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55 protocols using qrt pcr kit

1

ADAM10 mRNA Quantification in NPCs and NIH3T3 Cells

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NPCs and NIH3T3 cells were lysed and total RNA was extracted with RNAeasy kit (QIAGEN). The levels of ADAM10 mRNA were determined with qRT-PCR kit (Takara RR036A and RR820A). GAPDH gene was used as internal control. The primers used were: Adam10:5′-cctgccatttcactctgtcattta-3′ & 5′-gtgcccgggctccttcctctactc-3′; GAPDH: 5′-acagcaactcccactcttccacct-3′ and 5′-ttgctcagtgtccttgctgggg-3′. Hes1, Hes5 and β-actin primers were adopted from a previous report40 (link).
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2

Isolating and Purifying Phytophthora capsici

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P. capsici susceptible to conventional treatments was isolated and purified from a stem base of the diseased pepper in Henan Province of China. Single-spore isolate was obtained and cultured for 3 days at 25 °C on V8 agar plates in full darkness for subsequent experiments, in which V8 agar medium was composed of 100 mL filtered V8 juice, 900 mL deionized water, 1.5 g CaCO3 and 20 g agar. V8 medium, which was consisted of 100 mL filtered V8 juice, 0.02 g CaCO3 and 900 mL deionized water, was prepared for a large number of mycelia of P. capsici.
Technical-grade CA was purchased from Sigma and its assay was ≥95%. It was dissolved in acetone and Tween 80 to 3 mg/mL for subsequent experiments, in which acetone and Tween 80 were used as solvents. The medical solution was stored at 4 °C in the dark. qRT-PCR Kit and fluorescence quantitative PCR kit were purchased from TaKaRa [TaKaRa Biotechnology (Dalian) Co., Ltd., China]. Q5 Hot Start High-Fidelity2 × Master Mix was purchased from New England BioLabs (United States).
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3

Quantifying m6A-Modified Muscle Growth Genes

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We tested four different genes with m6A methylation modification for qRT-PCR analysis, they are related to muscle growth and development (Kee and Hardeman, 2008 (link); Otten et al., 2012 (link); Flix et al., 2013 (link); Siddique et al., 2016 (link)). We validated the methylation-modified differential genes and used a qRT-PCR kit (Takara, Dalian, China) to reverse-transcribe the total RNA extracted from the muscle into cDNA. SYBR Green (Vazyme-Q711, China) was used to perform real-time fluorescent quantitative PCR according to the instructions. The ACTB gene was used as an internal reference gene to standardize the expression level of genes. Three trials were performed on three LYWC and three SIM muscle samples. Primer 5 was used to design four pairs of primers, the primer list is shown in Table 1. All primers span the end of the gene. The relative expression of differentially expressed genes was calculated by the 2−△△Ct method. The data are expressed as the mean ± standard error (sample number n = 3). The t-test in SPSS statistical software (version 22.0, Chicago, IL, United States) was used to perform the statistical analyses in the two groups, and the difference was significant when p < 0.05.
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4

Quantifying TRIM11 Expression in Prostate Cancer

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Total RNA was extracted from tissue samples containing prostate cancer and adjacent normal prostate tissues using TRIzol reagent (Invitrogen, Carlsbad, CA, USA). A qRT-PCR kit (Takara Bio Inc., Kusatsu, Shiga, Japan) was used to prepare cDNA according to the manufacturer’s instructions. The gene expression of TRIM11 was detected using PCR with SYBR Premix Ex Taq II (Takara Bio Inc., Kusatsu, Shiga, Japan). The 2−ΔΔCt method was used to calculate the expression of TRIM11 relative to β-actin. Experiments were performed in triplicate for each data point. The primers included in this study (Genepharma, Shanghai, China) were as follows:
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5

Quantitative Real-Time PCR Analysis of Autophagy Regulators

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Primers for qRT-PCR were designed using Primer Premier Software 5.0 (Premier Bio Soft International). The sequences are shown in Table 1. The qRT-PCR was performed in a 20 μL reaction per well in a 96-well plate containing 3 μL diluted cDNA, 10 μL SYBR® Premix Ex Taq II (Tli RNASEH Plus), 0.4 μL each upstream and downstream primers (10 μM), and 6.2 μL ddH2O. The qRT-PCR amplification procedure was as follows: 94 ℃ 30 s; 94 ℃ 5 s, 60 ℃ 15 s, 72 ℃ 10 s, 39 Cycles; Melt Curve: 65℃ → 95℃. The qRT-PCR reactions were performed on the CFX96 Quantitative Real-time PCR system (Bio-Rad) using qRT-PCR Kit (Takara). Melting curve analysis verified the reliability of each qRT-PCR reaction. Quantitative measurements were determined by using the 2−ΔΔCt method, and the mRNA expression of β-actin gene was used as the internal control.

