The largest database of trusted experimental protocols

Viia7 real time system

Manufactured by Thermo Fisher Scientific
Sourced in United States

The ViiA7 Real-Time System is a quantitative PCR (qPCR) instrument designed for real-time detection and analysis of nucleic acids. It provides precise and reliable data for a wide range of applications, including gene expression analysis, pathogen detection, and genotyping.

Automatically generated - may contain errors

28 protocols using viia7 real time system

1

Quantitative Analysis of Prion-Induced RNA

Check if the same lab product or an alternative is used in the 5 most similar protocols
Total RNA from brains of prion‐infected and controls was isolated using RNeasy Plus Universal Mini Kit (Qiagen), according to the manufacturer’s manual. After reverse transcription (QuantiTect Rev. Transcription Kit, Qiagen), cDNA was processed for real‐time qPCR using SYBR‐green (Roche) and determination of ΔΔCT‐values was done on a ViiA 7 real‐time system (Applied Biosystems). Total RNA from Gt1 cells infected with prions was isolated using RNeasy Mini Kit (Qiagen), according to the manufacturer's manual. RNA levels of GAPDH were used to standardize expression levels. RT–PCR was performed using SYBR‐green (Roche), and determination of ΔΔCT‐values was done on a ViiA 7 real‐time system (Applied Biosystems). For the primer sequences used in this study, see Table EV2.
+ Open protocol
+ Expand
2

Quantitative PCR for Viral Vector Titering

Check if the same lab product or an alternative is used in the 5 most similar protocols
qPCR reactions were prepared with TaqMan Universal MasterMix in a 96-well optical plate (Life Technologies, Carlsbad, CA, USA). Pretreated rAAV samples were mixed 1:1 with qPCR reaction mixture, and the final concentrations of primers and probe were 1 μM and 0.25 μM. Standard curves were prepared with HeLa DNA serially diluted in TE buffer with 10% Tween 20 and 0.1% SDS (method with digestion) or TE buffer with 5% Tween 20 (digestion-free method). qPCR program was as follows: 1 cycle of 50°C × 2′, 95°C × 15′; 40 cycles of 95°C × 30″, 60°C × 1′ was conducted in ViiA 7 real-time system (Life Technologies, Carlsbad, CA, USA). qPCR data were automatically analyzed by the ViiA 7 software. Ct values and DNA concentrations were reported.
+ Open protocol
+ Expand
3

RNA Extraction and Real-Time qRT-PCR Analysis

Check if the same lab product or an alternative is used in the 5 most similar protocols
Total RNA was extracted from whole seedling plants using TRIzol (Invitrogen). Samples were treated with DNase (Promega) for 30 minutes at 37°C to eliminate contaminating genomic DNA. RNA (5 μg) was used for synthesis of first strand cDNA using random primers or oligo-dT and then used for real-time qRT-PCR analyses with Maxima SYBR green master mix (Thermo Scientific) on a ViiA 7 real-time system (Life Technologies). Relative transcript levels were normalized by comparing to levels of PP2A as previously described [16 (link)]. For COLDAIR, total RNA were used for first strand cDNA syntheses using Gene Link random primers with the Promega M-MLV System. Anchor primers AAP and AUAP (Invitrogen) and gene-specific reverse primers (COLDAIR_1R and COLDAIR_2R) were used for detection. Primer sequences are listed in S2 Table.
+ Open protocol
+ Expand
4

Gene Expression Quantification by qPCR

Check if the same lab product or an alternative is used in the 5 most similar protocols
Reverse transcription was performed using the QuantiTect Reverse Transcription Kit (Qiagen). SLC25A20 expression was monitored with the Hs00386383_m1 probe (LifeTech), PDK4 with the Hs01037712_m1 probe (LifeTech) and ITGB5 with the Hs00174435_m1 probe (LifeTech) as per the manufacturer protocol. Each qPCR was performed in duplex with the housekeeping gene ACTB, measured using the Hs01060665_g1 probe (LifeTech), to normalize expression. The TaqMan qPCR was conducted on a Viia7 Real-Time System (LifeTech) and cycle threshold (CT) values were calculated automatically with default parameters. Fold change (FC) differences were calculated using the δCT method.
+ Open protocol
+ Expand
5

Quantification of Viral Vector DNA Copy Number

Check if the same lab product or an alternative is used in the 5 most similar protocols
Linearized DNA plasmid was used as qPCR standard, and DNA concentration was determined by Picogreen dsDNA kit (Molecular Probes). Plasmid was diluted in assay buffer (10 mM Tris-HCL, 50 mM KCL, 5 mM MgCl2, pH = 8.0) to the range between 1E10 and 1E5 copies/mL for qPCR standard curve. AAV samples were diluted in assay buffer and sequentially treated by 10 units/μL of DNase (37°C × 30’, 95°C × 10’, 4°C hold) and 1 mg/mL Proteinase K (50°C × 60’, 95°C × 10’, 4°C hold). qPCR reactions were prepared with TaqMan Universal MasterMix in a 96-well optical plate (Life Technologies) with 1 μM primers and 0.25 μM probe. qPCR program: 1 cycle of: 50°C × 2′, 95°C × 15’, 40 cycles of: 95°C × 30’’, 60°C × 1’ was conducted in ViiA 7 Real-Time System (Life Technologies).
+ Open protocol
+ Expand
6

