amplitaq gold dna polymerase  (Thermo Fisher)


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    Thermo Fisher amplitaq gold dna polymerase
    Amplitaq Gold Dna Polymerase, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 1609 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/amplitaq gold dna polymerase/product/Thermo Fisher
    Average 99 stars, based on 1609 article reviews
    Price from $9.99 to $1999.99
    amplitaq gold dna polymerase - by Bioz Stars, 2020-02
    99/100 stars

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    Related Articles

    Clone Assay:

    Article Title: Priority Report: Rearrangements and Amplification of IER3 (IEX-1) Represent A Novel And Recurrent Molecular Abnormality In Myelodysplastic Syndromes (MDS)
    Article Snippet: To assess for point mutations in the propositus and other patients with MDS with and without 6p rearrangements, genomic DNA purified with QIAamp DNA Blood Mini Kit (QIAgen, Venlo, The Netherlands) was amplified by PCR on a PTC-200 Peltier thermocycler (MJ Research, Waltham, MA) and sequenced as for breakpoint cloning. .. Reagents included GeneAmp® PCR Buffer II (Applied Biosystems), 1.5 mM MgCl2 (Applied Biosystems), 200 μM dNTPs (Roche, Mannheim, Germany), forward and reverse oligonucleotide primers (see ), 100 ng of template DNA, and AmpliTaq Gold® DNA polymerase (total, 1 U; Applied Biosystems).

    Centrifugation:

    Article Title: Multilocus Variable-Number Tandem-Repeat Analysis for Investigation of Clostridium difficile Transmission in Hospitals
    Article Snippet: PCRs were performed in 50-μl volumes containing 1× AmpliTaq Gold PCR buffer (15 mM Tris-HCl, pH 8.0, 50 mM KCl), 2.5 mM MgCl2 , 0.2 mM each deoxynucleoside triphosphate, 0.2 μM of each primer, and 1.5 units AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, CA). .. The PCR products were prepared for sequencing by precipitation with 60 μl of 20% polyethylene glycol 8000 (Sigma-Aldrich, St. Louis, MO), 2.5 M NaCl solution for 1 h at room temperature, followed by centrifugation at 2,750 × g for 1 h at 4°C.

    Amplification:

    Article Title: DNA Repair Gene Polymorphisms May Be Associated with Prognosis of Upper Urinary Tract Transitional Cell Carcinoma 1
    Article Snippet: .. Briefly, the DNA fragments were amplified from 10 ng of DNA in 10 µl of PCR reactions containing 1.5 mM MgCl2 , 0.2 mM each deoxyribonucleotide triphosphate, 0.3 U of AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, CA), and 0.3 µM each primer. .. The PCR products were digested with the appropriate restriction endonucleases that recognized and cut either wild-type or variant sequences at 37°C for at least 3 hours.

    Article Title: Parathyroid tumor development involves deregulation of homeobox genes
    Article Snippet: .. Genomic DNA was amplified by PCR using the following conditions: 10 ng genomic DNA, 0.2 mM each primer, 200 mM each dNTP, 2 mM MgCl2 , 0.5 units AmpliTaq Gold DNA polymerase (Applied Biosystems), and the manufacturer's buffer. .. Bidirectional sequencing of amplified DNA using the Big-Dye Terminator method (Applied Biosystems) and M13 forward and reverse primers was analyzed on ABI-Perkin–Elmer platforms (models 3100 and/or 3700).

    Article Title: Priority Report: Rearrangements and Amplification of IER3 (IEX-1) Represent A Novel And Recurrent Molecular Abnormality In Myelodysplastic Syndromes (MDS)
    Article Snippet: To assess for point mutations in the propositus and other patients with MDS with and without 6p rearrangements, genomic DNA purified with QIAamp DNA Blood Mini Kit (QIAgen, Venlo, The Netherlands) was amplified by PCR on a PTC-200 Peltier thermocycler (MJ Research, Waltham, MA) and sequenced as for breakpoint cloning. .. Reagents included GeneAmp® PCR Buffer II (Applied Biosystems), 1.5 mM MgCl2 (Applied Biosystems), 200 μM dNTPs (Roche, Mannheim, Germany), forward and reverse oligonucleotide primers (see ), 100 ng of template DNA, and AmpliTaq Gold® DNA polymerase (total, 1 U; Applied Biosystems).

    Article Title: The influence of FKBP5 genotype on expression of FKBP5 and other glucocorticoid-regulated genes, dependent on trauma exposure
    Article Snippet: .. PCR amplification with primers ( ) for FKBP5 was performed using AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, USA), 1 μl of forward and reverse primer (5 μM each), 2 μl of H2 ). .. The allele signals from the Sanger cDNA sequencing results were normalized using the allele-specific peak ratios from the Sanger gDNA sequencing.

    Article Title: Influence of Antibiotic Selection on Genetic Composition of Escherichia coli Populations from Conventional and Organic Dairy Farms ▿ Populations from Conventional and Organic Dairy Farms ▿ †
    Article Snippet: Genomic DNA preparations were tested using primers targeting a 650-bp region of the conserved housekeeping gene mdh (see for primer sequences and reaction conditions), and AmpliTaq Gold DNA polymerase (Applied Biosystems). .. This protocol has produced a positive amplicon in strains representing the genotypic diversity of the species as well as E. coli 's most recent common ancestor, Escherichia albertii .

    Article Title: Oral microbiome diversity in chimpanzees from Gombe National Park
    Article Snippet: .. Following shotgun preparation, samples were amplified using Amplitaq Gold DNA Polymerase (Thermo Fisher Scientific) to a total of 10 cycles. .. Shotgun libraries were split into four identical PCR reactions which contained 9.0 µL of DNA, 9.27 µL PCR Buffer II (10x), 9.27 µL MgCl2 (25 mM), 3.68 µL dNTP mix (10 nM), 2.21 µL BSA (10 mg/mL), 2.0 µL P5 primer, 2.0 µL P7 primer, 61.09 µL of ddH2 O, and 1.48 µL of Amplitaq Gold enzyme.

    Article Title: Hyperglycosylation and Reduced GABA Currents of Mutated GABRB3 Polypeptide in Remitting Childhood Absence Epilepsy
    Article Snippet: We also amplified all coding regions from exon 4 to exon 9, including splice sites, and the selected regions from intron 3 and 3′ UTR. .. For PCR reactions, the AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, CA) or Fast Taq polymerase (Roche, Indianapolis, IN) was used according to manufacturer's instructions.

    Article Title: Mutations of RAS genes in endometrial polyps
    Article Snippet: .. The NRAS exon 2 was amplified from the extracted DNA by Applied Biosystems AmpliTaq Gold DNA polymerase (Thermo Fisher Scientific, Inc., Waltham, MA, USA) with the NRAS exon2 primer ( ). .. PCR products were purified using a NucleoSpin Gel and PCR Clean-Up Kit (Takara Bio) and then ligated to a pGEM-T easy vector (Promega, Fitchburg, WI, USA), followed by transformation of Sure2 competent cells (Agilent, Santa Clara, CA, USA).

    Article Title: Establishment of Murine Cytomegalovirus Latency In Vivo Is Associated with Changes in Histone Modifications and Recruitment of Transcriptional Repressors to the Major Immediate-Early Promoter ▿
    Article Snippet: .. Semiquantitative PCR amplification of the MCMV MIEP segment was performed in the presence of 400 nM of each primer (Table ), 0.2 mM each of dATP, dCTP, dGTP, and dTTP, 1× PCR buffer, 1.5 mM MgCl2 , 1 unit of AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, CA), and 2 units of Perfect Match PCR enhancer (Stratagene). .. The thermal cycling parameters for amplification were 95°C for 5 min and 45 to 50 cycles at 95°C for 15 s, 60°C for 1 min, and 72°C for 30 s. Amplification of the β-actin and Ant4 promoter regions by semiquantitative PCR was performed using 200 nM of each primer (Table ), 1× PCR master mix (Promega, Madison, WI) at 95°C for 30 s, 60°C for 1 min, and 72°C for 30 s for 28 cycles.

    Article Title: Tumor suppressive BTB/POZ zinc-finger protein ZBTB28 inhibits oncogenic BCL6/ZBTB27 signaling to maintain p53 transcription in multiple carcinogenesis
    Article Snippet: MSP analysis revealed no amplified products in any non-bisulfited DNA by MSP primers, thus it can be considered specific. .. AmpliTaq® -Gold DNA Polymerase (Applied Biosystems) was used for MSP, with 40 reaction cycles.

