Structured Review

Microsynth primer sequences
Primer Sequences, supplied by Microsynth, used in various techniques. Bioz Stars score: 92/100, based on 14 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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Average 92 stars, based on 14 article reviews
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primer sequences - by Bioz Stars, 2020-07
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Article Title: The somatostatinergic system in the mammalian cochlea
Article Snippet: The primer sequences were: SST1-forward, 5'-CAGGTTTAAAGAACTGGCAAGC-3', SST1-reverse 5'-ATTAATAAGCGGCACCATCG-3', SST2-forward5'-TCTTTGCTTGGTCAAGGTGA-3', SST2-reverse 5'-TCCTGCTTACTGTCGCTCCT -3' (Microsynth, St. Gallen, Switzerland).

Article Title: All Akt Isoforms (Akt1, Akt2, Akt3) Are Involved in Normal Hearing, but Only Akt2 and Akt3 Are Involved in Auditory Hair Cell Survival in the Mammalian Inner Ear
Article Snippet: The primer sequences were: Akt1 forward, 5′-tcgtgtggcaggatgtgtat-3′, Akt1 reverse 5′-acctggtgtcagtctcagagg-3′, Akt2 forward 5′-cagctgggagacccaaga-3′, Akt2 reverse 5′-cacacgctgtcacctagctt-3′, Akt3 forward, 5′-tggaccactgttatagagagaacattt-3′, Akt3 reverse 5′-tggatagcttccgtccactc-3′, (Microsynth, St. Gallen, Switzerland).

Article Title: Inhibition of MMP-2 but not MMP-9 Influences Inner Ear Spiral Ganglion Neurons In Vitro
Article Snippet: The primer sequences were MMP-9 reverse 5′-GGTCAGGTT-TAGAGCCACGA-3′ (Microsynth, St. Gallen, Switzerland).

Article Title: Imatinib reduces non-alcoholic fatty liver disease in obese mice by targeting inflammatory and lipogenic pathways in macrophages and liver
Article Snippet: Primer sequences (Microsynth, Balgach, Switzerland) are listed in Supplementary Table .

Article Title: Role of Somatostatin Receptor-2 in Gentamicin-Induced Auditory Hair Cell Loss in the Mammalian Inner Ear
Article Snippet: The primer sequences were as follows: SSTR2-fwd, 5′-TCTTTGCTTGGTCAAGGTGA-3′ ; and SSTR2-rev, 5′-TCCTGCTTACTGTCGCTCCT-3′ (Microsynth, St. Gallen, Switzerland).

Article Title: Polo‐Like Kinase 2 is Dynamically Regulated to Coordinate Proliferation and Early Lineage Specification Downstream of Yes‐Associated Protein 1 in Cardiac Progenitor Cells
Article Snippet: Primer sequences (all from Microsynth) are described in Table .

Article Title: Treprostinil reduces endothelial damage in murine sinusoidal obstruction syndrome
Article Snippet: The specific primer sequences listed in Table were purchased from Microsynth AG (Balgach, Switzerland).

