qmsp quantitative methylation specific polymerase chain reaction qmsp  (Roche)

 
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    Roche qmsp quantitative methylation specific polymerase chain reaction qmsp
    Comparison of methylation status of PAX1 gene by thiol-labeled AuNPs methods and <t>qMSP.</t> Notes: ( A ) Receiver operating characteristic (ROC) curve analysis by qMSP and ( B and C ) thiol-labeled AuNPs methods. Methylation distribution at various disease stages by histopathology detected by qMSP method. The y-axis is Δ Cp , which represents the <t>DNA</t> methylation level of the PAX1 gene. The dashed line represents the cut-off with a Δ Cp of 10.57. ( D ) Methylated rate distribution at various disease stages detected by thiol-labeled AuNP method. The y-axis is percentage of methylation rate. The dashed line represents the cut-off with a methylated percentage of 31.27% (* P -value
    Qmsp Quantitative Methylation Specific Polymerase Chain Reaction Qmsp, supplied by Roche, used in various techniques. Bioz Stars score: 90/100, based on 26897 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/qmsp quantitative methylation specific polymerase chain reaction qmsp/product/Roche
    Average 90 stars, based on 26897 article reviews
    Price from $9.99 to $1999.99
    qmsp quantitative methylation specific polymerase chain reaction qmsp - by Bioz Stars, 2020-07
    90/100 stars

    Images

    1) Product Images from "Real-time colorimetric detection of DNA methylation of the PAX1 gene in cervical scrapings for cervical cancer screening with thiol-labeled PCR primers and gold nanoparticles"

    Article Title: Real-time colorimetric detection of DNA methylation of the PAX1 gene in cervical scrapings for cervical cancer screening with thiol-labeled PCR primers and gold nanoparticles

    Journal: International Journal of Nanomedicine

    doi: 10.2147/IJN.S116288

    Comparison of methylation status of PAX1 gene by thiol-labeled AuNPs methods and qMSP. Notes: ( A ) Receiver operating characteristic (ROC) curve analysis by qMSP and ( B and C ) thiol-labeled AuNPs methods. Methylation distribution at various disease stages by histopathology detected by qMSP method. The y-axis is Δ Cp , which represents the DNA methylation level of the PAX1 gene. The dashed line represents the cut-off with a Δ Cp of 10.57. ( D ) Methylated rate distribution at various disease stages detected by thiol-labeled AuNP method. The y-axis is percentage of methylation rate. The dashed line represents the cut-off with a methylated percentage of 31.27% (* P -value
    Figure Legend Snippet: Comparison of methylation status of PAX1 gene by thiol-labeled AuNPs methods and qMSP. Notes: ( A ) Receiver operating characteristic (ROC) curve analysis by qMSP and ( B and C ) thiol-labeled AuNPs methods. Methylation distribution at various disease stages by histopathology detected by qMSP method. The y-axis is Δ Cp , which represents the DNA methylation level of the PAX1 gene. The dashed line represents the cut-off with a Δ Cp of 10.57. ( D ) Methylated rate distribution at various disease stages detected by thiol-labeled AuNP method. The y-axis is percentage of methylation rate. The dashed line represents the cut-off with a methylated percentage of 31.27% (* P -value

    Techniques Used: Methylation, Labeling, Histopathology, DNA Methylation Assay

    2) Product Images from "Hypermethylation and decreased expression of TMEM240 are potential early-onset biomarkers for colorectal cancer detection, poor prognosis, and early recurrence prediction"

    Article Title: Hypermethylation and decreased expression of TMEM240 are potential early-onset biomarkers for colorectal cancer detection, poor prognosis, and early recurrence prediction

