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4 protocols using quantstudio 7 flex real

1

Quantitative RT-PCR of C. elegans genes

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Total RNA was extracted from well-fed worms using Trizol reagent (Invitrogen), and contaminating DNA was removed by DNase. 500 ng of total RNA was used for reverse transcription with oligo dT as primers. The reverse transcription products (cDNA) were diluted (1:5), and 2 µl of the diluted cDNA was used as the template for quantitative PCR in a 20-µl reaction mixture. For quantitative RT-PCR, FastStart Universal SYBR Green Master (Roche) was used on an Applied Biosystems QuantStudio 7 Flex real-time PCR system. The gene act-1 was used as the internal reference. At least three independent repeats were done with 3 replications each time. The primers used for the quantitative PCR were as follows: act-1, forward primer, 5′-ATATGCCCTCCCACACGCCA-3′; reverse primer, 5′-AGCGGCGGTGGCCATTTCTT-3′; vps-34, forward primer, 5′-GTCGATTCTGCCTACCGGAT-3′; reverse primer, 5′-GGAGGCGTTGTTCGATCTTG-3′.
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Quantitative Analysis of Inflammatory Gene Expression

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To measure the mRNA levels of related genes, total RNA was extracted utilizing TransZol Up (TransGen Biotech, Beijing, China). Subsequently, the specimens were applied to reverse-transcribes into cDNA by the cDNA Synthesis SuperMix (Transgen, China) and EasyScript®One-Step gDNA Removal for subsequent experiments. ChamQ SYBR qPCR Master Mix (Vazyme, Nanjing, China) was used to determine mRNA levels. The primers of HMGB1, MYD88, TLR4, NF-κB, IL-1β, IL-6, IL-18, TNF-α, NLRP3, ASC and caspase-1 were engineered by Primer Premier software. All reactions were performed employing a Quant Studio 7 Flex real-time PCR system (ABI 7900HT Applied Biosystems, Bedford, MA, USA). The primer sequences were listed in Table 1. GAPDH was regarded as a house-keeping gene, and the relative changes in gene mRNA levels were evaluated by the 2−ΔΔCT method.
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3

Quantifying Murine and Human PRLR Isoforms

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RNA was extracted using a kit (NucleoSpin® RNA Plus, MACHERY-NAGEL) according to manufacturer’s instructions. cDNA was synthesized using SuperScript™ IV Reverse Transcriptase (Invitrogen). qPCR was conducted using Power SYBR Green PCR master mix (ThermoFisher Scientific) and QuantStudio 7 flex real-time PCR system (Applied Biosystems). Supplementary Table 1b lists qPCR primers.
Total murine Prlr = LF + SF3 (SF1 and SF2 were not expressed in splenocytes and B cells). Total human PRLR = LF + IF + SF1a + SF1b. There is a huge degree of variability in the absolute expression of the isoforms across individual mice in each strain. To account for this variability and to most accurately predict changes in pro-proliferative, anti-apoptotic effects of PRLRs in cells after LFPRLR knockdown, expression of PRLR isoforms in each mouse was represented as the ratio of LFPRLR: total PRLR. An exception to calculating the ratio is made in instances where the cells express only LF/IFPRLR, as in some malignant human B cells.
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4

Investigating miRNA Expression in NSCLC and CAFs Co-Culture

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CAFs co-cultured with/without NSCLC cells were collected, and the total RNA was extracted using the TRIzol™ reagent (Thermo Fisher Scientific, Waltham, MA, USA). Then the miRNAs expression was analyzed by TaqMan® MicroRNA arrays (384-Well Microfluidic Cards) on the Quantstudio™ 7 Flex real-time PCR instrument (Applied Biosystems®, ThermoFisher Scientific, Waltham, MA, USA). The quantification of RNA was determined by Spectrophotometry and Agilent Bioanalyzer (Agilent Technologies, Santa Clara CA). The differential expression genes were screened by the R programme, bayesian test and fold change.
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