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  • 93
    Microsynth hali
    Multiple sequence alignment of <t>halI</t> gene of H. alvei 059, 068, 071, and Enterobacter sp. 067 (this study) with halI gene of H. alvei (Genbank accession number AF503776). The differences of identity are indicated by gray shading.
    Hali, supplied by Microsynth, used in various techniques. Bioz Stars score: 93/100, based on 3 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    88
    Microsynth aprx
    Multiple sequence alignment of deduced protease <t>AprX</t> from P. fluorescens 041 (this study), P. fluorescens A506 (Genbank accession number AY298902 ), and P. fluorescens strain F (Genbank accession number DQ146945 ). The differences in amino acid residues are indicated by gray shading, and the catalytic domain of neutral zinc metalloprotease is underlined. Boxed residues are thought to participate in Calcium binding.
    Aprx, supplied by Microsynth, used in various techniques. Bioz Stars score: 88/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    92
    Microsynth pcr primer
    (A) Schematic representation of the protocol. Using a low volume liquid handling robot, the patients’ RNA is distributed in 384-well plates containing indexed oligo-dT primers. Barcoded cDNA is generated by reverse transcription and pooled into a single tube. Libraries are produced from <t>SARS-CoV-2-specific</t> amplicons and sequenced. Reads are de-multiplexed based on both a plate and a sample barcode and used for downstream diagnostic analysis. (B) Amplicon primer design. The table contains the sequences of the forward primers used to generate the different amplicons. The reverse primer is common to all amplicons and it anneals to the 3’-end of the barcoded oligo-dT primers used to generate cDNA in the reverse transcription. The primer labels contain the position of the first sequenced base. Insert length was calculated using the start of the poly-A sequence. SARS-CoV-2 NC_045512_2 sequence and GAPDH NM_002046.4 sequence were used as reference. For the theoretical size of the amplicon after <t>PCR</t> 1 the Nextera Tag (34bp), the length of the barcoded Oligo-dT-primer (80bp) and the primer sequence was added.
    Pcr Primer, supplied by Microsynth, used in various techniques. Bioz Stars score: 92/100, based on 0 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    91
    Microsynth pkm ζ
    Posttraining NE infusions into the BLA induce tissue-specific temporal changes in <t>Pkm</t> ζ and <t>Reln</t> expression (qPCR validation). Temporal specificity of NE-induced expression changes in the hippocampus ( A ) and ACC ( B ). Bars represent tissue- and time point-specific fold expression changes of Pkm ζ (tinted color) and Reln (pure color) in NE-treated rats relative to saline-treated rats (log FC). The asterisk below and above the bar represents changes significant upon correcting for multiple comparisons ( t test, * P Bonferroni
    Pkm ζ, supplied by Microsynth, used in various techniques. Bioz Stars score: 91/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Image Search Results


    Multiple sequence alignment of halI gene of H. alvei 059, 068, 071, and Enterobacter sp. 067 (this study) with halI gene of H. alvei (Genbank accession number AF503776). The differences of identity are indicated by gray shading.

    Journal: BioMed Research International

    Article Title: Quorum Sensing and Spoilage Potential of Psychrotrophic Enterobacteriaceae Isolated from Milk

    doi: 10.1155/2018/2723157

    Figure Lengend Snippet: Multiple sequence alignment of halI gene of H. alvei 059, 068, 071, and Enterobacter sp. 067 (this study) with halI gene of H. alvei (Genbank accession number AF503776). The differences of identity are indicated by gray shading.

    Article Snippet: To amplify the AHL synthase gene ( halI ) and the AHL receptor gene halR by PCR, the reaction consisted of 25 mM MgCl2 , 5.0 μ L of 10X buffer Ex Taq , 25 mM deoxynucleotide triphosphates (dNTPs), 25 μ M of each primer, 1 U Ex Taq DNA polymerase, and 40 ng of DNA from H. alvei 068 in a final volume of 50 μ L. Primers based on the sequences of halI and halR genes (GenBank accession number AF503776) of H. alvei were constructed (see ) and synthesized by Microsynth (Zürich, Switzerland).

    Techniques: Sequencing

    Multiple sequence alignment of deduced protease AprX from P. fluorescens 041 (this study), P. fluorescens A506 (Genbank accession number AY298902 ), and P. fluorescens strain F (Genbank accession number DQ146945 ). The differences in amino acid residues are indicated by gray shading, and the catalytic domain of neutral zinc metalloprotease is underlined. Boxed residues are thought to participate in Calcium binding.