    Journal: Clinical Epigenetics

    doi: 10.1186/s13148-020-00855-z

    TMEM240 DNA methylation and mRNA analysis from the TCGA dataset. Differentially methylated CpG sites in TMEM240 were identified in a 38 adjacent normal colorectal tissues, 38 matched colorectal carcinoma (CRC) tumors, and b 314 CRC tumors by an Illumina Methylation 450K array-based assay. c RNA sequencing data for TMEM240 in 41 adjacent normal colorectal tissues and 41 matched CRC tumors
    Figure Legend Snippet: TMEM240 DNA methylation and mRNA analysis from the TCGA dataset. Differentially methylated CpG sites in TMEM240 were identified in a 38 adjacent normal colorectal tissues, 38 matched colorectal carcinoma (CRC) tumors, and b 314 CRC tumors by an Illumina Methylation 450K array-based assay. c RNA sequencing data for TMEM240 in 41 adjacent normal colorectal tissues and 41 matched CRC tumors

    Techniques Used: DNA Methylation Assay, Methylation, RNA Sequencing Assay

    Flowchart of the study design, datasets, and specimens used. For each step, the sample types and number of samples used for the analyses are indicated. CRC, colorectal cancer; AN, adjacent normal; AD, benign adenoma; inflam, inflammation; normal, normal tissues; ccfDNA, circulating cell-free DNA; QMSP, quantitative methylation-specific PCR; qRT-PCR, quantitative reverse-transcription PCR; IHC, immunohistochemistry; methylation450K array, Illumina Infinium HumanMethylation450 BeadChip array; OS, overall survival; CS, cancer-specific survival; RFS, recurrence-free survival; SRB, sulforhodamine B assay; PI, propidium iodide staining
    Figure Legend Snippet: Flowchart of the study design, datasets, and specimens used. For each step, the sample types and number of samples used for the analyses are indicated. CRC, colorectal cancer; AN, adjacent normal; AD, benign adenoma; inflam, inflammation; normal, normal tissues; ccfDNA, circulating cell-free DNA; QMSP, quantitative methylation-specific PCR; qRT-PCR, quantitative reverse-transcription PCR; IHC, immunohistochemistry; methylation450K array, Illumina Infinium HumanMethylation450 BeadChip array; OS, overall survival; CS, cancer-specific survival; RFS, recurrence-free survival; SRB, sulforhodamine B assay; PI, propidium iodide staining

    Techniques Used: Methylation, Polymerase Chain Reaction, Quantitative RT-PCR, Immunohistochemistry, Sulforhodamine B Assay, Staining

    TMEM240 mRNA expression levels are affected by DNA methylation and are associated with cancer-specific survival. a The box plot of TMEM240 mRNA expression levels in tissues. b Representative figure of the TMEM240 mRNA expression level determined by RT-qPCR in 10 adjacent normal colon tissues, nine polyps of tubular adenomas, and 10 colorectal carcinoma (CRC) tumors. c Kaplan-Meier survival curves were used to compare cancer-specific survival between CRC patients with low and those with high TMEM240 mRNA expression. TMEM240 was considered to have low expression when the expression level in CRC tumors was 5-fold lower than that in normal tissues. d Scatterplot of the fold change of TMEM240 DNA methylation and mRNA expression levels in CRC tumors normalized to the adjacent normal tissues. e DNA methylation and mRNA expression were measured after treatment with decitabine (DAC). Fold changes in DNA methylation after treatment with DAC (left panel). Fold changes in TMEM240 mRNA expression after treatment with DAC (right panel). Data are presented as the mean ± SD, * *p ≤ 0.01, *** p ≤ 0.001. A t test was used to calculate group differences in all experiments. Experiments were performed with at least two biological duplicates and three technical replicates
    Figure Legend Snippet: TMEM240 mRNA expression levels are affected by DNA methylation and are associated with cancer-specific survival. a The box plot of TMEM240 mRNA expression levels in tissues. b Representative figure of the TMEM240 mRNA expression level determined by RT-qPCR in 10 adjacent normal colon tissues, nine polyps of tubular adenomas, and 10 colorectal carcinoma (CRC) tumors. c Kaplan-Meier survival curves were used to compare cancer-specific survival between CRC patients with low and those with high TMEM240 mRNA expression. TMEM240 was considered to have low expression when the expression level in CRC tumors was 5-fold lower than that in normal tissues. d Scatterplot of the fold change of TMEM240 DNA methylation and mRNA expression levels in CRC tumors normalized to the adjacent normal tissues. e DNA methylation and mRNA expression were measured after treatment with decitabine (DAC). Fold changes in DNA methylation after treatment with DAC (left panel). Fold changes in TMEM240 mRNA expression after treatment with DAC (right panel). Data are presented as the mean ± SD, * *p ≤ 0.01, *** p ≤ 0.001. A t test was used to calculate group differences in all experiments. Experiments were performed with at least two biological duplicates and three technical replicates

