spike rna levels  (Thermo Fisher)


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    Name:
    ERCC RNA Spike In Mix
    Description:
    Variation in RNA expression data can be attributed to a variety of factors including the quality of the starting material the level of cellularity and RNA yield the platform employed and the person performing the experiment To control for these sources of variability a common set of external RNA controls has been developed by the External RNA Controls Consortium ERCC an ad hoc group of academic private and public organizations hosted by the National Institute of Standards and Technology NIST The controls consist of a set of unlabeled polyadenylated transcripts designed to be added to an RNA analysis experiment after sample isolation in order to measure against defined performance criteria Up until the design of such universally accepted controls it has been difficult to execute a thorough investigation of fundamental analytical performance metrics From the trusted brand of quality RNA reagents Ambion ERCC Spike In Control Mixes are commercially available pre formulated blends of 92 transcripts derived and traceable from NIST certified DNA plasmids The transcripts are designed to be 250 to 2 000 nt in length which mimic natural eukaryotic mRNAs Key product features Achieve a standard measure for data comparison across gene expression experiments• Measure sensitivity lower limit of detection and dynamic range of an experiment• Quantitate differential gene expressionUnlock the Potential of RNA AnalysisRNA analysis including gene expression profiling and whole transcriptome surveying can lead to better understanding of expression patterns in disease states and provides greater insights into biological pathways and molecular mechanisms that regulate cell fate development and disease progression Traditional methods of RNA analysis such as qRT PCR and microarrays are well established but are being replaced by next generation sequencing a high throughput digital alternative Because each method carries multiple platforms and with the need to compare various samples across platforms throughout the world a standard measure for data comparison is necessary As the capabilities of RNA analysis expand the necessity to create a standardized view of data will become even more important Achieve and Compare Results with Confirmed AccuracyAmbion ERCC RNA Spike In Controls are used to create a standard baseline measurement of RNA both within an experiment and across multiple experiments performed using various samples and platforms With two spike in mix formulations Figure 1 various measurements such as sensitivity or dynamic range can be examined to assess different parameters in an experiment or across experiments Figure 2 Furthermore expression fold change ratios between two samples can be calculated with a high degree of confidence using the highly concordant relationship between ExFold RNA Spike In 1 and ExFold RNA Spike In 2 Figure 3 Measurements are determined via known molar concentrations for each transcript within a spike in mix and through association of the two mixes using a combination of ratios across 4 different subgroups of the 92 transcripts The controls are ideal for next generation sequencing experiments such as on SOLiD System and supported microarray platforms such as the Illumina Sentrix BeadChip Choose Among Flexible Options for ERCC Kit ConfigurationsWhether measuring dynamic range or gene expression fold change Ambion ERCC Spike In Control Mixes are available in two kit configurations to meet your experimental needs Use the ERCC Spike In Mix to determine the dynamic range and lower limit of detection on your platform and use the ERCC ExFold Spike In Mixes to assess the accuracy of differential gene expression measurements ERCC RNA Spike In Mix 1 ExFold Spike In Mix 1 ExFold Spike In Mix 2 Nuclease free WaterERCC RNA Spike In Mix Cat No 4456740 10 µL 1 75 mLERCC ExFold RNA Spike In Mixes Cat No 4456739 10 µL10 µL1 75 mL Although ERCC RNA Spike In Mix 1 and ExFold Spike In Mix 1 contain the same formulation of ERCC transcripts do not substitute ERCC RNA Spike In Mix 1 for ExFold Spike In Mix 1 for fold change assessment Use only ExFold Spike In Mix 1 and Mix 2 with the same manufacturing lot number For Research Use Only Not for use in diagnostics procedures
    Catalog Number:
    4456740
    Price:
    None
    Applications:
    PCR & Real-Time PCR|RNA Sequencing|Real Time PCR (qPCR)|Real-Time PCR Primers, Probes, Arrays & Controls|SOLiD® Next-Generation Sequencing|Sample & Library Preparation for SOLiD® Next-Generation Sequencing|Whole Transcriptome Sequencing|Sequencing|Gene Expression Analysis & Genotyping|Microarray Hybridization & General Reagents
    Category:
    Standards Ladders Controls
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    Structured Review

