, basal core promoter; DR, direct repeat region; Enh-II, HBV enhancer II region; Pg <t>RNA,</t> pre-genomic RNA; URR, upstream regulatory region. Numbers mark nucleotide positions according to HBV DNA GenBank X70185 sequence.
    Hbv Dna, supplied by Bio-Rad, used in various techniques. Bioz Stars score: 92/100, based on 107 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Shanghai Kehua hbv dna
    Supernatant <t>HBV</t> <t>DNA</t> quantities and intracellular covalently cccDNA levels. The levels of (A) supernatant HBV DNA and (B) HBV cccDNA in cells from groups 2–5. *P
    Hbv Dna, supplied by Shanghai Kehua, used in various techniques. Bioz Stars score: 92/100, based on 116 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Sysmex Corporation hbv dna
    Supernatant <t>HBV</t> <t>DNA</t> quantities and intracellular covalently cccDNA levels. The levels of (A) supernatant HBV DNA and (B) HBV cccDNA in cells from groups 2–5. *P
    Hbv Dna, supplied by Sysmex Corporation, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    New England Biolabs exonuclease iii e coli
    Supernatant <t>HBV</t> <t>DNA</t> quantities and intracellular covalently cccDNA levels. The levels of (A) supernatant HBV DNA and (B) HBV cccDNA in cells from groups 2–5. *P
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    Thermo Fisher mung bean nuclease
    Supernatant <t>HBV</t> <t>DNA</t> quantities and intracellular covalently cccDNA levels. The levels of (A) supernatant HBV DNA and (B) HBV cccDNA in cells from groups 2–5. *P
    Mung Bean Nuclease, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 201 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Thermo Fisher cd4 monoclonal antibody
    Lymphocyte cell surface markers. The percentage of (A) CD3 + <t>CD4</t> + , (B) CD3 + CD8 + , and (C) CD3 + CD4 + /CD3 + CD8 + cells as determined by flow cytometry analysis. *P
    Cd4 Monoclonal Antibody, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 95/100, based on 2094 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Millipore dnase
    Lymphocyte cell surface markers. The percentage of (A) CD3 + <t>CD4</t> + , (B) CD3 + CD8 + , and (C) CD3 + CD4 + /CD3 + CD8 + cells as determined by flow cytometry analysis. *P
    Dnase, supplied by Millipore, used in various techniques. Bioz Stars score: 99/100, based on 15851 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Double Helix dna double helix
    Lymphocyte cell surface markers. The percentage of (A) CD3 + <t>CD4</t> + , (B) CD3 + CD8 + , and (C) CD3 + CD4 + /CD3 + CD8 + cells as determined by flow cytometry analysis. *P
    Dna Double Helix, supplied by Double Helix, used in various techniques. Bioz Stars score: 92/100, based on 10708 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Siemens AG hbeag