    Article Title: TZAP Mutation Leads to Poor Prognosis of Patients with Breast Cancer †
    Article Snippet: Telomeric Zinc Finger-Associated Protein (TZAP) Mutation Analysis The TZAP mutation was amplified from isolated DNA using the polymerase chain reaction (PCR). .. PCR was performed using AmpliTaq Gold DNA polymerase (Applied Biosystems; Thermo Fisher Scientific, Waltham, MA, USA).

    Article Title: Novel TNXB Variants in Two Italian Patients with Classical-Like Ehlers-Danlos Syndrome
    Article Snippet: Analysis of the TNXA/TNXB Homology Region For the analysis of the TNXA/TNXB homology region, the whole genomic sequence of TNXB, encompassing exons 32–44 was amplified by employing a Long-PCR reaction using the primers reported in and the protocol previously reported [ ]. .. Reactions were performed in a 25 uL volume reaction containing 2.5 uL Buffer (10 ×), dNTP (0,25 mM final concentration), primers (10 pmol each), 1.25 U AmpliTaq Gold DNA Polymerase (Thermo Fisher Scientific, Waltham, MA, USA).

    Quantitative RT-PCR:

    Article Title: The influence of FKBP5 genotype on expression of FKBP5 and other glucocorticoid-regulated genes, dependent on trauma exposure
    Article Snippet: Methods for extraction of RNA and cDNA synthesis are the same as described above in the ‘Quantitative RT-PCR’ section. .. PCR amplification with primers ( ) for FKBP5 was performed using AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, USA), 1 μl of forward and reverse primer (5 μM each), 2 μl of H2 ).

    Concentration Assay:

    Article Title: Influence of Antibiotic Selection on Genetic Composition of Escherichia coli Populations from Conventional and Organic Dairy Farms ▿ Populations from Conventional and Organic Dairy Farms ▿ †
    Article Snippet: DNA preparations were quantified with a NanoDrop ND-1000 UV-visible spectrophotometer (NanoDrop Technologies, Wilmington, DE), diluted to a final concentration of 100 ng/μl, and stored at 4°C. .. Genomic DNA preparations were tested using primers targeting a 650-bp region of the conserved housekeeping gene mdh (see for primer sequences and reaction conditions), and AmpliTaq Gold DNA polymerase (Applied Biosystems).

    Article Title: Novel TNXB Variants in Two Italian Patients with Classical-Like Ehlers-Danlos Syndrome
    Article Snippet: .. Reactions were performed in a 25 uL volume reaction containing 2.5 uL Buffer (10 ×), dNTP (0,25 mM final concentration), primers (10 pmol each), 1.25 U AmpliTaq Gold DNA Polymerase (Thermo Fisher Scientific, Waltham, MA, USA). ..

    Real-time Polymerase Chain Reaction:

    Article Title: Establishment of Murine Cytomegalovirus Latency In Vivo Is Associated with Changes in Histone Modifications and Recruitment of Transcriptional Repressors to the Major Immediate-Early Promoter ▿
    Article Snippet: Generally, one-third of the immunoprecipitated DNA was used for semiquantitative and/or real-time PCR amplification. .. Semiquantitative PCR amplification of the MCMV MIEP segment was performed in the presence of 400 nM of each primer (Table ), 0.2 mM each of dATP, dCTP, dGTP, and dTTP, 1× PCR buffer, 1.5 mM MgCl2 , 1 unit of AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, CA), and 2 units of Perfect Match PCR enhancer (Stratagene).

    Incubation:

    Article Title: The influence of FKBP5 genotype on expression of FKBP5 and other glucocorticoid-regulated genes, dependent on trauma exposure
    Article Snippet: To extract genomic DNA, briefly, cells were lysed in 1 % SDS, 0.05 M EDTA, 50 mM Tris–Cl, pH 8.0, and 100 ng/ml proteinase K, and incubated at 55 °C for 16 h. Genomic DNA was purified by phenol/chloroform extraction. .. PCR amplification with primers ( ) for FKBP5 was performed using AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, USA), 1 μl of forward and reverse primer (5 μM each), 2 μl of H2 ).

    Article Title: Oral microbiome diversity in chimpanzees from Gombe National Park
    Article Snippet: For the final fill in portion of the shotgun build, 20 µL of template DNA was added to 4.0 µL Thermo pol buffer, 0.50 µL dNTP mix (2.5 mM), 2.0 µL Bst polymerase, and 13.50 µL ddH2 O was incubated at 37 °C for 20 minutes followed by 80 °C for 20 minutes. .. Following shotgun preparation, samples were amplified using Amplitaq Gold DNA Polymerase (Thermo Fisher Scientific) to a total of 10 cycles.

    Article Title: Establishment of Murine Cytomegalovirus Latency In Vivo Is Associated with Changes in Histone Modifications and Recruitment of Transcriptional Repressors to the Major Immediate-Early Promoter ▿
    Article Snippet: The cross-links were reversed by incubation overnight at 65°C in the presence of 200 mM NaCl followed by incubation with 0.2 μg/μl protease K at 45°C for 1.5 h. The DNA was extracted with phenol-chloroform and precipitated with a 1/10 volume of 3 M sodium acetate, pH 5.2, and 2.5 volumes of ethanol. .. Semiquantitative PCR amplification of the MCMV MIEP segment was performed in the presence of 400 nM of each primer (Table ), 0.2 mM each of dATP, dCTP, dGTP, and dTTP, 1× PCR buffer, 1.5 mM MgCl2 , 1 unit of AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, CA), and 2 units of Perfect Match PCR enhancer (Stratagene).

    Formalin-fixed Paraffin-Embedded:

    Article Title: Mutations of RAS genes in endometrial polyps
    Article Snippet: Each sample was placed in a 200-µl microtube and DNA was extracted using a NucleoSpin DNA FFPE XS kit (Takara Bio, Inc.). .. The NRAS exon 2 was amplified from the extracted DNA by Applied Biosystems AmpliTaq Gold DNA polymerase (Thermo Fisher Scientific, Inc., Waltham, MA, USA) with the NRAS exon2 primer ( ).

    Expressing:

    Article Title: Tumor suppressive BTB/POZ zinc-finger protein ZBTB28 inhibits oncogenic BCL6/ZBTB27 signaling to maintain p53 transcription in multiple carcinogenesis
    Article Snippet: AmpliTaq® -Gold DNA Polymerase (Applied Biosystems) was used for MSP, with 40 reaction cycles. .. To elucidate whether promoter CpG methylation might regulate the expression of ZBTB28 , several tumor cell lines were treated with a demethylation agent and/or a histone deacetylation inhibitor, as we have previously described , .

    Transformation Assay:

    Article Title: Mutations of RAS genes in endometrial polyps
    Article Snippet: The NRAS exon 2 was amplified from the extracted DNA by Applied Biosystems AmpliTaq Gold DNA polymerase (Thermo Fisher Scientific, Inc., Waltham, MA, USA) with the NRAS exon2 primer ( ). .. PCR products were purified using a NucleoSpin Gel and PCR Clean-Up Kit (Takara Bio) and then ligated to a pGEM-T easy vector (Promega, Fitchburg, WI, USA), followed by transformation of Sure2 competent cells (Agilent, Santa Clara, CA, USA).

    High Performance Liquid Chromatography:

    Article Title: Hyperglycosylation and Reduced GABA Currents of Mutated GABRB3 Polypeptide in Remitting Childhood Absence Epilepsy
    Article Snippet: For PCR reactions, the AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, CA) or Fast Taq polymerase (Roche, Indianapolis, IN) was used according to manufacturer's instructions. .. Each PCR product of probands and controls was screened by heteroduplex analysis with the use of denaturing high-performance liquid chromatography (DHPLC WAVE, Transgenomic) or directly sequenced with the use of ABI 3700 capillary automated-sequencing system (Applied Biosystems, Foster City, CA).

    Ligation:

    Article Title: Oral microbiome diversity in chimpanzees from Gombe National Park
    Article Snippet: For adapter ligation, 18 µL of template DNA was added to 20 µL Quick Ligase Buffer, 1.0 µL Solexa Mix , and 1.0 µL Quick Ligase and incubated at room temperature for 20 minutes. .. Following shotgun preparation, samples were amplified using Amplitaq Gold DNA Polymerase (Thermo Fisher Scientific) to a total of 10 cycles.

    Cell Culture:

    Article Title: Mutations of RAS genes in endometrial polyps
    Article Snippet: The NRAS exon 2 was amplified from the extracted DNA by Applied Biosystems AmpliTaq Gold DNA polymerase (Thermo Fisher Scientific, Inc., Waltham, MA, USA) with the NRAS exon2 primer ( ). .. Competent cells were cultured on LB plates with ampicillin, and 30 colonies were chosen for each sample by color selection.