    Thermo Fisher spike rna levels
    Variation in RNA expression data can be attributed to a variety of factors including the quality of the starting material the level of cellularity and RNA yield the platform employed and the person performing the experiment To control for these sources of variability a common set of external RNA controls has been developed by the External RNA Controls Consortium ERCC an ad hoc group of academic private and public organizations hosted by the National Institute of Standards and Technology NIST The controls consist of a set of unlabeled polyadenylated transcripts designed to be added to an RNA analysis experiment after sample isolation in order to measure against defined performance criteria Up until the design of such universally accepted controls it has been difficult to execute a thorough investigation of fundamental analytical performance metrics From the trusted brand of quality RNA reagents Ambion ERCC Spike In Control Mixes are commercially available pre formulated blends of 92 transcripts derived and traceable from NIST certified DNA plasmids The transcripts are designed to be 250 to 2 000 nt in length which mimic natural eukaryotic mRNAs Key product features Achieve a standard measure for data comparison across gene expression experiments• Measure sensitivity lower limit of detection and dynamic range of an experiment• Quantitate differential gene expressionUnlock the Potential of RNA AnalysisRNA analysis including gene expression profiling and whole transcriptome surveying can lead to better understanding of expression patterns in disease states and provides greater insights into biological pathways and molecular mechanisms that regulate cell fate development and disease progression Traditional methods of RNA analysis such as qRT PCR and microarrays are well established but are being replaced by next generation sequencing a high throughput digital alternative Because each method carries multiple platforms and with the need to compare various samples across platforms throughout the world a standard measure for data comparison is necessary As the capabilities of RNA analysis expand the necessity to create a standardized view of data will become even more important Achieve and Compare Results with Confirmed AccuracyAmbion ERCC RNA Spike In Controls are used to create a standard baseline measurement of RNA both within an experiment and across multiple experiments performed using various samples and platforms With two spike in mix formulations Figure 1 various measurements such as sensitivity or dynamic range can be examined to assess different parameters in an experiment or across experiments Figure 2 Furthermore expression fold change ratios between two samples can be calculated with a high degree of confidence using the highly concordant relationship between ExFold RNA Spike In 1 and ExFold RNA Spike In 2 Figure 3 Measurements are determined via known molar concentrations for each transcript within a spike in mix and through association of the two mixes using a combination of ratios across 4 different subgroups of the 92 transcripts The controls are ideal for next generation sequencing experiments such as on SOLiD System and supported microarray platforms such as the Illumina Sentrix BeadChip Choose Among Flexible Options for ERCC Kit ConfigurationsWhether measuring dynamic range or gene expression fold change Ambion ERCC Spike In Control Mixes are available in two kit configurations to meet your experimental needs Use the ERCC Spike In Mix to determine the dynamic range and lower limit of detection on your platform and use the ERCC ExFold Spike In Mixes to assess the accuracy of differential gene expression measurements ERCC RNA Spike In Mix 1 ExFold Spike In Mix 1 ExFold Spike In Mix 2 Nuclease free WaterERCC RNA Spike In Mix Cat No 4456740 10 µL 1 75 mLERCC ExFold RNA Spike In Mixes Cat No 4456739 10 µL10 µL1 75 mL Although ERCC RNA Spike In Mix 1 and ExFold Spike In Mix 1 contain the same formulation of ERCC transcripts do not substitute ERCC RNA Spike In Mix 1 for ExFold Spike In Mix 1 for fold change assessment Use only ExFold Spike In Mix 1 and Mix 2 with the same manufacturing lot number For Research Use Only Not for use in diagnostics procedures
    https://www.bioz.com/result/spike rna levels/product/Thermo Fisher
    Average 99 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    spike rna levels - by Bioz Stars, 2021-01
    99/100 stars

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    Amplification:

    Article Title: Single-cell full-length total RNA sequencing uncovers dynamics of recursive splicing and enhancer RNAs
    Article Snippet: .. To eliminate genomic DNA contamination, 1 μL of genomic DNA digestion mix (0.5× PrimeScript Buffer, 0.2 U of DNase I Amplification Grade, 1: 5 000 000 ERCC RNA Spike-In Mix I (Thermo Fisher) in RNase-free water) was added to 1 μL of the denatured sample. .. The mixtures were agitated for 30 s at 2000 rpm using an ThermoMixer C at 4 °C, incubated in a C1000 thermal cycler at 30 °C for 5 min and held at 4 °C until the next step.