    Techniques Used: Expressing, DNA Methylation Assay, Quantitative RT-PCR

    3) Product Images from "A panel of genes methylated with high frequency in colorectal cancer"

    Article Title: A panel of genes methylated with high frequency in colorectal cancer

    Journal: BMC Cancer

    doi: 10.1186/1471-2407-14-54

    Profiles of gene methylation for six amplicons. Individual panels show plots of CpG site methylation across the indicated amplicons. Data is presented for 10 individual cancer tissues (red), 10 matched non-neoplastic colon tissues (blue), a 50:50 mix of wbc DNA and fully methylated DNA (green) and wbc blood DNA (ochre). CpG sites are equispaced along the x-axis with labels showing the relative position of each CpG site within the amplicon, relative to the start of the forward primer. Chromosomal locations of amplicons are provided in Additional file 2 : Table S3. The y-axis shows the proportion of methylated cytosines at a CpG site. Sudden coordinated changes in measured methylation rate, such as that at coordinate 134 of the GRASP Region 3 amplicon, is due to a DNA alignment technical artefact caused by long thymine homopolymer repeats creating errors within the pyrosequencing reads.
    Figure Legend Snippet: Profiles of gene methylation for six amplicons. Individual panels show plots of CpG site methylation across the indicated amplicons. Data is presented for 10 individual cancer tissues (red), 10 matched non-neoplastic colon tissues (blue), a 50:50 mix of wbc DNA and fully methylated DNA (green) and wbc blood DNA (ochre). CpG sites are equispaced along the x-axis with labels showing the relative position of each CpG site within the amplicon, relative to the start of the forward primer. Chromosomal locations of amplicons are provided in Additional file 2 : Table S3. The y-axis shows the proportion of methylated cytosines at a CpG site. Sudden coordinated changes in measured methylation rate, such as that at coordinate 134 of the GRASP Region 3 amplicon, is due to a DNA alignment technical artefact caused by long thymine homopolymer repeats creating errors within the pyrosequencing reads.

    Techniques Used: Methylation, Amplification

    Frequency of gene methylation in colorectal neoplasia. Methylation levels of individual genes (left hand labels) were determined by qMSP using primer pairs and conditions described in Additional file 2 : Table S4. The percentage of samples showing greater than 10% methylation is shown for CRC (red spots), matched normal tissue (green) and adenomas (purple). Up to 78 cancer samples were tested for any individual gene. The size of the spots is proportional to a log2 transformation of the number of samples tested (small gray circle10; medium gray circle 40; large gray circle 80). The difference in detection cycle between CpGenome™ DNA and wbc DNA (ΔCt ) is presented as bars to the right with lengths proportional to the ΔCt value (which is also presented numerically within each bar). An asterix denotes the qMSP reaction completed before reaction products from wbc DNA were detected, so the ΔCt is at least this value.
    Figure Legend Snippet: Frequency of gene methylation in colorectal neoplasia. Methylation levels of individual genes (left hand labels) were determined by qMSP using primer pairs and conditions described in Additional file 2 : Table S4. The percentage of samples showing greater than 10% methylation is shown for CRC (red spots), matched normal tissue (green) and adenomas (purple). Up to 78 cancer samples were tested for any individual gene. The size of the spots is proportional to a log2 transformation of the number of samples tested (small gray circle10; medium gray circle 40; large gray circle 80). The difference in detection cycle between CpGenome™ DNA and wbc DNA (ΔCt ) is presented as bars to the right with lengths proportional to the ΔCt value (which is also presented numerically within each bar). An asterix denotes the qMSP reaction completed before reaction products from wbc DNA were detected, so the ΔCt is at least this value.