The primers used for Real-time PCR

NamePrimer sequence (5’-3’)
Notch3Forward: CAGACACCAATGCCCAGGAC
Reverse: CAGGTCTGTAGAGCGGTTCC
mTORForward: GCTGGCACTTGCTCACAAAA
Reverse: GAAGGCATCAATCTTGCGGG
LC3BForward: TGCCGTCCGAGAAAACCTTCAAAC
Reverse: CGGGATTTTGGTAGGATGCTGCTC
p62Forward: CTGGGAGATGGGCACACC
Reverse: TGGGATCTTCCGATGGACCA
Beclin1Forward: TCCATTACTTGCCACAGCC
Reverse: GCCATCAGATGCCTCCC
β-actinForward: CGTCCGTGACATCAAGGAGAAGC
Reverse: GGAACCGCTCATTGCCGATGG
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6

Decitabine Effect on K562 Cells

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The K562 cells came from Central Laboratory of Henan Province People’s Hospital, and purchased from American Type Culture Collection (ATCC); Decitabine purchased from Chia Tai Tianqing Pharmaceutical Group (CTTQ); CCK-8 purchased from Vazyme Biotech Co., Ltd.; DNA Extraction Kit purchased from Sangon Biotech (Shanghai) Co., Ltd.; EZ RNA Methylation™ Kit and ZymoTaq™ DNA Polymerase purchased from Beijing Tianmo Sci&Tech Development Co., Ltd.; Q-RT-PCR Kit purchased from TaKaRa Bio; primers and probe sequences synthesized by Sangon Biotech (Shanghai) Co., Ltd.; PCR Amplification System adopted the Step one Plus RQ-RT-PCR System (Applied Biosystems); flow cytometry produced by Beckman Coulter, Inc.
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7

Triple-Negative Breast Cancer Biomarkers

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Thirty of breast cancer tissue samples were obtained from Taizhou central hospital (Taizhou, Zhejiang Province, China) from 2015 to 2017. The patients who had a definite histological diagnosis of triple-negative breast cancer on the basis of the American Joint Committee Cancer (AJCC) without prior medical therapy were recruited for this study. And they all received immunotherapy after surgery. Clinical follow-up within 3 years, 8 cases appeared recurrence and metastasis. All the samples were obtained with the patients’ informed consent. This study was approved with the Medical Ethics and Human Clinical Trial Committee of Taizhou Central Hospital.
Expression of genes in cancer tissues of breast cancer patients was detected using qRT-PCR kit (Takara, Dalian, China) according to the instructions. All the sequences are as follows: CCNA2, F: CAGAAAACCATTGGTCCCTC, R: CACTCACTGGCTTTTCATCTTC; GAPDH, F: GCACCGTCAAGGCTGAGAAC, R: TGGTGAAGACGCCAGTGGA.
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8

Quantitative Gene Expression Analysis

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Colon cancer cells in each treatment group were collected. Total RNA extraction kit (Invitrogen, Thermo Fisher Scientific, Inc.) was adopted to extract RNA complying with the protocol. β‐actin was taken as an internal reference. The reverse transcription kit (Takara, RR037A) was adopted to reversely transcribe the RNA, while qRT‐PCR kit (Takara, RR820A) was applied for quantitative analysis. Each sample has to be repeated at least three times. In the end, the relative expression was calculated using 2ΔΔCt. Table 1 lists the involved primer sequences.
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9

Quantifying Immune Gene Expression

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Total RNA was extracted using an RNA extraction kit (BioTeke catalog no. RP1202). After reverse transcription (TaKaRa catalog no. RR036A), the cDNA samples were detected by a qRT-PCR kit (TaKaRa catalog no. RR820A). The mRNA expression levels of Tlr4, Il10, Ifnγ, Il6, Il1β, and Il18 were normalized to that of Gapdh.
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10

Quantifying Gene Expression by qRT-PCR

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Total RNA was extracted from cells and tissues using RNAiso Plus total RNA extraction reagent (Takara Bio, Inc., Shiga, Japan) and complementary DNA was synthesized using a qRT-PCR kit (Takara) according to the manufacturer’s recommendations, using the following primer sequences: human glyceraldehyde 3-phosphate dehydrogenase (GAPDH) forward: 5′-CCA TGG AGA AGG CTG GGG-3′, reverse: 5′-CAA AGT TGT CAT GGA TGA CC-3′; human PSGL1 forward: 5′-TCC TCC TGT TGC TGA TCC TAC TG-3′, reverse: 5′-TAC TCA TAT TCG GTG GCC TGT CT-3′; mice GAPDH forward: 5′-TGG CCT TCC GTG TTC CTA C-3′, reverse: 5′-GAG TTG CTG TTG AAG TCG CA-3′; mice IL-6 forward: 5′-TAG TCC TTC CTA CCC CAA TTT CC-3′, reverse: 5′-TTG GTC CTT AGC CAC TCC TTC-3′; mice TNF-α forward: 5′-TAG CCC ACG TCG TAG CAA AC-3′, reverse: 5′-GCA GCC TTG TCC CTT GAA GA-3′; mice IFN-β forward: 5′-CTC CAC AGC CCT CTC-3′, reverse: 5′-CAT CTT CTC CGT CAT CTC CAT AG-3′. Relative changes in mRNA expression were normalized to that of GAPDH using the 2−ΔΔCt method.
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