    Magnetic Beads:

    Article Title: Patch-Seq Protocol to Analyze the Electrophysiology, Morphology and Transcriptome of Whole Single Neurons Derived From Human Pluripotent Stem Cells
    Article Snippet: .. simple • RNase AWAY Decontamination Reagent (Thermo Fisher Scientific, 10328011) simple • SMARTer Ultra Low Input RNA for Illumina Sequencing – High Volume kit (Clontech, 634828) simple • ERCC RNA Spike-In Mix (Thermo Fisher Scientific, 4456740) simple • Nextera XT DNA Library Preparation Kit (Illumina, FC-131-1096) simple • Nextera XT Index Kit (Illumina, FC-131-1001) simple • Agencourt AMPure XP magnetic beads (Beckman Coulter, ) simple • SYBR Gold Nucleic Acid Gel Stain (Thermo Fisher Scientific, S11494) simple • Wizard SV Gel and PCR Clean-Up System (Promega, A9282) simple • Ethanol, molecular biology grade (Sigma-Aldrich, E7023) simple • DNase-/RNase-free distilled water (Thermo Fisher Scientific, 10977015) .. simple • Qubit dsDNA High-Sensitivity Assay Kit (Thermo Fisher Scientific, ) simple • Qubit Assay Tubes (Thermo Fisher Scientific, ) simple • Human GAPD (GAPDH) Endogenous Control, FAM/MGB probe, non-primer limited (Thermo Fisher Scientific, 4333764F) simple • Human ACTB (Beta Actin) Endogenous Control, FAM/MGB probe, non-primer limited (Thermo Fisher Scientific, 4333762F) simple • TaqMan Gene Expression Master Mix (Thermo Fisher Scientific, 4369510) simple • High Sensitivity (HS) DNA Kit – Bioanalyzer Chips & Reagents (Agilent, 5067-4626) simple • KAPA Library Quantification Kit for Illumina Platforms (KAPA Biosystems, KK4835)

    Real-time Polymerase Chain Reaction:

    Article Title: Multiplexing polysome profiling experiments to study translation in Escherichia coli
    Article Snippet: .. To account for variability of the reverse transcription and the qPCR steps between samples and experiments, control Ambion ERCC RNA Spike-In mix was used as external normalizer. ..

    Sequencing:

    Article Title: Patch-Seq Protocol to Analyze the Electrophysiology, Morphology and Transcriptome of Whole Single Neurons Derived From Human Pluripotent Stem Cells
    Article Snippet: .. simple • RNase AWAY Decontamination Reagent (Thermo Fisher Scientific, 10328011) simple • SMARTer Ultra Low Input RNA for Illumina Sequencing – High Volume kit (Clontech, 634828) simple • ERCC RNA Spike-In Mix (Thermo Fisher Scientific, 4456740) simple • Nextera XT DNA Library Preparation Kit (Illumina, FC-131-1096) simple • Nextera XT Index Kit (Illumina, FC-131-1001) simple • Agencourt AMPure XP magnetic beads (Beckman Coulter, ) simple • SYBR Gold Nucleic Acid Gel Stain (Thermo Fisher Scientific, S11494) simple • Wizard SV Gel and PCR Clean-Up System (Promega, A9282) simple • Ethanol, molecular biology grade (Sigma-Aldrich, E7023) simple • DNase-/RNase-free distilled water (Thermo Fisher Scientific, 10977015) .. simple • Qubit dsDNA High-Sensitivity Assay Kit (Thermo Fisher Scientific, ) simple • Qubit Assay Tubes (Thermo Fisher Scientific, ) simple • Human GAPD (GAPDH) Endogenous Control, FAM/MGB probe, non-primer limited (Thermo Fisher Scientific, 4333764F) simple • Human ACTB (Beta Actin) Endogenous Control, FAM/MGB probe, non-primer limited (Thermo Fisher Scientific, 4333762F) simple • TaqMan Gene Expression Master Mix (Thermo Fisher Scientific, 4369510) simple • High Sensitivity (HS) DNA Kit – Bioanalyzer Chips & Reagents (Agilent, 5067-4626) simple • KAPA Library Quantification Kit for Illumina Platforms (KAPA Biosystems, KK4835)

    Lysis:

    Article Title: Reconstructing lineage hierarchies of the distal lung epithelium using single cell RNA-seq
    Article Snippet: .. ERCC (External RNA Controls Consortium) RNA spike-in Mix (Ambion, Life Technologies) was added to the lysis reaction and processed in parallel to cellular mRNA. .. For qPCR experiments, amplicons were prepared using pooled DELTAgene assays (Fluidigm) and Ambion (Life Technologies) Cells to CT lysis and pre-amplification kit using the protocol provided by Fluidigm.