    Kinetics of <t>HBV</t> antigen expression and HBV DNA integration after HBV infection of HepG2-NTCP and Huh7-NTCP cells. Four infection time courses were carried out on HepG2-NTCP and Huh7-NTCP cells in triplicate (A). Cells were infected at day 0 with an HBV inoculum of 1,000 VGE/cell and washed off 1 day after. Cells were harvested at 3 (black arrow), 5 (red arrow), 7 (green arrow), and 9 (blue arrow) dpi. As per previous experiments, cells were maintained in medium supplemented with 10 μM lamivudine and 50 μM tenofovir (purple bar), transferred to 6-well plates (black cross), and maintained in DMSO-free medium (black bar) prior to harvest. Immediately prior to transfer to a 6-well plate (except for the d3 time course, due to signal interference from input inoculum), cell supernatant (S/N) was collected (black circle) and analyzed by immunoassay for secreted <t>HBeAg</t> (B and C for HepG2-NTCP and Huh7-NTCPs, respectively; mean ± 95% CI for 3 replicates shown for each time course). At the final time point, total DNA was extracted from cells and analyzed by invPCR for HBV DNA integration (D and E for HepG2-NTCP and Huh7-NTCP cells, respectively; geometric mean ± 95% CI). For invPCR, each data point represents a separate 1:3 dilution of inverted DNA extracted (only positive dilutions are shown) from 2 separate infections (indicated by either a square or triangle). ND, not determined; LOD, lower limit of detection (10 −5 cell equivalents; dashed line).
    Hbeag, supplied by Siemens AG, used in various techniques. Bioz Stars score: 92/100, based on 22 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Thermo Fisher power sybr green pcr master mix
    Kinetics of <t>HBV</t> antigen expression and HBV DNA integration after HBV infection of HepG2-NTCP and Huh7-NTCP cells. Four infection time courses were carried out on HepG2-NTCP and Huh7-NTCP cells in triplicate (A). Cells were infected at day 0 with an HBV inoculum of 1,000 VGE/cell and washed off 1 day after. Cells were harvested at 3 (black arrow), 5 (red arrow), 7 (green arrow), and 9 (blue arrow) dpi. As per previous experiments, cells were maintained in medium supplemented with 10 μM lamivudine and 50 μM tenofovir (purple bar), transferred to 6-well plates (black cross), and maintained in DMSO-free medium (black bar) prior to harvest. Immediately prior to transfer to a 6-well plate (except for the d3 time course, due to signal interference from input inoculum), cell supernatant (S/N) was collected (black circle) and analyzed by immunoassay for secreted <t>HBeAg</t> (B and C for HepG2-NTCP and Huh7-NTCPs, respectively; mean ± 95% CI for 3 replicates shown for each time course). At the final time point, total DNA was extracted from cells and analyzed by invPCR for HBV DNA integration (D and E for HepG2-NTCP and Huh7-NTCP cells, respectively; geometric mean ± 95% CI). For invPCR, each data point represents a separate 1:3 dilution of inverted DNA extracted (only positive dilutions are shown) from 2 separate infections (indicated by either a square or triangle). ND, not determined; LOD, lower limit of detection (10 −5 cell equivalents; dashed line).
    Power Sybr Green Pcr Master Mix, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 69800 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Image Search Results