    Techniques Used: Methylation, Transformation Assay

    4) Product Images from "Hypermethylation of BEND5 contributes to cell proliferation and is a prognostic marker of colorectal cancer"

    Article Title: Hypermethylation of BEND5 contributes to cell proliferation and is a prognostic marker of colorectal cancer

    Journal: Oncotarget

    doi: 10.18632/oncotarget.22266

    BEND5 DNA methylation and mRNA analysis from the TCGA data set ( A ) Differentially methylated CpG sites on BEND5 were identified in 314 CRC tumors and 38 normal colorectal tissues by using the Illumina Methylation 450K array-based assay. ( B ) BEND5 was significantly downregulated in CRC tumors compared with normal tissues according to RNA sequencing data for 468 CRC patients. ( C ) Pearson correlation test for tissues from 298 CRC patients in the TCGA data set revealed a correlation between DNA methylation and RNA sequencing. ( D ) Kaplan–Meier survival curves were used to compare the overall survival between CRC patients with low and high BEND5 methylation in early stages (I and II). BEND5 was considered hypermethylated at an average β value of > 0.5.
    Figure Legend Snippet: BEND5 DNA methylation and mRNA analysis from the TCGA data set ( A ) Differentially methylated CpG sites on BEND5 were identified in 314 CRC tumors and 38 normal colorectal tissues by using the Illumina Methylation 450K array-based assay. ( B ) BEND5 was significantly downregulated in CRC tumors compared with normal tissues according to RNA sequencing data for 468 CRC patients. ( C ) Pearson correlation test for tissues from 298 CRC patients in the TCGA data set revealed a correlation between DNA methylation and RNA sequencing. ( D ) Kaplan–Meier survival curves were used to compare the overall survival between CRC patients with low and high BEND5 methylation in early stages (I and II). BEND5 was considered hypermethylated at an average β value of > 0.5.

    Techniques Used: DNA Methylation Assay, Methylation, RNA Sequencing Assay

    BEND5 expression was modulated by DNA methylation ( A ) Methylation of the BEND5 promoter decreased after treatment of DLD-1 cells with the DNA-demethylating agent DAC (5 μM) for 72 h. ( B ) BEND5 mRNA and ( C ) BEND5 protein increased following DAC treatment. ( D ) The DNA methylation level and mRNA expression of the control gene GAPDH were not changed by DAC treatment. The data are presented as the mean ± SD, * P ≤ 0.05, *** P ≤ 0.001. The experiments were performed with at least three technical replicates. The t test was used to calculate the group differences in all the experiments.
    Figure Legend Snippet: BEND5 expression was modulated by DNA methylation ( A ) Methylation of the BEND5 promoter decreased after treatment of DLD-1 cells with the DNA-demethylating agent DAC (5 μM) for 72 h. ( B ) BEND5 mRNA and ( C ) BEND5 protein increased following DAC treatment. ( D ) The DNA methylation level and mRNA expression of the control gene GAPDH were not changed by DAC treatment. The data are presented as the mean ± SD, * P ≤ 0.05, *** P ≤ 0.001. The experiments were performed with at least three technical replicates. The t test was used to calculate the group differences in all the experiments.