    CpG Methylation Assay:

    Article Title: Tumor suppressive BTB/POZ zinc-finger protein ZBTB28 inhibits oncogenic BCL6/ZBTB27 signaling to maintain p53 transcription in multiple carcinogenesis
    Article Snippet: AmpliTaq® -Gold DNA Polymerase (Applied Biosystems) was used for MSP, with 40 reaction cycles. .. To elucidate whether promoter CpG methylation might regulate the expression of ZBTB28 , several tumor cell lines were treated with a demethylation agent and/or a histone deacetylation inhibitor, as we have previously described , .

    Imaging:

    Article Title: Tumor suppressive BTB/POZ zinc-finger protein ZBTB28 inhibits oncogenic BCL6/ZBTB27 signaling to maintain p53 transcription in multiple carcinogenesis
    Article Snippet: AmpliTaq® -Gold DNA Polymerase (Applied Biosystems) was used for MSP, with 40 reaction cycles. .. PCR products were separated on a 2% agarose gel and photographed on a gel imaging system (Bio-RAD Gel Doc XR+, CA).

    Sequencing:

    Article Title: Parathyroid tumor development involves deregulation of homeobox genes
    Article Snippet: Paragraph title: Sequence analysis of MEN1 ... Genomic DNA was amplified by PCR using the following conditions: 10 ng genomic DNA, 0.2 mM each primer, 200 mM each dNTP, 2 mM MgCl2 , 0.5 units AmpliTaq Gold DNA polymerase (Applied Biosystems), and the manufacturer's buffer.

    Article Title: Priority Report: Rearrangements and Amplification of IER3 (IEX-1) Represent A Novel And Recurrent Molecular Abnormality In Myelodysplastic Syndromes (MDS)
    Article Snippet: Amplicons detected by ethidium-bromide-impregnated agarose gel electrophoresis were then sequenced using fluorescent dye chemistry sequencing to explicitly define the rearrangement (ABI Prism 3730 DNA Analyzer; Applied Biosystems, Foster City, CA), with chromatograms compared to , and ( IER3 ) using Sequencher 4.5 software (Gene Codes, Ann Arbor, MI). .. Reagents included GeneAmp® PCR Buffer II (Applied Biosystems), 1.5 mM MgCl2 (Applied Biosystems), 200 μM dNTPs (Roche, Mannheim, Germany), forward and reverse oligonucleotide primers (see ), 100 ng of template DNA, and AmpliTaq Gold® DNA polymerase (total, 1 U; Applied Biosystems).

    Article Title: The influence of FKBP5 genotype on expression of FKBP5 and other glucocorticoid-regulated genes, dependent on trauma exposure
    Article Snippet: Paragraph title: Quantitative Sanger sequencing to detect allelic imbalance in cDNA ... PCR amplification with primers ( ) for FKBP5 was performed using AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, USA), 1 μl of forward and reverse primer (5 μM each), 2 μl of H2 ).

    Article Title: The emergence of a new strain of porcine circovirus-2 in Ontario and Quebec swine and its association with severe porcine circovirus associated disease -- 2004-2006
    Article Snippet: Primers for initial diagnosis for all Ontario cases were selected using sequence information for both PCV-1 and PCV-2 genomes obtained from GenBank (Accession no. and ). .. The master mix was prepared in 50 μL final volume using 2.5 U Amplitaq Gold DNA polymerase (Applied Biosystems, Mississauga, Ontario), 1X PCR buffer II, 2 mM MgCl2 (Applied Biosystems), 0.2 mM of each dNTP (Applied Biosystems) and 0.1 mM primers (Guelph Molecular Supercentre, Laboratory Services Division, University of Guelph, Guelph, Ontario).

    Article Title: Oral microbiome diversity in chimpanzees from Gombe National Park
    Article Snippet: Paragraph title: Shotgun build, amplification, and sequencing ... Following shotgun preparation, samples were amplified using Amplitaq Gold DNA Polymerase (Thermo Fisher Scientific) to a total of 10 cycles.

    Article Title: Mutations of RAS genes in endometrial polyps
    Article Snippet: Paragraph title: Laser-capture microdissection and RAS-targeted sequencing ... The NRAS exon 2 was amplified from the extracted DNA by Applied Biosystems AmpliTaq Gold DNA polymerase (Thermo Fisher Scientific, Inc., Waltham, MA, USA) with the NRAS exon2 primer ( ).

    Article Title: Multilocus Variable-Number Tandem-Repeat Analysis for Investigation of Clostridium difficile Transmission in Hospitals
    Article Snippet: PCR amplification and sequence analysis of the seven selected C. difficile repeat (CDR) loci was performed on the 86 C. difficile isolates from UPMC and HVA with the following primer sets: CDR4F (5′-ATTAATCATATCCTACAGAACACGA-3′) and CDR4R (5′-TAAAACAAATGATATAAACTGAAAAG-3′); CDR5F (5′-AATTTTAAGTTAACGTTTTTCTACAT-3′) and CDR5R (5′-AGCCATTTTTATCAATCCTTTCTAT-3′); CDR9F (5′-TCTGGGATGTAACTAGCGACTTGT-3′) and CDR9R (5′-TCTTAGGGAATTTATTGGAGGAA-3′); CDR48F (5′-AGGAGCTTTATATGGACATTCAGGTAG-3′) and CDR48R (5′-AATCTCTTTCAAACTCTTCAATCTCAAT-3′); CDR49F (5′-AACATATTTAGGCATTTTAGTC-3′) and CDR49R (5′-GAGTATTATTTATCATTTGTGGGTATTA-3′); CDR59F (5′-GTAGAAGGGGCAAATAATGAG-3′) and CDR59R (5′-CCTTCTGGCTTCCTTGTA-ATA-3′); and CDR60F (5′-GGTGCACATGCTGGTCCTG-3′) and CDR60R (5′-AACGCATTAAATTTCAC-TCCTCATAC-3′). .. PCRs were performed in 50-μl volumes containing 1× AmpliTaq Gold PCR buffer (15 mM Tris-HCl, pH 8.0, 50 mM KCl), 2.5 mM MgCl2 , 0.2 mM each deoxynucleoside triphosphate, 0.2 μM of each primer, and 1.5 units AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, CA).

    Article Title: History-driven population structure and asymmetric gene flow in a recovering large carnivore at the rear-edge of its European range
    Article Snippet: A total of 60 samples, which were determined to belong to different individuals as per the microsatellite analysis, were used to sequence a 271 bp stretch of the mitochondrial control region. .. Amplifications were performed in 15-µl reactions containing 1x Gold Buffer (Applied Biosystems, Foster City, CA, USA), 2.5 mM MgCl2 , 0.2 mM dNTPs, 0.4 µM forward primers, 0.4 µM reverse primer and 0.027 U/µl AmpliTaq Gold DNA polymerase (Applied Biosystems).

    Article Title: Novel TNXB Variants in Two Italian Patients with Classical-Like Ehlers-Danlos Syndrome
    Article Snippet: Analysis of the TNXA/TNXB Homology Region For the analysis of the TNXA/TNXB homology region, the whole genomic sequence of TNXB, encompassing exons 32–44 was amplified by employing a Long-PCR reaction using the primers reported in and the protocol previously reported [ ]. .. Reactions were performed in a 25 uL volume reaction containing 2.5 uL Buffer (10 ×), dNTP (0,25 mM final concentration), primers (10 pmol each), 1.25 U AmpliTaq Gold DNA Polymerase (Thermo Fisher Scientific, Waltham, MA, USA).

    DNA Sequencing:

    Article Title: Priority Report: Rearrangements and Amplification of IER3 (IEX-1) Represent A Novel And Recurrent Molecular Abnormality In Myelodysplastic Syndromes (MDS)
    Article Snippet: Paragraph title: DNA Sequencing ... Reagents included GeneAmp® PCR Buffer II (Applied Biosystems), 1.5 mM MgCl2 (Applied Biosystems), 200 μM dNTPs (Roche, Mannheim, Germany), forward and reverse oligonucleotide primers (see ), 100 ng of template DNA, and AmpliTaq Gold® DNA polymerase (total, 1 U; Applied Biosystems).

    Article Title: TZAP Mutation Leads to Poor Prognosis of Patients with Breast Cancer †
    Article Snippet: PCR was performed using AmpliTaq Gold DNA polymerase (Applied Biosystems; Thermo Fisher Scientific, Waltham, MA, USA). .. Direct DNA sequencing of TZAP was subsequently performed using an ABI 3730 DNA sequencer (Bionics, Seoul, South Korea).