    Schematic representation of the HBV X gene breaking points forming junctions with the human genomic sequences. Slim arrows identify breaking points which formed junctions detected in single clones, whereas bold arrows represent those identified in multiple clones. Four black circles depict HBV TATA elements. BCP, basal core promoter; DR, direct repeat region; Enh-II, HBV enhancer II region; Pg RNA, pre-genomic RNA; URR, upstream regulatory region. Numbers mark nucleotide positions according to HBV DNA GenBank X70185 sequence.

    Journal: Oncogenesis

    Article Title: Initial sites of hepadnavirus integration into host genome in human hepatocytes and in the woodchuck model of hepatitis B-associated hepatocellular carcinoma

    doi: 10.1038/oncsis.2017.22

    Figure Lengend Snippet: Schematic representation of the HBV X gene breaking points forming junctions with the human genomic sequences. Slim arrows identify breaking points which formed junctions detected in single clones, whereas bold arrows represent those identified in multiple clones. Four black circles depict HBV TATA elements. BCP, basal core promoter; DR, direct repeat region; Enh-II, HBV enhancer II region; Pg RNA, pre-genomic RNA; URR, upstream regulatory region. Numbers mark nucleotide positions according to HBV DNA GenBank X70185 sequence.

    Article Snippet: Detection of HBV and WHV genomes and replication DNA was isolated as reported., RNA was extracted with Trizol (Invitrogen), treated with DNase (Sigma-Aldrich) and reverse transcribed to cDNA., , HBV and WHV DNA were assayed by direct and, if negative, nested PCR/NAH assays using primers and conditions described before., , For HBV or WHV cccDNA detection assays previously reported were applied (sensitivity ~102 copies/ml)., HBV or WHV RNA was detected by RT-PCR/NAH (sensitivity < 10 copies/ml)., , , Viral DNA or RNA were also quantified by virus-specific real-time PCR or RT-PCR assays., Mock extractions and nucleic acid preparations from livers of HBV- or WHV-positive carriers and uninfected HepaRG or normal woodchuck livers served as controls., , NAH analysis was routinely conducted to verify the specificity of amplification signals, the validity of controls, and to enhance sensitivity of virus detection.

    Techniques: Genomic Sequencing, Clone Assay, Sequencing

    Supernatant HBV DNA quantities and intracellular covalently cccDNA levels. The levels of (A) supernatant HBV DNA and (B) HBV cccDNA in cells from groups 2–5. *P

    Journal: Molecular Medicine Reports

    Article Title: Biological effects of bone marrow mesenchymal stem cells on hepatitis B virus in vitro

    doi: 10.3892/mmr.2017.6330

    Figure Lengend Snippet: Supernatant HBV DNA quantities and intracellular covalently cccDNA levels. The levels of (A) supernatant HBV DNA and (B) HBV cccDNA in cells from groups 2–5. *P

    Article Snippet: Detection of supernatant HBV DNA and intracellular cccDNA of HepG2.2.15 cells and BM-MSCs The supernatant HBV DNA levels were measured using a real-time PCR kit according to the manufacturer's instructions (Shanghai Kehua Bioengineering Co., Ltd.), using an ABI 7500 Real-Time PCR system.

    Techniques:

    Lymphocyte cell surface markers. The percentage of (A) CD3 + CD4 + , (B) CD3 + CD8 + , and (C) CD3 + CD4 + /CD3 + CD8 + cells as determined by flow cytometry analysis. *P

    Journal: Molecular Medicine Reports

    Article Title: Biological effects of bone marrow mesenchymal stem cells on hepatitis B virus in vitro

    doi: 10.3892/mmr.2017.6330

    Figure Lengend Snippet: Lymphocyte cell surface markers. The percentage of (A) CD3 + CD4 + , (B) CD3 + CD8 + , and (C) CD3 + CD4 + /CD3 + CD8 + cells as determined by flow cytometry analysis. *P

    Article Snippet: Instruments and reagents The following instruments and reagents were used: Dulbecco's modified Eagle's medium (DMEM) and DMEM/F12 media (1:1; Hyclone, Logan, UT, USA), G418 (Gibco; Thermo Fisher Scientific, Inc., Waltham, MA, USA), fetal bovine serum (FBS; Biowest, Nuaille, France), transwell plates (Corning, Inc., Corning, NY, USA), MTT reagent (Beijing Dingguo Changsheng Biotechnology, Co., Ltd., Beijing, China), dimethyl sulfoxide (DMSO; Amresco, Solon, OH, USA), lymphocyte separation medium (Beijing Dingguo Changsheng Biotechnology, Co., Ltd.), TRIzol (Invitrogen; Thermo Fisher Scientific, Inc.), antibodies directed against CD29 (cat. no. 102207), CD90 (cat. no. 202503), RT1A (cat. no. 205208), CD45 (cat. no. 202207) and RT1B (cat. no. 205305) for the identification of BM-MSCs (Biolegend, Inc., San Diego, CA, USA), CD34 (cat. no. sc-7324; Santa Cruz Biotechnology, Inc., Dallas, TX, USA), CD3-APC mAb (cat. no. 11-0040-82), CD8a-PE-Cy7 (cat. no. 12-0084-82), and CD4-FITC mAb (cat. no. 11-0040-82; eBiosciences, Inc., San Diego, CA, USA), a cell genomic DNA extraction kit (Beijing Kangwei Century Biotech Co. Ltd., Beijing, China) and enzyme-linked immunosorbent assay (ELISA) kits for measuring IL-10 (cat. no. R1000), IL-22 (cat. no. M2200), and IFN-γ (cat. no. RIF00; R & D Systems, Inc., Minneapolis, MN, USA).

