qrt pcr validation custom primer probe sequences  (Integrated DNA Technologies)


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    Name:
    DNA oligo
    Description:
    Single stranded pooled or duplexed DNA synthesized to customer specifications Sspecialized platforms with industry leading synthesis capabilities deliver the purest primers for PCR dual labelled probes for qPCR indexed adapters and fusion primers for sequencing and a variety of advanced and custom products
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    do-577595
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    Nucleic acids
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    Structured Review

    Integrated DNA Technologies qrt pcr validation custom primer probe sequences
    Differential splicing of Il-33 . ( A ) Gene structure (top left) and the skipped exon event at the 3′ end of Il-33 (bottom left). The gene-level TPM values and the corresponding read counts supporting exon inclusion and exclusion are shown on the right. ( B ) Expression values obtained by <t>qRT-PCR.</t> The expression values are 2 ΔCt normalized to the housekeeping gene Gusb. All the error bars indicate the 95% confidence intervals.
    Single stranded pooled or duplexed DNA synthesized to customer specifications Sspecialized platforms with industry leading synthesis capabilities deliver the purest primers for PCR dual labelled probes for qPCR indexed adapters and fusion primers for sequencing and a variety of advanced and custom products
    https://www.bioz.com/result/qrt pcr validation custom primer probe sequences/product/Integrated DNA Technologies
    Average 92 stars, based on 2289 article reviews
    Price from $9.99 to $1999.99
    qrt pcr validation custom primer probe sequences - by Bioz Stars, 2020-09
    92/100 stars

    Images

    1) Product Images from "Computational identification and validation of alternative splicing in ZSF1 rat RNA-seq data, a preclinical model for type 2 diabetic nephropathy"

    Article Title: Computational identification and validation of alternative splicing in ZSF1 rat RNA-seq data, a preclinical model for type 2 diabetic nephropathy

    Journal: Scientific Reports

    doi: 10.1038/s41598-018-26035-x

    Differential splicing of Il-33 . ( A ) Gene structure (top left) and the skipped exon event at the 3′ end of Il-33 (bottom left). The gene-level TPM values and the corresponding read counts supporting exon inclusion and exclusion are shown on the right. ( B ) Expression values obtained by qRT-PCR. The expression values are 2 ΔCt normalized to the housekeeping gene Gusb. All the error bars indicate the 95% confidence intervals.
    Figure Legend Snippet: Differential splicing of Il-33 . ( A ) Gene structure (top left) and the skipped exon event at the 3′ end of Il-33 (bottom left). The gene-level TPM values and the corresponding read counts supporting exon inclusion and exclusion are shown on the right. ( B ) Expression values obtained by qRT-PCR. The expression values are 2 ΔCt normalized to the housekeeping gene Gusb. All the error bars indicate the 95% confidence intervals.

    Techniques Used: Expressing, Quantitative RT-PCR

    2) Product Images from "Cyclic oligoadenylate signalling mediates Mycobacterium tuberculosis CRISPR defence"

    Article Title: Cyclic oligoadenylate signalling mediates Mycobacterium tuberculosis CRISPR defence