    Article Title: EXOSC10 sculpts the transcriptome during the growth-to-maturation transition in mouse oocytes
    Article Snippet: .. Briefly, 1 μl of 105-fold diluted ERCC RNA spike-in mix (Thermo Fisher Scientific, 4456740) was added to each oocyte lysis sample. .. For first strand cDNA synthesis, 1 μl (50 μM) of random hexamer primer (Thermo Scientific 3005) was added to each sample instead of the provided First Strand Primer Mix (blue: A1 ver 17).

    Polymerase Chain Reaction:

    Article Title: Patch-Seq Protocol to Analyze the Electrophysiology, Morphology and Transcriptome of Whole Single Neurons Derived From Human Pluripotent Stem Cells
    Article Snippet: .. simple • RNase AWAY Decontamination Reagent (Thermo Fisher Scientific, 10328011) simple • SMARTer Ultra Low Input RNA for Illumina Sequencing – High Volume kit (Clontech, 634828) simple • ERCC RNA Spike-In Mix (Thermo Fisher Scientific, 4456740) simple • Nextera XT DNA Library Preparation Kit (Illumina, FC-131-1096) simple • Nextera XT Index Kit (Illumina, FC-131-1001) simple • Agencourt AMPure XP magnetic beads (Beckman Coulter, ) simple • SYBR Gold Nucleic Acid Gel Stain (Thermo Fisher Scientific, S11494) simple • Wizard SV Gel and PCR Clean-Up System (Promega, A9282) simple • Ethanol, molecular biology grade (Sigma-Aldrich, E7023) simple • DNase-/RNase-free distilled water (Thermo Fisher Scientific, 10977015) .. simple • Qubit dsDNA High-Sensitivity Assay Kit (Thermo Fisher Scientific, ) simple • Qubit Assay Tubes (Thermo Fisher Scientific, ) simple • Human GAPD (GAPDH) Endogenous Control, FAM/MGB probe, non-primer limited (Thermo Fisher Scientific, 4333764F) simple • Human ACTB (Beta Actin) Endogenous Control, FAM/MGB probe, non-primer limited (Thermo Fisher Scientific, 4333762F) simple • TaqMan Gene Expression Master Mix (Thermo Fisher Scientific, 4369510) simple • High Sensitivity (HS) DNA Kit – Bioanalyzer Chips & Reagents (Agilent, 5067-4626) simple • KAPA Library Quantification Kit for Illumina Platforms (KAPA Biosystems, KK4835)

    Staining:

    Article Title: Patch-Seq Protocol to Analyze the Electrophysiology, Morphology and Transcriptome of Whole Single Neurons Derived From Human Pluripotent Stem Cells
    Article Snippet: .. simple • RNase AWAY Decontamination Reagent (Thermo Fisher Scientific, 10328011) simple • SMARTer Ultra Low Input RNA for Illumina Sequencing – High Volume kit (Clontech, 634828) simple • ERCC RNA Spike-In Mix (Thermo Fisher Scientific, 4456740) simple • Nextera XT DNA Library Preparation Kit (Illumina, FC-131-1096) simple • Nextera XT Index Kit (Illumina, FC-131-1001) simple • Agencourt AMPure XP magnetic beads (Beckman Coulter, ) simple • SYBR Gold Nucleic Acid Gel Stain (Thermo Fisher Scientific, S11494) simple • Wizard SV Gel and PCR Clean-Up System (Promega, A9282) simple • Ethanol, molecular biology grade (Sigma-Aldrich, E7023) simple • DNase-/RNase-free distilled water (Thermo Fisher Scientific, 10977015) .. simple • Qubit dsDNA High-Sensitivity Assay Kit (Thermo Fisher Scientific, ) simple • Qubit Assay Tubes (Thermo Fisher Scientific, ) simple • Human GAPD (GAPDH) Endogenous Control, FAM/MGB probe, non-primer limited (Thermo Fisher Scientific, 4333764F) simple • Human ACTB (Beta Actin) Endogenous Control, FAM/MGB probe, non-primer limited (Thermo Fisher Scientific, 4333762F) simple • TaqMan Gene Expression Master Mix (Thermo Fisher Scientific, 4369510) simple • High Sensitivity (HS) DNA Kit – Bioanalyzer Chips & Reagents (Agilent, 5067-4626) simple • KAPA Library Quantification Kit for Illumina Platforms (KAPA Biosystems, KK4835)