    Techniques Used: Expressing, DNA Methylation Assay, Methylation

    5) Product Images from "A panel of genes methylated with high frequency in colorectal cancer"

    Article Title: A panel of genes methylated with high frequency in colorectal cancer

    Journal: BMC Cancer

    doi: 10.1186/1471-2407-14-54

    Profiles of gene methylation for six amplicons. Individual panels show plots of CpG site methylation across the indicated amplicons. Data is presented for 10 individual cancer tissues (red), 10 matched non-neoplastic colon tissues (blue), a 50:50 mix of wbc DNA and fully methylated DNA (green) and wbc blood DNA (ochre). CpG sites are equispaced along the x-axis with labels showing the relative position of each CpG site within the amplicon, relative to the start of the forward primer. Chromosomal locations of amplicons are provided in Additional file 2 : Table S3. The y-axis shows the proportion of methylated cytosines at a CpG site. Sudden coordinated changes in measured methylation rate, such as that at coordinate 134 of the GRASP Region 3 amplicon, is due to a DNA alignment technical artefact caused by long thymine homopolymer repeats creating errors within the pyrosequencing reads.
    Figure Legend Snippet: Profiles of gene methylation for six amplicons. Individual panels show plots of CpG site methylation across the indicated amplicons. Data is presented for 10 individual cancer tissues (red), 10 matched non-neoplastic colon tissues (blue), a 50:50 mix of wbc DNA and fully methylated DNA (green) and wbc blood DNA (ochre). CpG sites are equispaced along the x-axis with labels showing the relative position of each CpG site within the amplicon, relative to the start of the forward primer. Chromosomal locations of amplicons are provided in Additional file 2 : Table S3. The y-axis shows the proportion of methylated cytosines at a CpG site. Sudden coordinated changes in measured methylation rate, such as that at coordinate 134 of the GRASP Region 3 amplicon, is due to a DNA alignment technical artefact caused by long thymine homopolymer repeats creating errors within the pyrosequencing reads.

    Techniques Used: Methylation, Amplification

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    Amplification:

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    Methylation:

    Article Title: Real-time colorimetric detection of DNA methylation of the PAX1 gene in cervical scrapings for cervical cancer screening with thiol-labeled PCR primers and gold nanoparticles
    Article Snippet: .. Quantification of DNA methylation through qMSP Quantitative methylation-specific polymerase chain reaction (qMSP) by TaqMan-based technologies was performed in Lightcycler LC480 real-time polymerase chain reaction (PCR) system (Hoffman-La Roche Ltd., Basel, Switzerland) to detect DNA methylation. .. The methylation status of PAX1 was detected by quantitative PCR (qPCR) kits (iStat Biomedical Co., Ltd.), with the VIC gene as an internal reference.

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    Quantitative RT-PCR:

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    DNA Methylation Assay:

    Article Title: Real-time colorimetric detection of DNA methylation of the PAX1 gene in cervical scrapings for cervical cancer screening with thiol-labeled PCR primers and gold nanoparticles
    Article Snippet: .. Quantification of DNA methylation through qMSP Quantitative methylation-specific polymerase chain reaction (qMSP) by TaqMan-based technologies was performed in Lightcycler LC480 real-time polymerase chain reaction (PCR) system (Hoffman-La Roche Ltd., Basel, Switzerland) to detect DNA methylation. .. The methylation status of PAX1 was detected by quantitative PCR (qPCR) kits (iStat Biomedical Co., Ltd.), with the VIC gene as an internal reference.

    SYBR Green Assay:

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    Polymerase Chain Reaction:

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    Article Title: Detection of methylation in promoter sequences by melting curve analysis-based semiquantitative real time PCR
    Article Snippet: .. MSP The methylation specific PCRs were carried out with 60 ng of bisulfite modified DNA in a total volume of 25 μl, which contained 2.5 μl 10× reaction buffer, 2–2.5 mM MgCl2 , 0.2 mM of each dNTP, 10 pmol forward and reverse primers, 5% DMSO and one unit of AmpliTaq Gold™ polymerase (Roche), in a T3 thermocycler of Biometra® . .. Oligonucleotides for RASSF1A and MGMT (Table ) were designed using the MethPrimer software [ ].