    DNA Extraction:

    Article Title: DNA Repair Gene Polymorphisms May Be Associated with Prognosis of Upper Urinary Tract Transitional Cell Carcinoma 1
    Article Snippet: Paragraph title: DNA Extraction and Genotyping ... Briefly, the DNA fragments were amplified from 10 ng of DNA in 10 µl of PCR reactions containing 1.5 mM MgCl2 , 0.2 mM each deoxyribonucleotide triphosphate, 0.3 U of AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, CA), and 0.3 µM each primer.

    Article Title: Parathyroid tumor development involves deregulation of homeobox genes
    Article Snippet: Briefly, patient's frozen sectioned parathyroid tissues were processed for genomic DNA isolation. .. Genomic DNA was amplified by PCR using the following conditions: 10 ng genomic DNA, 0.2 mM each primer, 200 mM each dNTP, 2 mM MgCl2 , 0.5 units AmpliTaq Gold DNA polymerase (Applied Biosystems), and the manufacturer's buffer.

    Article Title: Influence of Antibiotic Selection on Genetic Composition of Escherichia coli Populations from Conventional and Organic Dairy Farms ▿ Populations from Conventional and Organic Dairy Farms ▿ †
    Article Snippet: Genomic DNA was isolated from 2 ml of overnight culture in LB broth (Lennox; Becton, Dickinson, and Company, Sparks, MD) using the Puregene DNA isolation kit (Gentra Systems Inc., Minneapolis, MN.). .. Genomic DNA preparations were tested using primers targeting a 650-bp region of the conserved housekeeping gene mdh (see for primer sequences and reaction conditions), and AmpliTaq Gold DNA polymerase (Applied Biosystems).

    Article Title: History-driven population structure and asymmetric gene flow in a recovering large carnivore at the rear-edge of its European range
    Article Snippet: Paragraph title: DNA extraction, microsatellite and mitochondrial analysis ... Amplifications were performed in 15-µl reactions containing 1x Gold Buffer (Applied Biosystems, Foster City, CA, USA), 2.5 mM MgCl2 , 0.2 mM dNTPs, 0.4 µM forward primers, 0.4 µM reverse primer and 0.027 U/µl AmpliTaq Gold DNA polymerase (Applied Biosystems).

    Methylation:

    Article Title: Tumor suppressive BTB/POZ zinc-finger protein ZBTB28 inhibits oncogenic BCL6/ZBTB27 signaling to maintain p53 transcription in multiple carcinogenesis
    Article Snippet: Paragraph title: Bisulfite conversion and methylation-specific PCR (MSP) ... AmpliTaq® -Gold DNA Polymerase (Applied Biosystems) was used for MSP, with 40 reaction cycles.

    Mutagenesis:

    Article Title: Parathyroid tumor development involves deregulation of homeobox genes
    Article Snippet: Genomic DNA was amplified by PCR using the following conditions: 10 ng genomic DNA, 0.2 mM each primer, 200 mM each dNTP, 2 mM MgCl2 , 0.5 units AmpliTaq Gold DNA polymerase (Applied Biosystems), and the manufacturer's buffer. .. MEN1 mutation status and clinical pathological findings of the patient specimens are shown in .

    Article Title: Hyperglycosylation and Reduced GABA Currents of Mutated GABRB3 Polypeptide in Remitting Childhood Absence Epilepsy
    Article Snippet: Paragraph title: Mutation Analysis ... For PCR reactions, the AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, CA) or Fast Taq polymerase (Roche, Indianapolis, IN) was used according to manufacturer's instructions.

    Article Title: Mutations of RAS genes in endometrial polyps
    Article Snippet: The RAS mutation was analyzed in separate glandular and stromal components. .. The NRAS exon 2 was amplified from the extracted DNA by Applied Biosystems AmpliTaq Gold DNA polymerase (Thermo Fisher Scientific, Inc., Waltham, MA, USA) with the NRAS exon2 primer ( ).

    Article Title: TZAP Mutation Leads to Poor Prognosis of Patients with Breast Cancer †
    Article Snippet: Paragraph title: 2.2. Telomeric Zinc Finger-Associated Protein (TZAP) Mutation Analysis ... PCR was performed using AmpliTaq Gold DNA polymerase (Applied Biosystems; Thermo Fisher Scientific, Waltham, MA, USA).

    Isolation:

    Article Title: Influence of Antibiotic Selection on Genetic Composition of Escherichia coli Populations from Conventional and Organic Dairy Farms ▿ Populations from Conventional and Organic Dairy Farms ▿ †
    Article Snippet: Genomic DNA was isolated from 2 ml of overnight culture in LB broth (Lennox; Becton, Dickinson, and Company, Sparks, MD) using the Puregene DNA isolation kit (Gentra Systems Inc., Minneapolis, MN.). .. Genomic DNA preparations were tested using primers targeting a 650-bp region of the conserved housekeeping gene mdh (see for primer sequences and reaction conditions), and AmpliTaq Gold DNA polymerase (Applied Biosystems).

    Article Title: TZAP Mutation Leads to Poor Prognosis of Patients with Breast Cancer †
    Article Snippet: Telomeric Zinc Finger-Associated Protein (TZAP) Mutation Analysis The TZAP mutation was amplified from isolated DNA using the polymerase chain reaction (PCR). .. PCR was performed using AmpliTaq Gold DNA polymerase (Applied Biosystems; Thermo Fisher Scientific, Waltham, MA, USA).

    Article Title: Multilocus Variable-Number Tandem-Repeat Analysis for Investigation of Clostridium difficile Transmission in Hospitals
    Article Snippet: Genomic C. difficile DNA was isolated from 10-ml tryptic soy broth cultures grown for 18 h anaerobically using the QIAGEN DNeasy MiniKit according to the manufacturer's instructions for gram-positive organisms (QIAGEN, Valencia, CA). .. PCRs were performed in 50-μl volumes containing 1× AmpliTaq Gold PCR buffer (15 mM Tris-HCl, pH 8.0, 50 mM KCl), 2.5 mM MgCl2 , 0.2 mM each deoxynucleoside triphosphate, 0.2 μM of each primer, and 1.5 units AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, CA).

    Multiplex Assay:

    Article Title: Influence of Antibiotic Selection on Genetic Composition of Escherichia coli Populations from Conventional and Organic Dairy Farms ▿ Populations from Conventional and Organic Dairy Farms ▿ †
    Article Snippet: Paragraph title: ECOR phylogrouping by multiplex PCR. ... Genomic DNA preparations were tested using primers targeting a 650-bp region of the conserved housekeeping gene mdh (see for primer sequences and reaction conditions), and AmpliTaq Gold DNA polymerase (Applied Biosystems).

    Purification:

    Article Title: Priority Report: Rearrangements and Amplification of IER3 (IEX-1) Represent A Novel And Recurrent Molecular Abnormality In Myelodysplastic Syndromes (MDS)
    Article Snippet: To assess for point mutations in the propositus and other patients with MDS with and without 6p rearrangements, genomic DNA purified with QIAamp DNA Blood Mini Kit (QIAgen, Venlo, The Netherlands) was amplified by PCR on a PTC-200 Peltier thermocycler (MJ Research, Waltham, MA) and sequenced as for breakpoint cloning. .. Reagents included GeneAmp® PCR Buffer II (Applied Biosystems), 1.5 mM MgCl2 (Applied Biosystems), 200 μM dNTPs (Roche, Mannheim, Germany), forward and reverse oligonucleotide primers (see ), 100 ng of template DNA, and AmpliTaq Gold® DNA polymerase (total, 1 U; Applied Biosystems).

    Article Title: The influence of FKBP5 genotype on expression of FKBP5 and other glucocorticoid-regulated genes, dependent on trauma exposure
    Article Snippet: To extract genomic DNA, briefly, cells were lysed in 1 % SDS, 0.05 M EDTA, 50 mM Tris–Cl, pH 8.0, and 100 ng/ml proteinase K, and incubated at 55 °C for 16 h. Genomic DNA was purified by phenol/chloroform extraction. .. PCR amplification with primers ( ) for FKBP5 was performed using AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, USA), 1 μl of forward and reverse primer (5 μM each), 2 μl of H2 ).

    Article Title: Oral microbiome diversity in chimpanzees from Gombe National Park
    Article Snippet: The solution was then purified again using a MinElute according to manufacturer protocol and eluted into 20 µL EB buffer. .. Following shotgun preparation, samples were amplified using Amplitaq Gold DNA Polymerase (Thermo Fisher Scientific) to a total of 10 cycles.