Quantitative Analysis of mRNA Expression

Check if the same lab product or an alternative is used in the 5 most similar protocols
Total RNA was extracted from cultured cells or intestinal tissues using Trizol Reagent (Invitrogen, USA). For examination of the mRNA expression, cDNA was synthesized from 1 μg of total RNA by using a Revert Aid first-strand cDNA synthesis kit (Takara, Japan). Then, quantitative reverse transcription polymerase chain reaction (qRT-PCR) analysis was performed with SYBR Premix Ex Taq (Takara, Japan) in ViiA 7 Real time system (Life technologies, USA). The sequences of primers were showed in Table 1. Data were calculated according to 2–ΔΔCt method.
+ Open protocol
+ Expand
7

Transcriptome Analysis of Seedling Plants

Check if the same lab product or an alternative is used in the 5 most similar protocols
Total RNAs were extracted from whole seedling plants using TRIzol (Invitrogen). DNase I enzyme (Invitrogen) was treated for 30 minutes at 37°C to eliminate contaminated genomic DNA from total RNAs. Five micrograms of total RNA were used for synthesis of first strand cDNA using random primers and then used for real-time qRT-PCR analyses using ViiA 7 real time system (Life Technologies). Reactions were carried out in a total volume of 10 ul with Maxima SYBR green master mix (Thermo Fisher Scientific, USA). Primer sequences used in quantitative RT-PCR analyses are listed in Supplementary Table 1.
+ Open protocol
+ Expand
8

Quantitative Real-Time PCR Protocol

Check if the same lab product or an alternative is used in the 5 most similar protocols
For quantitative real-time PCR (qPCR), complementary DNA was synthesized using the QuantiTect Reverse Transcription Kit (Qiagen). TaqMan qPCR was performed on a Viia7 Real-Time System (LifeTech) where MCEMP1, monitored with Hs00545333_g1 (LifeTech), was normalized to ACTB, monitored with Hs01060665_g1 (LifeTech). Cycle threshold values were calculated automatically with default parameters, and FC was calculated using the δCT method. 19 (link) qPCR confirmed microarray results if Pearson correlation >0.8 and regression P<0.05. The independent validation cohort was analyzed using 1-sided t tests and ordinal logistic regression.
+ Open protocol
+ Expand
9

DNA Extraction and Quantification of Herbal Samples

Check if the same lab product or an alternative is used in the 5 most similar protocols
DNA was extracted from the powder of the herbal martials and commercial patent medicines using a PureLink™ Genomic Plant DNA Purification Kit (part #, K183001, Thermo Fisher Scientific). The DNA was diluted 10-fold with deionized water before use as a template for real-time PCR. Each reaction contained 10 ul 2× PowerUp SYBR Green Master Mix (part # A25742, Thermo Fisher Scientific). 1 uM each of the forward and reverse primers, and 1 ul of template DNA. The total reaction volume was 20 ul. PCR amplification was performed under the following conditions: 95 °C for 30 s, followed by 40 cycles at 95 °C for 5 s and 60 °C for 30 s using a ViiA7 Real-Time system (Thermo Fisher Scientific). All the qRT-PCR analyses were performed three times with independent DNA samples.
+ Open protocol
+ Expand
10

Quantitative Real-Time PCR Analysis

Check if the same lab product or an alternative is used in the 5 most similar protocols
After treatments, total RNA from BMDMs was isolated using TRIzol reagent (Life Technologies) according to the manufacturer’s instructions. RNA was quantified using a spectrophotometer (NanoDrop), and cDNA was synthesized from 1 μg of total RNA using the high-capacity cDNA reverse transcription kit with RNAse inhibitor (Invitrogen). SYBR Select Master Mix (Applied Biosystems) was used for quantitative real-time polymerase chain reaction. Reactions were performed using 2 μL cDNA and 100 nmol/L of each of the reverse and forward primers. The following primers were used for quantitative real-time polymerase chain reaction: NOS2 forward: 5′-CAC AGT GTC GCT GGT TTG AA-3′; NOS2 reverse: 5′-TCT CCG TGG GGC TTG TAG TT-3′; Arg1 forward: 5′-TGG ACC CTG GGG AAC ACT AT-3′; Arg1 reverse: 5′-GTA GCC GGG GTG AAT ACT GG-3′; Tgfb1 forward: 5′-CTT TGT ACA ACA GCA CCC GC-3′; Tgfb1 reverse: 5′-TAG ATT GCG TTG TTG CGG TC-3′; Gapdh forward: 5′-AGT GCC AGC CTC GTC TCA TA-3′; Gapdh reverse: 5′-GAC TGT GCC GTT GAA CTT GC-3′. Reactions were performed in a ViiA7 Real-Time System (ThermoFisher Scientific). Gapdh was used as an internal control to calculate relative mRNA levels.
+ Open protocol
+ Expand

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Sign up for free.
Registration takes 20 seconds.
Available from any computer
No download required

Sign up now

Revolutionizing how scientists
search and build protocols!