    Journal: Brazilian Journal of Microbiology

    Article Title: Milk-deteriorating exoenzymes from Pseudomonas fluorescens041 isolated from refrigerated raw milk

    doi: 10.1590/S1517-838246120130859

    Figure Lengend Snippet: Multiple sequence alignment of deduced protease AprX from P. fluorescens 041 (this study), P. fluorescens A506 (Genbank accession number AY298902 ), and P. fluorescens strain F (Genbank accession number DQ146945 ). The differences in amino acid residues are indicated by gray shading, and the catalytic domain of neutral zinc metalloprotease is underlined. Boxed residues are thought to participate in Calcium binding.

    Article Snippet: Primers based on the sequences of the aprX (GenBank accession numbers DQ146945 , AY298902 , AF216700 , AY973251 ) and lip gene (GenBank accession numbers AF216702 , AY694785 , M86350 , S77830 , D11455 , AB063391 , AY304500 , AY673674 , M74125 , AY700013 ) of other P. fluorescens strains were designed , and synthesized by Microsynth (Zürich, Switzerland).

    Techniques: Sequencing, Binding Assay

    (A) Schematic representation of the protocol. Using a low volume liquid handling robot, the patients’ RNA is distributed in 384-well plates containing indexed oligo-dT primers. Barcoded cDNA is generated by reverse transcription and pooled into a single tube. Libraries are produced from SARS-CoV-2-specific amplicons and sequenced. Reads are de-multiplexed based on both a plate and a sample barcode and used for downstream diagnostic analysis. (B) Amplicon primer design. The table contains the sequences of the forward primers used to generate the different amplicons. The reverse primer is common to all amplicons and it anneals to the 3’-end of the barcoded oligo-dT primers used to generate cDNA in the reverse transcription. The primer labels contain the position of the first sequenced base. Insert length was calculated using the start of the poly-A sequence. SARS-CoV-2 NC_045512_2 sequence and GAPDH NM_002046.4 sequence were used as reference. For the theoretical size of the amplicon after PCR 1 the Nextera Tag (34bp), the length of the barcoded Oligo-dT-primer (80bp) and the primer sequence was added.

    Journal: bioRxiv

    Article Title: HiDRA-seq: High-Throughput SARS-CoV-2 Detection by RNA Barcoding and Amplicon Sequencing

    doi: 10.1101/2020.06.02.130484

    Figure Lengend Snippet: (A) Schematic representation of the protocol. Using a low volume liquid handling robot, the patients’ RNA is distributed in 384-well plates containing indexed oligo-dT primers. Barcoded cDNA is generated by reverse transcription and pooled into a single tube. Libraries are produced from SARS-CoV-2-specific amplicons and sequenced. Reads are de-multiplexed based on both a plate and a sample barcode and used for downstream diagnostic analysis. (B) Amplicon primer design. The table contains the sequences of the forward primers used to generate the different amplicons. The reverse primer is common to all amplicons and it anneals to the 3’-end of the barcoded oligo-dT primers used to generate cDNA in the reverse transcription. The primer labels contain the position of the first sequenced base. Insert length was calculated using the start of the poly-A sequence. SARS-CoV-2 NC_045512_2 sequence and GAPDH NM_002046.4 sequence were used as reference. For the theoretical size of the amplicon after PCR 1 the Nextera Tag (34bp), the length of the barcoded Oligo-dT-primer (80bp) and the primer sequence was added.

    Article Snippet: Briefly, each PCR reaction was assembled by combining 5 ul of the pooled barcoded cDNA with 20 μl of PCR master mix (1.25X KAPA HiFi HotStart ReadyMix [Roche], 0.375 uM of SARS-CoV-2- and GAPDH-specific primers [Microsynth AG] and 0.375 uM of the PCR primer [Microsynth AG]).

