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Trizol reagent

Manufactured by Sparkjade
Sourced in China

Trizol reagent is a monophasic solution of phenol, guanidine isothiocyanate, and other proprietary components. It is designed for the isolation of total RNA from various biological samples, including cells, tissues, and organs.

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20 protocols using trizol reagent

1

Quantitative Gene Expression Analysis in Cell Lines

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Total RNA in CAFs, FaDu cells, AMC–HN–8 cells, TU212 cells, and 5–8F cells was extracted using TRIzol reagent (SparkJade, China) according to the manufacturer's instructions. cDNA was synthesized using an Evo M-MLV Reverse transcription Kit (Applied Biological Materials, Canada). Quantitative PCR reactions were performed using a SYBR Green qPCR Mix kit (SparkJade, China) on a FTC-3000A fluorescence quantitative PCR instrument (Funglyn Biotech, Canada). Gene expression levels were quantified using the 2-ΔΔCT method based on CT values and normalized to a reference gene, GAPDH. All samples were prepared in triplicates, and the mean value was used for comparative analyses. The primers used for amplification of mRNA and genes were synthesized by Sango Biotech, China, and are listed in Supplementary Table 1.
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2

Evaluating Antioxidant Gene Expression

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The transcript levels
of the antioxidant genes HMOX1 and NQO1 were evaluated via qRT-PCR following 3 days of treatment, as detailed
in the preceding sections. Total RNA was extracted from each composite
using Trizol reagent (Sparkjade, China) as per the manufacturer’s
instructions. Subsequent cDNA synthesis was carried out using SPARKscript
II RT Plus Kit (Sparkjade, China), and qRT-PCR reactions were carried
out using 2x SYBR Green qPCR Mix (With ROX; Sparkjade, China) on a
LightCycler 480 real-time PCR machine (Roche, Switzerland).
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3

Quantitative RT-PCR protocol for gene expression

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Total RNA was isolated using TRIzol reagent (SparkJade, Harbin, China) according to the standard protocol. Then, the genomic DNA removal and cDNA synthesis were performed using All-In-One 5X RT MasterMix (abm, Zhenjiang, China). Primers used for qRT-PCR were designed by Integrated DNA Technologies (http://sg.idtdna.com/pages/home (31 July 2022)) (Table S1). The eif5a1 gene was used as the reference gene for standardizing the expressions of genes under testing [68 (link)]. The qRT-PCR analysis was performed under conditions as described previously [33 (link)]. The relative expressions of tested genes were calculated using the 2−ΔΔCt comparative Ct method. Statistical analysis of qRT-PCR results was performed using SPSS20.0, and differences with p < 0.05 were considered to be significant.
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4

Transcriptome Analysis of Dexamethasone-Treated Transformed HTMCs

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Transformed HTMCs were treated with DEX (400 nM) for 72 h before preparation of total RNA using the Trizol reagent (SparkJade, China). mRNA-seq was commercially performed by the Shanghai Sinomics Corporation (Shanghai, China). Briefly, paired-end libraries were synthesized using the TruSeq™ RNA Sample Preparation Kit (Illumina, USA) following the TruSeq™ RNA Sample Preparation Guide. Clustering was generated by cBot with the library diluted to 10 pM and then sequenced on an Illumina NovaSeq 6000 (Illumina, USA). Differential regulated genes were assigned by applying thresholds of log2FC≥1.5 and log2FC≤−1.5 with P < 0.05 and presented as a Volcano plot. To assess functional associations, differentially regulated gene data were uploaded to the STRING database (http://www.string-db.org/) to create a protein–protein interaction (PPI) network based on the TGFβ signaling and cellular senescence pathways.
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5

Gene Expression Analysis of Osteoblast Markers

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Reverse transcription was completed using the SPARKscript II RT Plus Kit (Sparkjade, Jinan, China), after total RNA was extracted using Trizol reagent (Sparkjade, China). Using 2 × SYBR Green qPCR Mix (With ROX) (Sparkjade, China), real-time PCR was performed on a LightCycler 480 real-time PCR machine (Roche, Basel, Switzerland). The exact primers (Azenta, Suzhou, China) were utilized to amplify the genes for Collagen I (Coli), alkaline phosphatase (Alp), runt-related transcription factor 2 (Runx2), and glyceraldehyde-3-phosphate dehydrogenase (Gapdh). Cycle threshold (Ct) values were utilized to compare relative mRNA expression, while Gapdh was used as an internal control. The experimental data were computed utilizing the 2−ΔΔCt approach [46 (link)]. Each experiment was repeated three times.
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6