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    Roche qmsp quantitative methylation specific polymerase chain reaction qmsp
    Comparison of methylation status of PAX1 gene by thiol-labeled AuNPs methods and <t>qMSP.</t> Notes: ( A ) Receiver operating characteristic (ROC) curve analysis by qMSP and ( B and C ) thiol-labeled AuNPs methods. Methylation distribution at various disease stages by histopathology detected by qMSP method. The y-axis is Δ Cp , which represents the <t>DNA</t> methylation level of the PAX1 gene. The dashed line represents the cut-off with a Δ Cp of 10.57. ( D ) Methylated rate distribution at various disease stages detected by thiol-labeled AuNP method. The y-axis is percentage of methylation rate. The dashed line represents the cut-off with a methylated percentage of 31.27% (* P -value
    Qmsp Quantitative Methylation Specific Polymerase Chain Reaction Qmsp, supplied by Roche, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/qmsp quantitative methylation specific polymerase chain reaction qmsp/product/Roche
    Average 90 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    qmsp quantitative methylation specific polymerase chain reaction qmsp - by Bioz Stars, 2020-07
    90/100 stars
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    Roche sybr green based quantitative methylation specific polymerase chain reaction
    Comparison of methylation status of PAX1 gene by thiol-labeled AuNPs methods and <t>qMSP.</t> Notes: ( A ) Receiver operating characteristic (ROC) curve analysis by qMSP and ( B and C ) thiol-labeled AuNPs methods. Methylation distribution at various disease stages by histopathology detected by qMSP method. The y-axis is Δ Cp , which represents the <t>DNA</t> methylation level of the PAX1 gene. The dashed line represents the cut-off with a Δ Cp of 10.57. ( D ) Methylated rate distribution at various disease stages detected by thiol-labeled AuNP method. The y-axis is percentage of methylation rate. The dashed line represents the cut-off with a methylated percentage of 31.27% (* P -value
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      Buy from Supplier

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    Comparison of methylation status of PAX1 gene by thiol-labeled AuNPs methods and qMSP. Notes: ( A ) Receiver operating characteristic (ROC) curve analysis by qMSP and ( B and C ) thiol-labeled AuNPs methods. Methylation distribution at various disease stages by histopathology detected by qMSP method. The y-axis is Δ Cp , which represents the DNA methylation level of the PAX1 gene. The dashed line represents the cut-off with a Δ Cp of 10.57. ( D ) Methylated rate distribution at various disease stages detected by thiol-labeled AuNP method. The y-axis is percentage of methylation rate. The dashed line represents the cut-off with a methylated percentage of 31.27% (* P -value

    Journal: International Journal of Nanomedicine

    Article Title: Real-time colorimetric detection of DNA methylation of the PAX1 gene in cervical scrapings for cervical cancer screening with thiol-labeled PCR primers and gold nanoparticles

    doi: 10.2147/IJN.S116288

    Figure Lengend Snippet: Comparison of methylation status of PAX1 gene by thiol-labeled AuNPs methods and qMSP. Notes: ( A ) Receiver operating characteristic (ROC) curve analysis by qMSP and ( B and C ) thiol-labeled AuNPs methods. Methylation distribution at various disease stages by histopathology detected by qMSP method. The y-axis is Δ Cp , which represents the DNA methylation level of the PAX1 gene. The dashed line represents the cut-off with a Δ Cp of 10.57. ( D ) Methylated rate distribution at various disease stages detected by thiol-labeled AuNP method. The y-axis is percentage of methylation rate. The dashed line represents the cut-off with a methylated percentage of 31.27% (* P -value

    Article Snippet: Quantification of DNA methylation through qMSP Quantitative methylation-specific polymerase chain reaction (qMSP) by TaqMan-based technologies was performed in Lightcycler LC480 real-time polymerase chain reaction (PCR) system (Hoffman-La Roche Ltd., Basel, Switzerland) to detect DNA methylation.

    Techniques: Methylation, Labeling, Histopathology, DNA Methylation Assay