    Techniques: Generated, Produced, Diagnostic Assay, Amplification, Sequencing, Polymerase Chain Reaction

    Posttraining NE infusions into the BLA induce tissue-specific temporal changes in Pkm ζ and Reln expression (qPCR validation). Temporal specificity of NE-induced expression changes in the hippocampus ( A ) and ACC ( B ). Bars represent tissue- and time point-specific fold expression changes of Pkm ζ (tinted color) and Reln (pure color) in NE-treated rats relative to saline-treated rats (log FC). The asterisk below and above the bar represents changes significant upon correcting for multiple comparisons ( t test, * P Bonferroni

    Journal: Proceedings of the National Academy of Sciences of the United States of America

    Article Title: Noradrenergic activation of the basolateral amygdala maintains hippocampus-dependent accuracy of remote memory

    doi: 10.1073/pnas.1710819114

    Figure Lengend Snippet: Posttraining NE infusions into the BLA induce tissue-specific temporal changes in Pkm ζ and Reln expression (qPCR validation). Temporal specificity of NE-induced expression changes in the hippocampus ( A ) and ACC ( B ). Bars represent tissue- and time point-specific fold expression changes of Pkm ζ (tinted color) and Reln (pure color) in NE-treated rats relative to saline-treated rats (log FC). The asterisk below and above the bar represents changes significant upon correcting for multiple comparisons ( t test, * P Bonferroni

    Article Snippet: We used the following cycling conditions: 95 °C, 15 min; 50× (95 °C, 30 s; 55 °C, 30 s; 72 °C, 30 s); 72 °C, 10 min. PCR products were purified and sequenced using a PyroMark ID System (Biotage) following the manufacturer’s suggested protocol and sequencing primers: for Pkm ζ, 5′-GGGTTTTGGTTAGTTTTTATT-3′; and for Reln , 5′-ACATACAAAAAAATAACTAACAAC-3′ (Microsynth).

    Techniques: Expressing, Real-time Polymerase Chain Reaction

    Posttraining NE and saline infusions into the BLA induce tissue-specific temporal changes in Reln and Pkm ζ DNA methylation. ( A and B ) NE-specific temporal changes of Reln ( A ) and Pkm ζ ( B ) promoter DNA methylation in the ACC and hippocampus. ( C and D ) Saline-specific temporal changes of Reln ( C ) and Pkm ζ ( D ) promoter DNA methylation in the ACC and hippocampus. Promoter DNA methylation levels were measured with bisulfite pyrosequencing. Analyzed promoter regions were chr4:9,346,306 to 9,346,547 and chr5:172,751,942 to 172,752,163 for Reln and Pkm for Reln and Pkm ζ, respectively). DNA methylation levels were averaged across CpGs in the examined promoter region. Bars represent fold change in treatment- and tissue-specific promoter DNA methylation at 2 and 28 d posttraining, relative to median DNA methylation of the control, calibrator sample (log FC). Horizontal lines mark significant time-specific DNA methylation changes (28 vs. 2 d, t test). Red and green bars relate to Reln and Pkm ζ, respectively. Pure and tinted color relate to the hippocampus and ACC, respectively. n = 3 pooled samples per group. Each pooled sample consisted of tissue punches from 6 to 10 independent animals. All bars are represented as mean ± SEM.

    Journal: Proceedings of the National Academy of Sciences of the United States of America

    Article Title: Noradrenergic activation of the basolateral amygdala maintains hippocampus-dependent accuracy of remote memory

    doi: 10.1073/pnas.1710819114

    Figure Lengend Snippet: Posttraining NE and saline infusions into the BLA induce tissue-specific temporal changes in Reln and Pkm ζ DNA methylation. ( A and B ) NE-specific temporal changes of Reln ( A ) and Pkm ζ ( B ) promoter DNA methylation in the ACC and hippocampus. ( C and D ) Saline-specific temporal changes of Reln ( C ) and Pkm ζ ( D ) promoter DNA methylation in the ACC and hippocampus. Promoter DNA methylation levels were measured with bisulfite pyrosequencing. Analyzed promoter regions were chr4:9,346,306 to 9,346,547 and chr5:172,751,942 to 172,752,163 for Reln and Pkm for Reln and Pkm ζ, respectively). DNA methylation levels were averaged across CpGs in the examined promoter region. Bars represent fold change in treatment- and tissue-specific promoter DNA methylation at 2 and 28 d posttraining, relative to median DNA methylation of the control, calibrator sample (log FC). Horizontal lines mark significant time-specific DNA methylation changes (28 vs. 2 d, t test). Red and green bars relate to Reln and Pkm ζ, respectively. Pure and tinted color relate to the hippocampus and ACC, respectively. n = 3 pooled samples per group. Each pooled sample consisted of tissue punches from 6 to 10 independent animals. All bars are represented as mean ± SEM.