Quantification of Telomerase mRNA Expression

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Total RNA was extracted with Trizol reagent (Sparkjade AC010, Jinan, China) and concentration of sample RNA was detected by a spectrophotometer. The reverse transcription kit (Sparkjade AG0304, Jinan, China) was used to reverse 1 μg RNA to cDNA. The real-time fluorescence quantitative PCR telomerase detection kit (KeyGen BioTech KGA1028R) was used to configure the qPCR mix 25 μL system according to the instructions. TRET and GAPDH genes were amplified by two steps: 95°C for 10 min, predenatured, 95°C for 15 s, annealed at 60°C and extended for 1 min, and amplified for 40 cycles. The relative expression of telomerase activity mRNA in each group was calculated according to the CT value. The primer sequences were as follows:
TRET: forward primer 5′-GACATGGAGAACAAGCTGTTTGC-3′; reverse primer 5′-ACAGGGAAGTTCACCACTGTC-3′; GAPDH: forward primer 5′-AGGTTGTCTCCTGTGACTTCAA-3′; reverse primer 5′-CTGTTGCTGTAGCCATATTCATTG-3′.
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7

Quantitative Real-Time PCR Analysis

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Total RNAs were isolated from cells using TRIzol reagent (SparkJade, Qingdao, China) according to the manufacturer's instructions. The concentration and purity of total RNAs were determined spectrophotometrically by measuring the absorbance at 260 nm and 280 nm using a UV spectrophotometer, and cDNA was produced using an ABI Veriti 96‐Well Thermal Cycler (Waltham, MA, USA) and FastQuant RT Kit with gDNase (Tiangen). Real‐time PCR was performed in an ABI QuantStudio3 PCR System (Waltham, MA, USA) using SYBR Green qPCR Master Mix and gene‐specific primers with an initial denaturation step at 95°C for 10 minutes followed by 40 cycles of 95°C for 15 seconds, 58°C for 30 seconds and 68°C for 60 seconds. The primers for qRT‐PCR are listed in Table 1. The fold change in the expression of targets relative to the housekeeping gene GAPDH was calculated based on the 2‐ΔΔCt relative expression formula.
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8

Profiling circRNAs, mRNAs, and miRNAs in Tissue Samples

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Total RNA was isolated from the tissue samples using Trizol reagent following manufacturer’s instructions (Sparkjade, Qingdao, China). Then 1 μg RNA of each sample was reverse-transcribed to obtain cDNA using SPARKscript II RT Plus Kit (With gDNA Eraser) (Sparkjade, Qingdao, China). The expression of circRNAs and mRNAs in these individual samples was performed by qRT-PCR reaction using SYBR Green qPCR Mix kit (With ROX) (Sparkjade, Qingdao, China) following: 94° C for 2 min, followed by 40 cycles of 95° C for 10 s and 60° C for 30 s. The extraction and amplification of miRNAs was performed according to the manufacturer’s instructions (SPARKeasy animal tissue/Cell microRNA kit, miRNA first strand synthesis kit and miRNA SYBR Green qPCR Mix kit, Sparkjade, Qingdao, China). All RT-qPCR were repeated three times. The relative expression of all genes was calculated using the 2-ΔΔCT method.
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9

Quantitative Analysis of Gene Expression

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Total RNA was extracted from mouse nasal mucosa and human peripheral blood mononuclear cells (PBMCs) using the Trizol reagent (SparkJade, Qingdao, China) and reverse transcribed into cDNA using a reverse transcription kit (Accurate Bio, Changsha, China). The qPCR step was performed using an SYBR Green qPCR Mix kit (SparkJade) in a StepOnePlus fluorescence quantitative PCR instrument (Applied Biosystems, Foster City, CA, United States). The expression levels of the genes encoding IL-4, IL-5, epidermal growth factor receptor (EGFR), mitogen-activated protein kinase 1 (MAPK1), and protein kinase B1 (AKT1) were detected. The relative expression level was calculated using the 2–ΔΔCT method (Livak and Schmittgen, 2001 (link)). The primers for mouse Egfr, Mapk1, and Akt1 and human IL4, IL5, EGFR, MAPK1, and AKT1 are listed in Supplementary Table 1.
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10

Quantifying Differential Gene Expression

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Total RNA was isolated from Fielder and their mutant young spike using TRIzol reagent (SparkJade, China) and cDNA was synthesized using RT SuperMix for qRT‐PCR (Vazyme, Nanjing, China). qRT‐PCR was performed with SYBR qRT‐PCR Master Mix (Vazyme) on a LightCycler® 480 Real‐Time PCR system (Roche, Rotkreuz, Switzerland). The expression of ubiquitin was used as the endogenous control to normalize the gene expression levels during different samples. Each sample was performed with three independent biological replicates and three technical repetitions. The gene expression level was calculated using the 2−ΔΔct method (Livak and Schmittgen, 2001 (link)). Primers used were listed in Table S10.
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