    Article Title: Mutations of RAS genes in endometrial polyps
    Article Snippet: The NRAS exon 2 was amplified from the extracted DNA by Applied Biosystems AmpliTaq Gold DNA polymerase (Thermo Fisher Scientific, Inc., Waltham, MA, USA) with the NRAS exon2 primer ( ). .. PCR products were purified using a NucleoSpin Gel and PCR Clean-Up Kit (Takara Bio) and then ligated to a pGEM-T easy vector (Promega, Fitchburg, WI, USA), followed by transformation of Sure2 competent cells (Agilent, Santa Clara, CA, USA).

    Article Title: Establishment of Murine Cytomegalovirus Latency In Vivo Is Associated with Changes in Histone Modifications and Recruitment of Transcriptional Repressors to the Major Immediate-Early Promoter ▿
    Article Snippet: Prior to the addition of antibody to the sheared chromatin, an aliquot (subsequently referred to as the input) was removed and purified in a manner similar to that for the bound ChIP fraction. .. Semiquantitative PCR amplification of the MCMV MIEP segment was performed in the presence of 400 nM of each primer (Table ), 0.2 mM each of dATP, dCTP, dGTP, and dTTP, 1× PCR buffer, 1.5 mM MgCl2 , 1 unit of AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, CA), and 2 units of Perfect Match PCR enhancer (Stratagene).

    Article Title: History-driven population structure and asymmetric gene flow in a recovering large carnivore at the rear-edge of its European range
    Article Snippet: Amplifications were performed in 15-µl reactions containing 1x Gold Buffer (Applied Biosystems, Foster City, CA, USA), 2.5 mM MgCl2 , 0.2 mM dNTPs, 0.4 µM forward primers, 0.4 µM reverse primer and 0.027 U/µl AmpliTaq Gold DNA polymerase (Applied Biosystems). .. PCRs were performed in a T1 plus Thermocycler (Biometra GmbH, Göttingen, Germany) with an initial denaturation step of 95 °C for 5 min, followed by 38 cycles of 95 °C for 30 s, 60 °C for 30 s, and 72 °C for 1 min, and a final elongation step of 72 °C for 7 min. PCR products were purified by adding 4 µl of Exonuclease I and 1.6 µl of FastAP™ Thermosensitive Alkaline Phosphatase (Thermo Scientific, Waltham, MA USA) at 37 °C for 15 min followed by 80 °C for 15 min. Purified PCR products were diluted 1:40 and both strands sequenced on an ABI3730 DNA Analyzer (Life Technologies GmbH, Darmstadt, Germany).

    Article Title: Novel TNXB Variants in Two Italian Patients with Classical-Like Ehlers-Danlos Syndrome
    Article Snippet: Reactions were performed in a 25 uL volume reaction containing 2.5 uL Buffer (10 ×), dNTP (0,25 mM final concentration), primers (10 pmol each), 1.25 U AmpliTaq Gold DNA Polymerase (Thermo Fisher Scientific, Waltham, MA, USA). .. The overlapping Nested PCR products were then checked on EtBr stained 2% agarose gel, purified with ExoSap-IT kit (Thermo Fisher Scientific, Waltham, MA, USA) and sequenced with a ready reaction kit (BigDye Terminator v1.1 Cycle kit, Thermo Fisher Scientific, Waltham, MA, USA).

    Polymerase Chain Reaction:

    Article Title: DNA Repair Gene Polymorphisms May Be Associated with Prognosis of Upper Urinary Tract Transitional Cell Carcinoma 1
    Article Snippet: .. Briefly, the DNA fragments were amplified from 10 ng of DNA in 10 µl of PCR reactions containing 1.5 mM MgCl2 , 0.2 mM each deoxyribonucleotide triphosphate, 0.3 U of AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, CA), and 0.3 µM each primer. .. The PCR products were digested with the appropriate restriction endonucleases that recognized and cut either wild-type or variant sequences at 37°C for at least 3 hours.

    Article Title: Parathyroid tumor development involves deregulation of homeobox genes
    Article Snippet: .. Genomic DNA was amplified by PCR using the following conditions: 10 ng genomic DNA, 0.2 mM each primer, 200 mM each dNTP, 2 mM MgCl2 , 0.5 units AmpliTaq Gold DNA polymerase (Applied Biosystems), and the manufacturer's buffer. .. Bidirectional sequencing of amplified DNA using the Big-Dye Terminator method (Applied Biosystems) and M13 forward and reverse primers was analyzed on ABI-Perkin–Elmer platforms (models 3100 and/or 3700).

    Article Title: Priority Report: Rearrangements and Amplification of IER3 (IEX-1) Represent A Novel And Recurrent Molecular Abnormality In Myelodysplastic Syndromes (MDS)
    Article Snippet: .. Reagents included GeneAmp® PCR Buffer II (Applied Biosystems), 1.5 mM MgCl2 (Applied Biosystems), 200 μM dNTPs (Roche, Mannheim, Germany), forward and reverse oligonucleotide primers (see ), 100 ng of template DNA, and AmpliTaq Gold® DNA polymerase (total, 1 U; Applied Biosystems). ..

    Article Title: The influence of FKBP5 genotype on expression of FKBP5 and other glucocorticoid-regulated genes, dependent on trauma exposure
    Article Snippet: .. PCR amplification with primers ( ) for FKBP5 was performed using AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, USA), 1 μl of forward and reverse primer (5 μM each), 2 μl of H2 ). .. The allele signals from the Sanger cDNA sequencing results were normalized using the allele-specific peak ratios from the Sanger gDNA sequencing.

    Article Title: Influence of Antibiotic Selection on Genetic Composition of Escherichia coli Populations from Conventional and Organic Dairy Farms ▿ Populations from Conventional and Organic Dairy Farms ▿ †
    Article Snippet: Paragraph title: ECOR phylogrouping by multiplex PCR. ... Genomic DNA preparations were tested using primers targeting a 650-bp region of the conserved housekeeping gene mdh (see for primer sequences and reaction conditions), and AmpliTaq Gold DNA polymerase (Applied Biosystems).

    Article Title: The emergence of a new strain of porcine circovirus-2 in Ontario and Quebec swine and its association with severe porcine circovirus associated disease -- 2004-2006
    Article Snippet: .. The master mix was prepared in 50 μL final volume using 2.5 U Amplitaq Gold DNA polymerase (Applied Biosystems, Mississauga, Ontario), 1X PCR buffer II, 2 mM MgCl2 (Applied Biosystems), 0.2 mM of each dNTP (Applied Biosystems) and 0.1 mM primers (Guelph Molecular Supercentre, Laboratory Services Division, University of Guelph, Guelph, Ontario). ..

    Article Title: Oral microbiome diversity in chimpanzees from Gombe National Park
    Article Snippet: Following shotgun preparation, samples were amplified using Amplitaq Gold DNA Polymerase (Thermo Fisher Scientific) to a total of 10 cycles. .. Shotgun libraries were split into four identical PCR reactions which contained 9.0 µL of DNA, 9.27 µL PCR Buffer II (10x), 9.27 µL MgCl2 (25 mM), 3.68 µL dNTP mix (10 nM), 2.21 µL BSA (10 mg/mL), 2.0 µL P5 primer, 2.0 µL P7 primer, 61.09 µL of ddH2 O, and 1.48 µL of Amplitaq Gold enzyme.

    Article Title: Hyperglycosylation and Reduced GABA Currents of Mutated GABRB3 Polypeptide in Remitting Childhood Absence Epilepsy
    Article Snippet: .. For PCR reactions, the AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, CA) or Fast Taq polymerase (Roche, Indianapolis, IN) was used according to manufacturer's instructions. .. Both patient and healthy-control genomic-DNA samples served as templates for PCR amplifications.

    Article Title: Mutations of RAS genes in endometrial polyps
    Article Snippet: The NRAS exon 2 was amplified from the extracted DNA by Applied Biosystems AmpliTaq Gold DNA polymerase (Thermo Fisher Scientific, Inc., Waltham, MA, USA) with the NRAS exon2 primer ( ). .. PCR products were purified using a NucleoSpin Gel and PCR Clean-Up Kit (Takara Bio) and then ligated to a pGEM-T easy vector (Promega, Fitchburg, WI, USA), followed by transformation of Sure2 competent cells (Agilent, Santa Clara, CA, USA).