    Journal: bioRxiv

    doi: 10.1101/667758

    The CRISPR system of M. tuberculosis A. The CRISPR locus of M. tuberculosis includes genes encoding Cas6 (crRNA processing), Csm1-5 (type III-A interference complex), Csm6 (ancillary ribonuclease), Cas1 and Cas2 (Adaptation). Cas6 cleaves the CRISPR RNA at the base of a short hairpin to generate mature crRNA that is bound by the Csm complex. On target RNA binding, the Csm complex is expected to display three enzymatic activities: target RNA cleavage ( 1 ), DNA cleavage by the HD domain ( 2 ) and cOA production by the cyclase domain ( 3 ). B. Purified, recombinant CRISPR-associated proteins of M. tuberculosis . M: PageRuler Unstained (Thermo Scientific); 1: Csm1-5 interference complex; 2: Csm1-5, Csm1 D630A, D631A (Cy variant); 3: Csm1-5, Csm3 D35A (C3 variant); 4: Csm6; 5: Cas6.
    Figure Legend Snippet: The CRISPR system of M. tuberculosis A. The CRISPR locus of M. tuberculosis includes genes encoding Cas6 (crRNA processing), Csm1-5 (type III-A interference complex), Csm6 (ancillary ribonuclease), Cas1 and Cas2 (Adaptation). Cas6 cleaves the CRISPR RNA at the base of a short hairpin to generate mature crRNA that is bound by the Csm complex. On target RNA binding, the Csm complex is expected to display three enzymatic activities: target RNA cleavage ( 1 ), DNA cleavage by the HD domain ( 2 ) and cOA production by the cyclase domain ( 3 ). B. Purified, recombinant CRISPR-associated proteins of M. tuberculosis . M: PageRuler Unstained (Thermo Scientific); 1: Csm1-5 interference complex; 2: Csm1-5, Csm1 D630A, D631A (Cy variant); 3: Csm1-5, Csm3 D35A (C3 variant); 4: Csm6; 5: Cas6.

    Techniques Used: CRISPR, RNA Binding Assay, Purification, Recombinant, Variant Assay

    3) Product Images from "Regulation of the aceI multidrug efflux pump gene in Acinetobacter baumannii"

    Article Title: Regulation of the aceI multidrug efflux pump gene in Acinetobacter baumannii

    Journal: Journal of Antimicrobial Chemotherapy

    doi: 10.1093/jac/dky034

    Identification of the AceR-binding site by a DNase I footprinting assay. (a) RNA-Seq transcriptomic data showing the transcription start site for the aceI transcript. X -axis shows the nucleotide sequence of aceI and its putative promoter (−10 and −35 boxes are indicated). Y -axis displays the relative sequence coverage from RNA-Seq data, showing that the aceI transcript starts 11 bp from the −10 box of the promoter. (b) DNase I footprinting with purified AceR. A DNA fragment (122 bp) of the intergenic region between aceI and aceR was PCR amplified and labelled with 5′-labelled 6-FAM. DNase I digestion reactions were prepared and analysed by capillary electrophoresis in an ABI 3730XL sequencer as described in the Materials and methods section. Three electropherograms show the reactions with the following increasing concentrations of AceR: 0, 4 and 8 μM. Electropherograms consist of overlapped blue and red nucleotide peaks, which correspond to experiments performed with DNA labelled on the aceI and aceR ends of the fragment, respectively. Protected regions are associated with decreasing peak intensity as AceR concentration increases.
    Figure Legend Snippet: Identification of the AceR-binding site by a DNase I footprinting assay. (a) RNA-Seq transcriptomic data showing the transcription start site for the aceI transcript. X -axis shows the nucleotide sequence of aceI and its putative promoter (−10 and −35 boxes are indicated). Y -axis displays the relative sequence coverage from RNA-Seq data, showing that the aceI transcript starts 11 bp from the −10 box of the promoter. (b) DNase I footprinting with purified AceR. A DNA fragment (122 bp) of the intergenic region between aceI and aceR was PCR amplified and labelled with 5′-labelled 6-FAM. DNase I digestion reactions were prepared and analysed by capillary electrophoresis in an ABI 3730XL sequencer as described in the Materials and methods section. Three electropherograms show the reactions with the following increasing concentrations of AceR: 0, 4 and 8 μM. Electropherograms consist of overlapped blue and red nucleotide peaks, which correspond to experiments performed with DNA labelled on the aceI and aceR ends of the fragment, respectively. Protected regions are associated with decreasing peak intensity as AceR concentration increases.