    Article Snippet: We used the following cycling conditions: 95 °C, 15 min; 50× (95 °C, 30 s; 55 °C, 30 s; 72 °C, 30 s); 72 °C, 10 min. PCR products were purified and sequenced using a PyroMark ID System (Biotage) following the manufacturer’s suggested protocol and sequencing primers: for Pkm ζ, 5′-GGGTTTTGGTTAGTTTTTATT-3′; and for Reln , 5′-ACATACAAAAAAATAACTAACAAC-3′ (Microsynth).

    Techniques: DNA Methylation Assay

    Posttraining NE and saline infusions into the BLA induce tissue-specific temporal changes in Reln and Pkm ζ expression. ( A and B ) NE-specific temporal expression changes of Reln ( A ) and Pkm ζ ( B ) in the ACC and hippocampus. ( C and D ) Saline-specific temporal expression changes of Reln ( C ) and Pkm ζ ( D ) in the ACC and hippocampus. Expression levels were based on averaged Affymetrix Rat Gene ST 2.0 data. Bars represent fold change in treatment- and tissue-specific expression at 2 and 28 d posttraining, relative to median array expression (log FC). Horizontal lines mark significant time-specific expression changes (28 vs. 2 d, t test). Red and green bars relate to Reln and Pkm ζ, respectively. Pure and tinted color relate to the hippocampus and ACC, respectively. n = 3 pooled samples per group. Each pooled sample consisted of tissue punches from 6 to 10 independent animals. All bars are represented as mean ± SEM.

    Journal: Proceedings of the National Academy of Sciences of the United States of America

    Article Title: Noradrenergic activation of the basolateral amygdala maintains hippocampus-dependent accuracy of remote memory

    doi: 10.1073/pnas.1710819114

    Figure Lengend Snippet: Posttraining NE and saline infusions into the BLA induce tissue-specific temporal changes in Reln and Pkm ζ expression. ( A and B ) NE-specific temporal expression changes of Reln ( A ) and Pkm ζ ( B ) in the ACC and hippocampus. ( C and D ) Saline-specific temporal expression changes of Reln ( C ) and Pkm ζ ( D ) in the ACC and hippocampus. Expression levels were based on averaged Affymetrix Rat Gene ST 2.0 data. Bars represent fold change in treatment- and tissue-specific expression at 2 and 28 d posttraining, relative to median array expression (log FC). Horizontal lines mark significant time-specific expression changes (28 vs. 2 d, t test). Red and green bars relate to Reln and Pkm ζ, respectively. Pure and tinted color relate to the hippocampus and ACC, respectively. n = 3 pooled samples per group. Each pooled sample consisted of tissue punches from 6 to 10 independent animals. All bars are represented as mean ± SEM.

    Article Snippet: We used the following cycling conditions: 95 °C, 15 min; 50× (95 °C, 30 s; 55 °C, 30 s; 72 °C, 30 s); 72 °C, 10 min. PCR products were purified and sequenced using a PyroMark ID System (Biotage) following the manufacturer’s suggested protocol and sequencing primers: for Pkm ζ, 5′-GGGTTTTGGTTAGTTTTTATT-3′; and for Reln , 5′-ACATACAAAAAAATAACTAACAAC-3′ (Microsynth).

    Techniques: Expressing