    Article Title: Establishment of Murine Cytomegalovirus Latency In Vivo Is Associated with Changes in Histone Modifications and Recruitment of Transcriptional Repressors to the Major Immediate-Early Promoter ▿
    Article Snippet: .. Semiquantitative PCR amplification of the MCMV MIEP segment was performed in the presence of 400 nM of each primer (Table ), 0.2 mM each of dATP, dCTP, dGTP, and dTTP, 1× PCR buffer, 1.5 mM MgCl2 , 1 unit of AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, CA), and 2 units of Perfect Match PCR enhancer (Stratagene). .. The thermal cycling parameters for amplification were 95°C for 5 min and 45 to 50 cycles at 95°C for 15 s, 60°C for 1 min, and 72°C for 30 s. Amplification of the β-actin and Ant4 promoter regions by semiquantitative PCR was performed using 200 nM of each primer (Table ), 1× PCR master mix (Promega, Madison, WI) at 95°C for 30 s, 60°C for 1 min, and 72°C for 30 s for 28 cycles.

    Article Title: Tumor suppressive BTB/POZ zinc-finger protein ZBTB28 inhibits oncogenic BCL6/ZBTB27 signaling to maintain p53 transcription in multiple carcinogenesis
    Article Snippet: Paragraph title: Bisulfite conversion and methylation-specific PCR (MSP) ... AmpliTaq® -Gold DNA Polymerase (Applied Biosystems) was used for MSP, with 40 reaction cycles.

    Article Title: TZAP Mutation Leads to Poor Prognosis of Patients with Breast Cancer †
    Article Snippet: .. PCR was performed using AmpliTaq Gold DNA polymerase (Applied Biosystems; Thermo Fisher Scientific, Waltham, MA, USA). ..

    Article Title: Multilocus Variable-Number Tandem-Repeat Analysis for Investigation of Clostridium difficile Transmission in Hospitals
    Article Snippet: .. PCRs were performed in 50-μl volumes containing 1× AmpliTaq Gold PCR buffer (15 mM Tris-HCl, pH 8.0, 50 mM KCl), 2.5 mM MgCl2 , 0.2 mM each deoxynucleoside triphosphate, 0.2 μM of each primer, and 1.5 units AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, CA). .. The PCR cycle conditions were as follows: 95°C for 5 min, followed by 35 cycles of 95°C for 1 min, 48°C for 1 min, and 72°C for 1 min 30 s, and a final extension at 72°C for 5 min.

    Article Title: History-driven population structure and asymmetric gene flow in a recovering large carnivore at the rear-edge of its European range
    Article Snippet: PCR products were run in an automated sequencer (ABI 310) and genotypes were determined using ABI Genescan and Genotyper version 2.1 software. .. Amplifications were performed in 15-µl reactions containing 1x Gold Buffer (Applied Biosystems, Foster City, CA, USA), 2.5 mM MgCl2 , 0.2 mM dNTPs, 0.4 µM forward primers, 0.4 µM reverse primer and 0.027 U/µl AmpliTaq Gold DNA polymerase (Applied Biosystems).

    Article Title: Novel TNXB Variants in Two Italian Patients with Classical-Like Ehlers-Danlos Syndrome
    Article Snippet: The 4987 bp PCR product was checked on ethidium bromide (EtBr) stained 1% agarose gel and then used as template for seven nested PCR amplifications with the primers listed in . .. Reactions were performed in a 25 uL volume reaction containing 2.5 uL Buffer (10 ×), dNTP (0,25 mM final concentration), primers (10 pmol each), 1.25 U AmpliTaq Gold DNA Polymerase (Thermo Fisher Scientific, Waltham, MA, USA).

    Blocking Assay:

    Article Title: Mutations of RAS genes in endometrial polyps
    Article Snippet: Serial slices of 7 µm were prepared from a block. .. The NRAS exon 2 was amplified from the extracted DNA by Applied Biosystems AmpliTaq Gold DNA polymerase (Thermo Fisher Scientific, Inc., Waltham, MA, USA) with the NRAS exon2 primer ( ).

    T-Test:

    Article Title: The influence of FKBP5 genotype on expression of FKBP5 and other glucocorticoid-regulated genes, dependent on trauma exposure
    Article Snippet: PCR amplification with primers ( ) for FKBP5 was performed using AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, USA), 1 μl of forward and reverse primer (5 μM each), 2 μl of H2 ). .. To test if the G allele and T allele were equally expressed, Sanger sequencing data were evaluated by a one-group t-test with values of G allele area / (G allele area + T allele area).

    Nested PCR:

    Article Title: Novel TNXB Variants in Two Italian Patients with Classical-Like Ehlers-Danlos Syndrome
    Article Snippet: The 4987 bp PCR product was checked on ethidium bromide (EtBr) stained 1% agarose gel and then used as template for seven nested PCR amplifications with the primers listed in . .. Reactions were performed in a 25 uL volume reaction containing 2.5 uL Buffer (10 ×), dNTP (0,25 mM final concentration), primers (10 pmol each), 1.25 U AmpliTaq Gold DNA Polymerase (Thermo Fisher Scientific, Waltham, MA, USA).

    Chromatin Immunoprecipitation:

    Article Title: Establishment of Murine Cytomegalovirus Latency In Vivo Is Associated with Changes in Histone Modifications and Recruitment of Transcriptional Repressors to the Major Immediate-Early Promoter ▿
    Article Snippet: Paragraph title: ChIP. ... Semiquantitative PCR amplification of the MCMV MIEP segment was performed in the presence of 400 nM of each primer (Table ), 0.2 mM each of dATP, dCTP, dGTP, and dTTP, 1× PCR buffer, 1.5 mM MgCl2 , 1 unit of AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, CA), and 2 units of Perfect Match PCR enhancer (Stratagene).

    Plasmid Preparation:

    Article Title: Mutations of RAS genes in endometrial polyps
    Article Snippet: The NRAS exon 2 was amplified from the extracted DNA by Applied Biosystems AmpliTaq Gold DNA polymerase (Thermo Fisher Scientific, Inc., Waltham, MA, USA) with the NRAS exon2 primer ( ). .. PCR products were purified using a NucleoSpin Gel and PCR Clean-Up Kit (Takara Bio) and then ligated to a pGEM-T easy vector (Promega, Fitchburg, WI, USA), followed by transformation of Sure2 competent cells (Agilent, Santa Clara, CA, USA).

    Software:

    Article Title: Parathyroid tumor development involves deregulation of homeobox genes
    Article Snippet: Genomic DNA was amplified by PCR using the following conditions: 10 ng genomic DNA, 0.2 mM each primer, 200 mM each dNTP, 2 mM MgCl2 , 0.5 units AmpliTaq Gold DNA polymerase (Applied Biosystems), and the manufacturer's buffer. .. Sequencing results were analyzed by H-C J S and L M Y using Sequencher 4.0.5 software (Gene Codes Corporation, Ann Arbor, MI, USA).

    Article Title: Priority Report: Rearrangements and Amplification of IER3 (IEX-1) Represent A Novel And Recurrent Molecular Abnormality In Myelodysplastic Syndromes (MDS)
    Article Snippet: Amplicons detected by ethidium-bromide-impregnated agarose gel electrophoresis were then sequenced using fluorescent dye chemistry sequencing to explicitly define the rearrangement (ABI Prism 3730 DNA Analyzer; Applied Biosystems, Foster City, CA), with chromatograms compared to , and ( IER3 ) using Sequencher 4.5 software (Gene Codes, Ann Arbor, MI). .. Reagents included GeneAmp® PCR Buffer II (Applied Biosystems), 1.5 mM MgCl2 (Applied Biosystems), 200 μM dNTPs (Roche, Mannheim, Germany), forward and reverse oligonucleotide primers (see ), 100 ng of template DNA, and AmpliTaq Gold® DNA polymerase (total, 1 U; Applied Biosystems).

    Article Title: The influence of FKBP5 genotype on expression of FKBP5 and other glucocorticoid-regulated genes, dependent on trauma exposure
    Article Snippet: PCR amplification with primers ( ) for FKBP5 was performed using AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, USA), 1 μl of forward and reverse primer (5 μM each), 2 μl of H2 ). .. The analyses were undertaken using JMP11 software (SAS Institute).

    Article Title: History-driven population structure and asymmetric gene flow in a recovering large carnivore at the rear-edge of its European range
    Article Snippet: PCR products were run in an automated sequencer (ABI 310) and genotypes were determined using ABI Genescan and Genotyper version 2.1 software. .. Amplifications were performed in 15-µl reactions containing 1x Gold Buffer (Applied Biosystems, Foster City, CA, USA), 2.5 mM MgCl2 , 0.2 mM dNTPs, 0.4 µM forward primers, 0.4 µM reverse primer and 0.027 U/µl AmpliTaq Gold DNA polymerase (Applied Biosystems).

