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4 protocols using prism 7000 real time pcr system

1

Quantitative PCR Analysis of Hypoxia Markers

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Total RNA was extracted using TRIzol reagent (Invitrogen, CA, U.S.). Reverse transcription of cDNA was carried out using a RevertAid First Strand cDNA Synthesis Kit (Thermo Scientific, CA, U.S.). Gene-specific PCR amplification was performed with Power SYBR Green Master Mix on a Prism 7000 Real-Time PCR System (all from Applied Biosystems, CA, U.S.). Relative gene expression was calculated with the 2−ΔΔCt method after normalization to GAPDH expression. Primers for HIF-1α, vascular cell adhesion molecule-1 (VCAM-1), stromal cell-derived factor-1 (SDF-1), and insulin-like growth factor-1 (IGF-1), are listed in the Supplementary Table S1.
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2

Quantifying miR-181a-5p and SIRT1 Expression

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Total RNA from cells or tissues was extracted using Trizol reagent (Invitrogen, Carlsbad, CA, USA) according to the manufacturer’s instructions. In order to detect the mRNA level, PrimeScript™ RT reagent Kit (Takara, Japan) was used to transcribe 200 ng RNA to cDNA synthesis. Prism 7000 Real-Time PCR system (Applied Biosystems, USA) with SYBR Premix Ex Taq™ (TaKaRa, Shiga, Japan) were performed to measure the expressions of miR-181a-5p and SIRT1. GAPDH and U6 were performed as the internal controls. The cycle amplification conditions were as follows: 35 cycles of denaturing at 95˚C for 15sec, annealing at 60˚C for 60sec, chain extension step at 72˚C for 60sec and the final extension at 72˚C for 10 min. Primers were purchased from Sangon Biotech (Shanghai, China) and listed as following:
U6-forward, 5’GCTTCGGCAGCACATATACTAAAAT3’
reverse, 5’CGCTTCACGAATTTGCGTGTCAT3’;
GAPDH-forward, 5’CTTTGGTATCGTGGAAGGACTC3’;
reverse, 5’GTAGAGGCAGGGATGATGTTCT3’;
SIRT1-forward, 5’AATCCAGTCATTAAAGGTCTACAA3’;
reverse, 5’TAGGACCATTACTGCCAGAGG3’;
miR-181a-5p-forward, 5’CCGCGAACATTCAACGCTGTCG3’;
reverse, 5’ATCCAGTGCAGGGTCCGAGG-3’. The relative expression of target gene were calculated by relative quantification (2−ΔΔCt) method (25 (link)).
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3

Quantification of p21 and p53 mRNA

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Quantification of mRNA was performed using realtime PCR. Briefly, 5 μg of total RNA was reverse-transcribed using ReverTra Ace qPCR RT Master Mix (TOYOBO, Osaka, Japan). The resultant cDNA was subjected to real-time PCR analysis using a TaqMan Gene Expression Assay kit (Applied Biosystems, Tokyo, Japan). mRNA levels were determined using TaqMan assay mixtures for p21/Cip1 (Hs01121172), p53 (Hs01034249), and β-actin (4310881E). Amplification and quantification were performed using the PRISM 7000 Real-Time PCR System (Applied Biosystems). p21/Cip1 and p53 mRNA levels were normalized to those of β-actin as an internal control. Data were analyzed using Student's t-test.
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4

Quantification of miR-21 by RT-qPCR

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Quantification of miR-21 was performed using realtime PCR. Briefly, total RNA enriched with microR-NA was extracted from HK-2 and ACHN cells using a mirVana miRNA isolation kit (Life Technologies, Tokyo, Japan). Reverse transcription was performed using a TaqMan miRNA reverse transcription kit (Life Technologies) with 10 ng of total RNA. The resultant cDNA was then subjected to real-time PCR analysis using a TaqMan Gene Expression Assay kit (Life Technologies). miR-21 level was then determined via TaqMan assay mixtures (000397). Amplification and quantification were performed using a PRISM 7000 Real-Time PCR System (Applied Biosystems). Data were analyzed using Student's t-test.
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