    Techniques Used: Binding Assay, Footprinting, RNA Sequencing Assay, Sequencing, Purification, Polymerase Chain Reaction, Amplification, Electrophoresis, Concentration Assay

    4) Product Images from "Bi-specific splice-switching PMO oligonucleotides conjugated via a single peptide active in a mouse model of Duchenne muscular dystrophy"

    Article Title: Bi-specific splice-switching PMO oligonucleotides conjugated via a single peptide active in a mouse model of Duchenne muscular dystrophy

    Journal: Nucleic Acids Research

    doi: 10.1093/nar/gku1256

    Splice-switching activities of bi-specific (D2, D3) and a 1:1 molar cocktail of singly conjugated Pip6a-PMOs following intramuscular injection ( n = 3) into the tibialis anterior muscle of mdx mice. ( A ) RT-PCR analysis of Dmd exon 23 and Acvr2b exon 5 removal from the mature transcripts. ( B) Quantitative PCR analysis of Dmd exon 23 and Acvr2b exon 5 skipping activity. Error bars = S.E.M.
    Figure Legend Snippet: Splice-switching activities of bi-specific (D2, D3) and a 1:1 molar cocktail of singly conjugated Pip6a-PMOs following intramuscular injection ( n = 3) into the tibialis anterior muscle of mdx mice. ( A ) RT-PCR analysis of Dmd exon 23 and Acvr2b exon 5 removal from the mature transcripts. ( B) Quantitative PCR analysis of Dmd exon 23 and Acvr2b exon 5 skipping activity. Error bars = S.E.M.

    Techniques Used: Injection, Mouse Assay, Reverse Transcription Polymerase Chain Reaction, Real-time Polymerase Chain Reaction, Activity Assay

    5) Product Images from "DNA capture-probe based separation of double-stranded polymerase chain reaction amplification products in poly(dimethylsiloxane) microfluidic channels"

    Article Title: DNA capture-probe based separation of double-stranded polymerase chain reaction amplification products in poly(dimethylsiloxane) microfluidic channels

    Journal: Biomicrofluidics

    doi: 10.1063/1.4729131

    (a) fluorescent image (left) and fluorescent intensity distribution (right, the distance from the Y-junction to the cross-section is around 500 μm), respectively, of the hybridization of AMEL-CP and CSF1PO-CP immobilized onto the upper and lower inlet microchannels, with ss-tailed AMEL and CSF1PO amplification products labelled with Cy5 and FAM dyes, respectively. (b) fluorescent image (left) and fluorescent intensity distribution (right), respectively, of the hybridization of AMEL-CP and CSF1PO-CP immobilized onto the upper and lower inlet microchannels with AMEL and CSF1PO amplification products labelled with FAM and Cy5 dyes, respectively. Arrows indicate the direction at which the fluorescent signal intensity distribution was measured across.
    Figure Legend Snippet: (a) fluorescent image (left) and fluorescent intensity distribution (right, the distance from the Y-junction to the cross-section is around 500 μm), respectively, of the hybridization of AMEL-CP and CSF1PO-CP immobilized onto the upper and lower inlet microchannels, with ss-tailed AMEL and CSF1PO amplification products labelled with Cy5 and FAM dyes, respectively. (b) fluorescent image (left) and fluorescent intensity distribution (right), respectively, of the hybridization of AMEL-CP and CSF1PO-CP immobilized onto the upper and lower inlet microchannels with AMEL and CSF1PO amplification products labelled with FAM and Cy5 dyes, respectively. Arrows indicate the direction at which the fluorescent signal intensity distribution was measured across.