    Negative Control:

    Article Title: Establishment of Murine Cytomegalovirus Latency In Vivo Is Associated with Changes in Histone Modifications and Recruitment of Transcriptional Repressors to the Major Immediate-Early Promoter ▿
    Article Snippet: Semiquantitative PCR amplification of the MCMV MIEP segment was performed in the presence of 400 nM of each primer (Table ), 0.2 mM each of dATP, dCTP, dGTP, and dTTP, 1× PCR buffer, 1.5 mM MgCl2 , 1 unit of AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, CA), and 2 units of Perfect Match PCR enhancer (Stratagene). .. As a negative control, the chromatin was immunoprecipitated with normal mouse/rabbit IgG and processed as above.

    Selection:

    Article Title: Mutations of RAS genes in endometrial polyps
    Article Snippet: The NRAS exon 2 was amplified from the extracted DNA by Applied Biosystems AmpliTaq Gold DNA polymerase (Thermo Fisher Scientific, Inc., Waltham, MA, USA) with the NRAS exon2 primer ( ). .. Competent cells were cultured on LB plates with ampicillin, and 30 colonies were chosen for each sample by color selection.

    Agarose Gel Electrophoresis:

    Article Title: Priority Report: Rearrangements and Amplification of IER3 (IEX-1) Represent A Novel And Recurrent Molecular Abnormality In Myelodysplastic Syndromes (MDS)
    Article Snippet: Amplicons detected by ethidium-bromide-impregnated agarose gel electrophoresis were then sequenced using fluorescent dye chemistry sequencing to explicitly define the rearrangement (ABI Prism 3730 DNA Analyzer; Applied Biosystems, Foster City, CA), with chromatograms compared to , and ( IER3 ) using Sequencher 4.5 software (Gene Codes, Ann Arbor, MI). .. Reagents included GeneAmp® PCR Buffer II (Applied Biosystems), 1.5 mM MgCl2 (Applied Biosystems), 200 μM dNTPs (Roche, Mannheim, Germany), forward and reverse oligonucleotide primers (see ), 100 ng of template DNA, and AmpliTaq Gold® DNA polymerase (total, 1 U; Applied Biosystems).

    Article Title: The emergence of a new strain of porcine circovirus-2 in Ontario and Quebec swine and its association with severe porcine circovirus associated disease -- 2004-2006
    Article Snippet: The master mix was prepared in 50 μL final volume using 2.5 U Amplitaq Gold DNA polymerase (Applied Biosystems, Mississauga, Ontario), 1X PCR buffer II, 2 mM MgCl2 (Applied Biosystems), 0.2 mM of each dNTP (Applied Biosystems) and 0.1 mM primers (Guelph Molecular Supercentre, Laboratory Services Division, University of Guelph, Guelph, Ontario). .. The PCR product was run on a 1.5% agarose gel (Canadian Life Technologies, Burlington, Ontario), stained with ethidium bromide, and the bands measured.

    Article Title: Establishment of Murine Cytomegalovirus Latency In Vivo Is Associated with Changes in Histone Modifications and Recruitment of Transcriptional Repressors to the Major Immediate-Early Promoter ▿
    Article Snippet: Semiquantitative PCR amplification of the MCMV MIEP segment was performed in the presence of 400 nM of each primer (Table ), 0.2 mM each of dATP, dCTP, dGTP, and dTTP, 1× PCR buffer, 1.5 mM MgCl2 , 1 unit of AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, CA), and 2 units of Perfect Match PCR enhancer (Stratagene). .. The amplified DNAs were analyzed by 1.2% agarose gel electrophoresis; images were acquired using a Lambda Gel photo system.

    Article Title: Tumor suppressive BTB/POZ zinc-finger protein ZBTB28 inhibits oncogenic BCL6/ZBTB27 signaling to maintain p53 transcription in multiple carcinogenesis
    Article Snippet: AmpliTaq® -Gold DNA Polymerase (Applied Biosystems) was used for MSP, with 40 reaction cycles. .. PCR products were separated on a 2% agarose gel and photographed on a gel imaging system (Bio-RAD Gel Doc XR+, CA).

    Article Title: TZAP Mutation Leads to Poor Prognosis of Patients with Breast Cancer †
    Article Snippet: PCR was performed using AmpliTaq Gold DNA polymerase (Applied Biosystems; Thermo Fisher Scientific, Waltham, MA, USA). .. Thermocycling conditions were 40 cycles at 94 °C for 30 s, 55–57 °C for 30 s, and 72 °C for 60 s. The PCR products were separated electrophoretically on a 1.5% agarose gel and stained with ethidium bromide for 20 min to confirm the size of the bands.

    Article Title: Novel TNXB Variants in Two Italian Patients with Classical-Like Ehlers-Danlos Syndrome
    Article Snippet: The 4987 bp PCR product was checked on ethidium bromide (EtBr) stained 1% agarose gel and then used as template for seven nested PCR amplifications with the primers listed in . .. Reactions were performed in a 25 uL volume reaction containing 2.5 uL Buffer (10 ×), dNTP (0,25 mM final concentration), primers (10 pmol each), 1.25 U AmpliTaq Gold DNA Polymerase (Thermo Fisher Scientific, Waltham, MA, USA).

    Laser Capture Microdissection:

    Article Title: Mutations of RAS genes in endometrial polyps
    Article Snippet: Paragraph title: Laser-capture microdissection and RAS-targeted sequencing ... The NRAS exon 2 was amplified from the extracted DNA by Applied Biosystems AmpliTaq Gold DNA polymerase (Thermo Fisher Scientific, Inc., Waltham, MA, USA) with the NRAS exon2 primer ( ).

    Spectrophotometry:

    Article Title: The influence of FKBP5 genotype on expression of FKBP5 and other glucocorticoid-regulated genes, dependent on trauma exposure
    Article Snippet: DNA quality and quantity was assessed using a NanoDrop 2000 Spectrophotometer (Thermo Scientific, Waltham, MA, USA). .. PCR amplification with primers ( ) for FKBP5 was performed using AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, USA), 1 μl of forward and reverse primer (5 μM each), 2 μl of H2 ).

    Article Title: Influence of Antibiotic Selection on Genetic Composition of Escherichia coli Populations from Conventional and Organic Dairy Farms ▿ Populations from Conventional and Organic Dairy Farms ▿ †
    Article Snippet: DNA preparations were quantified with a NanoDrop ND-1000 UV-visible spectrophotometer (NanoDrop Technologies, Wilmington, DE), diluted to a final concentration of 100 ng/μl, and stored at 4°C. .. Genomic DNA preparations were tested using primers targeting a 650-bp region of the conserved housekeeping gene mdh (see for primer sequences and reaction conditions), and AmpliTaq Gold DNA polymerase (Applied Biosystems).

    Produced:

    Article Title: Influence of Antibiotic Selection on Genetic Composition of Escherichia coli Populations from Conventional and Organic Dairy Farms ▿ Populations from Conventional and Organic Dairy Farms ▿ †
    Article Snippet: Genomic DNA preparations were tested using primers targeting a 650-bp region of the conserved housekeeping gene mdh (see for primer sequences and reaction conditions), and AmpliTaq Gold DNA polymerase (Applied Biosystems). .. This protocol has produced a positive amplicon in strains representing the genotypic diversity of the species as well as E. coli 's most recent common ancestor, Escherichia albertii .

    Immunoprecipitation:

    Article Title: Establishment of Murine Cytomegalovirus Latency In Vivo Is Associated with Changes in Histone Modifications and Recruitment of Transcriptional Repressors to the Major Immediate-Early Promoter ▿
    Article Snippet: Generally, one-third of the immunoprecipitated DNA was used for semiquantitative and/or real-time PCR amplification. .. Semiquantitative PCR amplification of the MCMV MIEP segment was performed in the presence of 400 nM of each primer (Table ), 0.2 mM each of dATP, dCTP, dGTP, and dTTP, 1× PCR buffer, 1.5 mM MgCl2 , 1 unit of AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, CA), and 2 units of Perfect Match PCR enhancer (Stratagene).

    Staining:

    Article Title: DNA Repair Gene Polymorphisms May Be Associated with Prognosis of Upper Urinary Tract Transitional Cell Carcinoma 1
    Article Snippet: Briefly, the DNA fragments were amplified from 10 ng of DNA in 10 µl of PCR reactions containing 1.5 mM MgCl2 , 0.2 mM each deoxyribonucleotide triphosphate, 0.3 U of AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, CA), and 0.3 µM each primer. .. The digested PCR products were electrophoresed on 2% agarose gels and were stained with ethidium bromide for visualization under ultraviolet light.