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  • 90
    Thermo Fisher rna spike controls
    Early loss of Fbxw7 results in dysregulated c-Myc, E2F, and Notch-ICD target expression. A. Mammary epithelial cells were isolated from two control (Cre-) and two Fbxw7 − / − (Cre+) mice during the third week of pregnancy. PCR analysis for the excision of exons 5–6 of Fbxw7 was performed as in Fig. 1 A. L = molecular weight ladder. B-E. Single cells were isolated from the populations shown in A using the <t>Fluidigm</t> C1 system and qPCR assays were performed using a Biomark HD (Fluidigm). Target amplification was performed with Delta Gene assays (primer sets) from Fluidigm for (B) c-Jun, (C) c-Myc, (D) E2F, and (E) Notch1-ICD target genes of interest. Lanes marked with + indicate Fbxw7 +/+ control cells and lanes marked with - indicate Fbxw7 − / − cells. Statistical analysis was performed using the Fluidigm Real-Time PCR Analysis software. Data are expressed as Log 2 Expression normalized to <t>RNA</t> spike-in controls. Significance was measured using the Mann-Whitney test with a p value cutoff of p
    Rna Spike Controls, supplied by Thermo Fisher, 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/rna spike controls/product/Thermo Fisher
    Average 90 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    rna spike controls - by Bioz Stars, 2021-01
    90/100 stars
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    Early loss of Fbxw7 results in dysregulated c-Myc, E2F, and Notch-ICD target expression. A. Mammary epithelial cells were isolated from two control (Cre-) and two Fbxw7 − / − (Cre+) mice during the third week of pregnancy. PCR analysis for the excision of exons 5–6 of Fbxw7 was performed as in Fig. 1 A. L = molecular weight ladder. B-E. Single cells were isolated from the populations shown in A using the Fluidigm C1 system and qPCR assays were performed using a Biomark HD (Fluidigm). Target amplification was performed with Delta Gene assays (primer sets) from Fluidigm for (B) c-Jun, (C) c-Myc, (D) E2F, and (E) Notch1-ICD target genes of interest. Lanes marked with + indicate Fbxw7 +/+ control cells and lanes marked with - indicate Fbxw7 − / − cells. Statistical analysis was performed using the Fluidigm Real-Time PCR Analysis software. Data are expressed as Log 2 Expression normalized to RNA spike-in controls. Significance was measured using the Mann-Whitney test with a p value cutoff of p

    Journal: Neoplasia (New York, N.Y.)

    Article Title: Loss of Fbxw7 triggers mammary tumorigenesis associated with E2F/c-Myc activation and Trp53 mutation

    doi: 10.1016/j.neo.2020.07.001

    Figure Lengend Snippet: Early loss of Fbxw7 results in dysregulated c-Myc, E2F, and Notch-ICD target expression. A. Mammary epithelial cells were isolated from two control (Cre-) and two Fbxw7 − / − (Cre+) mice during the third week of pregnancy. PCR analysis for the excision of exons 5–6 of Fbxw7 was performed as in Fig. 1 A. L = molecular weight ladder. B-E. Single cells were isolated from the populations shown in A using the Fluidigm C1 system and qPCR assays were performed using a Biomark HD (Fluidigm). Target amplification was performed with Delta Gene assays (primer sets) from Fluidigm for (B) c-Jun, (C) c-Myc, (D) E2F, and (E) Notch1-ICD target genes of interest. Lanes marked with + indicate Fbxw7 +/+ control cells and lanes marked with - indicate Fbxw7 − / − cells. Statistical analysis was performed using the Fluidigm Real-Time PCR Analysis software. Data are expressed as Log 2 Expression normalized to RNA spike-in controls. Significance was measured using the Mann-Whitney test with a p value cutoff of p

    Article Snippet: Delta gene assays for c-Myc, E2F, c-Jun, and Notch-ICD targets were purchased from Fluidigm (See for details) to measure mRNA levels, and RNA spike controls were included for normalization of expression (ArrayControl RNA Spikes, ThermoFisher Scientific, AM1780). qPCR was performed on a 96.96 Dynamic Array using the BiomarkHD system.

    Techniques: Expressing, Isolation, Mouse Assay, Polymerase Chain Reaction, Molecular Weight, Real-time Polymerase Chain Reaction, Amplification, Software, MANN-WHITNEY