    Techniques Used: Hybridization, Amplification

    (a1)-(a3) and (b1-b3) refer to the upper and lower microchannels, respectively, within a single microfluidic devices were (a1)–(a3) show the fluorescent images (left) and fluorescent intensity distributions (the distance from the Y-junction to the cross-section is around 500 μm) across the channels (right) of AMEL-CP immobilized onto the upper inlet microchannel, after hybridization (a1) with complementary ss-tailed AMEL amplification products labelled with Cy5 dye, after denaturation (a2) and after rehybridization with the same amplification product. (a3). (b1)–(b3) show the fluorescent images and fluorescent intensity distributions across the channels (right) of CSF1PO-CP immobilized onto the lower inlet microchannel, after hybridization with complementary ss-tailed CSF1PO amplification products labelled with Cy5 dye (b1), after denaturation (b2) and hybridization with non-complementary ss-tailed AMEL amplification products labelled with Cy5 dye (b3). Arrows indicate the direction at which the fluorescent signal intensity distribution was measured across.
    Figure Legend Snippet: (a1)-(a3) and (b1-b3) refer to the upper and lower microchannels, respectively, within a single microfluidic devices were (a1)–(a3) show the fluorescent images (left) and fluorescent intensity distributions (the distance from the Y-junction to the cross-section is around 500 μm) across the channels (right) of AMEL-CP immobilized onto the upper inlet microchannel, after hybridization (a1) with complementary ss-tailed AMEL amplification products labelled with Cy5 dye, after denaturation (a2) and after rehybridization with the same amplification product. (a3). (b1)–(b3) show the fluorescent images and fluorescent intensity distributions across the channels (right) of CSF1PO-CP immobilized onto the lower inlet microchannel, after hybridization with complementary ss-tailed CSF1PO amplification products labelled with Cy5 dye (b1), after denaturation (b2) and hybridization with non-complementary ss-tailed AMEL amplification products labelled with Cy5 dye (b3). Arrows indicate the direction at which the fluorescent signal intensity distribution was measured across.

    Techniques Used: Hybridization, Amplification

    6) Product Images from "Regulation of the aceI multidrug efflux pump gene in Acinetobacter baumannii"

    Article Title: Regulation of the aceI multidrug efflux pump gene in Acinetobacter baumannii

    Journal: Journal of Antimicrobial Chemotherapy

    doi: 10.1093/jac/dky034

    Identification of the AceR-binding site by a DNase I footprinting assay. (a) RNA-Seq transcriptomic data showing the transcription start site for the aceI transcript. X -axis shows the nucleotide sequence of aceI and its putative promoter (−10 and −35 boxes are indicated). Y -axis displays the relative sequence coverage from RNA-Seq data, showing that the aceI transcript starts 11 bp from the −10 box of the promoter. (b) DNase I footprinting with purified AceR. A DNA fragment (122 bp) of the intergenic region between aceI and aceR was PCR amplified and labelled with 5′-labelled 6-FAM. DNase I digestion reactions were prepared and analysed by capillary electrophoresis in an ABI 3730XL sequencer as described in the Materials and methods section. Three electropherograms show the reactions with the following increasing concentrations of AceR: 0, 4 and 8 μM. Electropherograms consist of overlapped blue and red nucleotide peaks, which correspond to experiments performed with DNA labelled on the aceI and aceR ends of the fragment, respectively. Protected regions are associated with decreasing peak intensity as AceR concentration increases.
    Figure Legend Snippet: Identification of the AceR-binding site by a DNase I footprinting assay. (a) RNA-Seq transcriptomic data showing the transcription start site for the aceI transcript. X -axis shows the nucleotide sequence of aceI and its putative promoter (−10 and −35 boxes are indicated). Y -axis displays the relative sequence coverage from RNA-Seq data, showing that the aceI transcript starts 11 bp from the −10 box of the promoter. (b) DNase I footprinting with purified AceR. A DNA fragment (122 bp) of the intergenic region between aceI and aceR was PCR amplified and labelled with 5′-labelled 6-FAM. DNase I digestion reactions were prepared and analysed by capillary electrophoresis in an ABI 3730XL sequencer as described in the Materials and methods section. Three electropherograms show the reactions with the following increasing concentrations of AceR: 0, 4 and 8 μM. Electropherograms consist of overlapped blue and red nucleotide peaks, which correspond to experiments performed with DNA labelled on the aceI and aceR ends of the fragment, respectively. Protected regions are associated with decreasing peak intensity as AceR concentration increases.

    Techniques Used: Binding Assay, Footprinting, RNA Sequencing Assay, Sequencing, Purification, Polymerase Chain Reaction, Amplification, Electrophoresis, Concentration Assay

    Related Articles

    High Performance Liquid Chromatography:

    Article Title: Mechanism of HIV-1 RNA Dimerization in the Central Region of the Genome and Significance for Viral Evolution *
    Article Snippet: .. DNA oligonucleotides and the HPLC-purified RNA strand used for CD spectra analyses were purchased from Integrated DNA Technologies, Inc. (Coralville, IA). ..