    Techniques: Flow Cytometry, Cytometry

    Kinetics of HBV antigen expression and HBV DNA integration after HBV infection of HepG2-NTCP and Huh7-NTCP cells. Four infection time courses were carried out on HepG2-NTCP and Huh7-NTCP cells in triplicate (A). Cells were infected at day 0 with an HBV inoculum of 1,000 VGE/cell and washed off 1 day after. Cells were harvested at 3 (black arrow), 5 (red arrow), 7 (green arrow), and 9 (blue arrow) dpi. As per previous experiments, cells were maintained in medium supplemented with 10 μM lamivudine and 50 μM tenofovir (purple bar), transferred to 6-well plates (black cross), and maintained in DMSO-free medium (black bar) prior to harvest. Immediately prior to transfer to a 6-well plate (except for the d3 time course, due to signal interference from input inoculum), cell supernatant (S/N) was collected (black circle) and analyzed by immunoassay for secreted HBeAg (B and C for HepG2-NTCP and Huh7-NTCPs, respectively; mean ± 95% CI for 3 replicates shown for each time course). At the final time point, total DNA was extracted from cells and analyzed by invPCR for HBV DNA integration (D and E for HepG2-NTCP and Huh7-NTCP cells, respectively; geometric mean ± 95% CI). For invPCR, each data point represents a separate 1:3 dilution of inverted DNA extracted (only positive dilutions are shown) from 2 separate infections (indicated by either a square or triangle). ND, not determined; LOD, lower limit of detection (10 −5 cell equivalents; dashed line).

    Journal: Journal of Virology

    Article Title: Hepatitis B Virus DNA Integration Occurs Early in the Viral Life Cycle in an In Vitro Infection Model via Sodium Taurocholate Cotransporting Polypeptide-Dependent Uptake of Enveloped Virus Particles

    doi: 10.1128/JVI.02007-17

    Figure Lengend Snippet: Kinetics of HBV antigen expression and HBV DNA integration after HBV infection of HepG2-NTCP and Huh7-NTCP cells. Four infection time courses were carried out on HepG2-NTCP and Huh7-NTCP cells in triplicate (A). Cells were infected at day 0 with an HBV inoculum of 1,000 VGE/cell and washed off 1 day after. Cells were harvested at 3 (black arrow), 5 (red arrow), 7 (green arrow), and 9 (blue arrow) dpi. As per previous experiments, cells were maintained in medium supplemented with 10 μM lamivudine and 50 μM tenofovir (purple bar), transferred to 6-well plates (black cross), and maintained in DMSO-free medium (black bar) prior to harvest. Immediately prior to transfer to a 6-well plate (except for the d3 time course, due to signal interference from input inoculum), cell supernatant (S/N) was collected (black circle) and analyzed by immunoassay for secreted HBeAg (B and C for HepG2-NTCP and Huh7-NTCPs, respectively; mean ± 95% CI for 3 replicates shown for each time course). At the final time point, total DNA was extracted from cells and analyzed by invPCR for HBV DNA integration (D and E for HepG2-NTCP and Huh7-NTCP cells, respectively; geometric mean ± 95% CI). For invPCR, each data point represents a separate 1:3 dilution of inverted DNA extracted (only positive dilutions are shown) from 2 separate infections (indicated by either a square or triangle). ND, not determined; LOD, lower limit of detection (10 −5 cell equivalents; dashed line).

    Article Snippet: To measure HBV replication, secreted HBeAg in culture supernatants (prediluted either 1:2 or 1:5 in 1× PBS) was detected via immunoassay (ADIVA Centaur HBeAg; Siemens, Munich, Germany) by the Heidelberg University Clinic Analytical Centre.

    Techniques: Expressing, Infection