    Article Title: The emergence of a new strain of porcine circovirus-2 in Ontario and Quebec swine and its association with severe porcine circovirus associated disease -- 2004-2006
    Article Snippet: The master mix was prepared in 50 μL final volume using 2.5 U Amplitaq Gold DNA polymerase (Applied Biosystems, Mississauga, Ontario), 1X PCR buffer II, 2 mM MgCl2 (Applied Biosystems), 0.2 mM of each dNTP (Applied Biosystems) and 0.1 mM primers (Guelph Molecular Supercentre, Laboratory Services Division, University of Guelph, Guelph, Ontario). .. The PCR product was run on a 1.5% agarose gel (Canadian Life Technologies, Burlington, Ontario), stained with ethidium bromide, and the bands measured.

    Article Title: Mutations of RAS genes in endometrial polyps
    Article Snippet: After deparaffinization with xylene, the tissue sections were stained with hematoxylin and eosin, and the glandular and stromal lesions were dissected by a PALM-IV system (Carl Zeiss Microscopy, Oberkochen, Germany). .. The NRAS exon 2 was amplified from the extracted DNA by Applied Biosystems AmpliTaq Gold DNA polymerase (Thermo Fisher Scientific, Inc., Waltham, MA, USA) with the NRAS exon2 primer ( ).

    Article Title: TZAP Mutation Leads to Poor Prognosis of Patients with Breast Cancer †
    Article Snippet: PCR was performed using AmpliTaq Gold DNA polymerase (Applied Biosystems; Thermo Fisher Scientific, Waltham, MA, USA). .. Thermocycling conditions were 40 cycles at 94 °C for 30 s, 55–57 °C for 30 s, and 72 °C for 60 s. The PCR products were separated electrophoretically on a 1.5% agarose gel and stained with ethidium bromide for 20 min to confirm the size of the bands.

    Article Title: Novel TNXB Variants in Two Italian Patients with Classical-Like Ehlers-Danlos Syndrome
    Article Snippet: The 4987 bp PCR product was checked on ethidium bromide (EtBr) stained 1% agarose gel and then used as template for seven nested PCR amplifications with the primers listed in . .. Reactions were performed in a 25 uL volume reaction containing 2.5 uL Buffer (10 ×), dNTP (0,25 mM final concentration), primers (10 pmol each), 1.25 U AmpliTaq Gold DNA Polymerase (Thermo Fisher Scientific, Waltham, MA, USA).

    Variant Assay:

    Article Title: DNA Repair Gene Polymorphisms May Be Associated with Prognosis of Upper Urinary Tract Transitional Cell Carcinoma 1
    Article Snippet: Briefly, the DNA fragments were amplified from 10 ng of DNA in 10 µl of PCR reactions containing 1.5 mM MgCl2 , 0.2 mM each deoxyribonucleotide triphosphate, 0.3 U of AmpliTaq Gold DNA polymerase (Applied Biosystems, Foster City, CA), and 0.3 µM each primer. .. The PCR products were digested with the appropriate restriction endonucleases that recognized and cut either wild-type or variant sequences at 37°C for at least 3 hours.

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  • 90
    Thermo Fisher amplitaq gold 360 master mix
    Impact evaluation of Master Mix used in singleplex PCR. In graph: Elizyme = 2X EliZyme HS Robust MIX (Elisabeth Pharmacon, Czech Republic); Accustart II = AccuStart II PCR ToughMix (QuantaBio, Massachusetts, USA); <t>Amplitaq</t> = AmpliTaq <t>Gold</t> 360 Master Mix (Thermo Fisher Scientific, Massachusetts, USA); OneTaq = OneTaq Hot Start 2X Master Mix with GC Buffer (New England BioLabs, Massachusetts, USA); Platinum = Platinum Hot Start PCR 2X Master Mix (Invitrogen, California, USA); HotStarTaq = HotStarTaq DNA Polymerase (Qiagen, Germany). YE = Y . enterocolitica; TG = T . gondii ; plus sign in legend = positive sample; minus sign = NTC.
    Amplitaq Gold 360 Master Mix, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 90/100, based on 247 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/amplitaq gold 360 master mix/product/Thermo Fisher
    Average 90 stars, based on 247 article reviews
    Price from $9.99 to $1999.99
    amplitaq gold 360 master mix - by Bioz Stars, 2020-02
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    82
    Thermo Fisher an amplitaq gold master mix
    Impact evaluation of Master Mix used in singleplex PCR. In graph: Elizyme = 2X EliZyme HS Robust MIX (Elisabeth Pharmacon, Czech Republic); Accustart II = AccuStart II PCR ToughMix (QuantaBio, Massachusetts, USA); <t>Amplitaq</t> = AmpliTaq <t>Gold</t> 360 Master Mix (Thermo Fisher Scientific, Massachusetts, USA); OneTaq = OneTaq Hot Start 2X Master Mix with GC Buffer (New England BioLabs, Massachusetts, USA); Platinum = Platinum Hot Start PCR 2X Master Mix (Invitrogen, California, USA); HotStarTaq = HotStarTaq DNA Polymerase (Qiagen, Germany). YE = Y . enterocolitica; TG = T . gondii ; plus sign in legend = positive sample; minus sign = NTC.
    An Amplitaq Gold Master Mix, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 82/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/an amplitaq gold master mix/product/Thermo Fisher
    Average 82 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    an amplitaq gold master mix - by Bioz Stars, 2020-02
    82/100 stars
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    99
    Thermo Fisher amplitaq gold dna polymerase
    Impact evaluation of Master Mix used in singleplex PCR. In graph: Elizyme = 2X EliZyme HS Robust MIX (Elisabeth Pharmacon, Czech Republic); Accustart II = AccuStart II PCR ToughMix (QuantaBio, Massachusetts, USA); <t>Amplitaq</t> = AmpliTaq <t>Gold</t> 360 Master Mix (Thermo Fisher Scientific, Massachusetts, USA); OneTaq = OneTaq Hot Start 2X Master Mix with GC Buffer (New England BioLabs, Massachusetts, USA); Platinum = Platinum Hot Start PCR 2X Master Mix (Invitrogen, California, USA); HotStarTaq = HotStarTaq DNA Polymerase (Qiagen, Germany). YE = Y . enterocolitica; TG = T . gondii ; plus sign in legend = positive sample; minus sign = NTC.
    Amplitaq Gold Dna Polymerase, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 1609 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/amplitaq gold dna polymerase/product/Thermo Fisher
    Average 99 stars, based on 1609 article reviews
    Price from $9.99 to $1999.99
    amplitaq gold dna polymerase - by Bioz Stars, 2020-02
    99/100 stars
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    Impact evaluation of Master Mix used in singleplex PCR. In graph: Elizyme = 2X EliZyme HS Robust MIX (Elisabeth Pharmacon, Czech Republic); Accustart II = AccuStart II PCR ToughMix (QuantaBio, Massachusetts, USA); Amplitaq = AmpliTaq Gold 360 Master Mix (Thermo Fisher Scientific, Massachusetts, USA); OneTaq = OneTaq Hot Start 2X Master Mix with GC Buffer (New England BioLabs, Massachusetts, USA); Platinum = Platinum Hot Start PCR 2X Master Mix (Invitrogen, California, USA); HotStarTaq = HotStarTaq DNA Polymerase (Qiagen, Germany). YE = Y . enterocolitica; TG = T . gondii ; plus sign in legend = positive sample; minus sign = NTC.

    Journal: Scientific Reports

    Article Title: A novel perspective on MOL-PCR optimization and MAGPIX analysis of in-house multiplex foodborne pathogens detection assay

    doi: 10.1038/s41598-019-40035-5

    Figure Lengend Snippet: Impact evaluation of Master Mix used in singleplex PCR. In graph: Elizyme = 2X EliZyme HS Robust MIX (Elisabeth Pharmacon, Czech Republic); Accustart II = AccuStart II PCR ToughMix (QuantaBio, Massachusetts, USA); Amplitaq = AmpliTaq Gold 360 Master Mix (Thermo Fisher Scientific, Massachusetts, USA); OneTaq = OneTaq Hot Start 2X Master Mix with GC Buffer (New England BioLabs, Massachusetts, USA); Platinum = Platinum Hot Start PCR 2X Master Mix (Invitrogen, California, USA); HotStarTaq = HotStarTaq DNA Polymerase (Qiagen, Germany). YE = Y . enterocolitica; TG = T . gondii ; plus sign in legend = positive sample; minus sign = NTC.

    Article Snippet: In order to find a balance, the performance of six different master mixes was tested (Fig. ), including the previously utilized HotStarTaq DNA Polymerase – and the upgraded AmpliTaq Gold 360 Master Mix , .

    Techniques: Polymerase Chain Reaction, Hot Start PCR