    Multiplex Assay:

    Article Title: A Lysate Proteome Engineering Strategy for Enhancing Cell-Free Metabolite Production
    Article Snippet: .. 2.1 Generation and Validation of Genome Engineered Strains using MAGE All multiplex allele-specific PCR (MASC-PCR), Sanger Sequencing oligos, and recombineering oligos were created manually and ordered from IDT (Coralville, IA) with standard purification. ..

    IA:

    Article Title: Mechanism of HIV-1 RNA Dimerization in the Central Region of the Genome and Significance for Viral Evolution *
    Article Snippet: .. DNA oligonucleotides and the HPLC-purified RNA strand used for CD spectra analyses were purchased from Integrated DNA Technologies, Inc. (Coralville, IA). ..

    Article Title: Solid-phase enzyme catalysis of DNA end repair and 3′ A-tailing reduces GC-bias in next-generation sequencing of human genomic DNA
    Article Snippet: .. DNA oligos were synthesized by Integrated DNA Technologies (Coralville, IA) and dissolved in nuclease-free water prior to use (Supplementary Table ). ..

    Article Title: RNA Polymerase II Trigger Loop Mobility
    Article Snippet: .. RNA and DNA oligomers were purchased from Integrated DNA Technologies (Coralville, IA). .. RNA oligonucleotides (16.7 pmol) were labeled with [γ-32 P]ATP (16.7 pmol) (3000 Ci/mmol, PerkinElmer Life Sciences catalog no. BLU002A) using T4 polynucleotide kinase (Promega catalog no. M4101) in transcription buffer TB(40) (20 m m Tris-HCl (pH 7.9), 40 m m KCl, 5 m m MgCl2 , 2 m m 2-mercaptoethanol).

    Synthesized:

    Article Title: Solid-phase enzyme catalysis of DNA end repair and 3′ A-tailing reduces GC-bias in next-generation sequencing of human genomic DNA
    Article Snippet: .. DNA oligos were synthesized by Integrated DNA Technologies (Coralville, IA) and dissolved in nuclease-free water prior to use (Supplementary Table ). ..

    Purification:

    Article Title: A Lysate Proteome Engineering Strategy for Enhancing Cell-Free Metabolite Production
    Article Snippet: .. 2.1 Generation and Validation of Genome Engineered Strains using MAGE All multiplex allele-specific PCR (MASC-PCR), Sanger Sequencing oligos, and recombineering oligos were created manually and ordered from IDT (Coralville, IA) with standard purification. ..

    Polymerase Chain Reaction:

    Article Title: A Lysate Proteome Engineering Strategy for Enhancing Cell-Free Metabolite Production
    Article Snippet: .. 2.1 Generation and Validation of Genome Engineered Strains using MAGE All multiplex allele-specific PCR (MASC-PCR), Sanger Sequencing oligos, and recombineering oligos were created manually and ordered from IDT (Coralville, IA) with standard purification. ..

    other:

    Article Title: Incorporation of bridged nucleic acids into CRISPR RNAs improves Cas9 endonuclease specificity
    Article Snippet: DNA oligonucleotides and tracrRNA were purchased from Integrated DNA Technologies (IDT).

    Article Title: CRISPR-Cas12a exploits R-loop asymmetry to form double-strand breaks
    Article Snippet: Additional files Sequences of plasmids, DNA oligonucleotides, and RNA oligonucleotides used in this work.

    Article Title: RanDeL-seq: A high-throughput method to map viral cis- and trans-acting elements
    Article Snippet: DNA oligonucleotides and synthetic dsDNA were obtained from Integrated DNA Technologies (Coralville, IA, USA).

    Sequencing:

    Article Title: A Lysate Proteome Engineering Strategy for Enhancing Cell-Free Metabolite Production
    Article Snippet: .. 2.1 Generation and Validation of Genome Engineered Strains using MAGE All multiplex allele-specific PCR (MASC-PCR), Sanger Sequencing oligos, and recombineering oligos were created manually and ordered from IDT (Coralville, IA) with standard purification. ..

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