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Sybr green master mixture

Manufactured by Takara Bio
Sourced in Japan, United States, China

SYBR Green Master Mixture is a ready-to-use solution for quantitative real-time PCR (qPCR) analysis. It contains SYBR Green I dye, which binds to double-stranded DNA, and all the necessary reagents for qPCR amplification and detection.

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25 protocols using sybr green master mixture

1

Detecting Cardiac and Lung Biomarkers

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The human cardiomyocyte cells (AC16) were obtained from Merk (Belize). The human lung cells (BEAS‐2B), bronchial cells (,16‐HBE) and lung cancer cells (A549) were from previously cryopreservation in our lab. Vero cells and Pierce BCA protein quantification kit were obtained from Thermo Fisher Scientific. High‐sensitivity cardiac troponin T (hs‐cTnT) and N‐terminal brain natriuretic peptide (NT‐proBNP) ELISA kits were purchased from R&D. Primary antibodies were obtained from Abcam and secondary antibodies were obtained from Santa Cruz. Tris‐buffered saline containing 0.05% Tween‐20 (TBST) was purchased from Double‐helix. Bovine serum albumin (BSA) was purchased from Sigma‐Aldrich. Alexa fluor 488‐labeled goat anti‐human IgG antibody was obtained from Jackson. Tris‐buffered saline containing 0.05% Tween‐20 (TBST) was purchased from double‐helix. Tetramethylbenzidine dihydrochloride (TMB) and sulfuric acid were purchased from Sangon. RNeasy Mini Kit was obtained from Qiagen, and SYBRGreen master mixture and PrimeScript™ RT Reverse Transcript Kit were both obtained from Takara. The primers used in this study were synthesized by Sangon.
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2

Gene Expression Analysis Protocol

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DMEM and FBS were from Thermo Fisher Scientific Inc. (Waltham, MA, USA). TRIzol reagent and Lipofectamine 2000 were from Invitrogen (Carlsbad, CA, USA). M-MLV Reverse Transcriptase was from Promega (Madison, WI, USA). SYBR Green Master Mixture was from Takara (Otsu, Japan). ECL-PLUS Kit was from GE Healthcare (Piscataway, NJ, USA).
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3

Quantitative RNA Expression Analysis

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Total RNA was extracted from GC cells using the TRIzol reagent according to manufacturer’s requirements (Thermo Fisher Scientific), and then cDNA was obtained after reverse transcription. RT-qPCR was performed with SYBR Green Master Mixture (Takara, Dalian, China). GAPDH was used as the control. Relative gene expression levels were calculated using the 2−ΔΔCt method. The experiment was repeated for three times.
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4

Quantifying Gene Expression via RT-qPCR

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TRIzol reagent (Invitrogen, Carlsbad, CA) was used to isolate total RNA from tissue samples and cell lines based on the product manual. Then cDNA was obtained after reverse transcription. RT-qPCR was performed with SYBR Green Master Mixture (Takara, Dalian, China). GAPDH was used as the control. Relative gene expression levels were calculated using the 2−ΔΔCt method. Primers for MRVI1-AS1: Forward: 5’-GCCCTGGTATTCCTTGAACA-3’, Reverse: 5’-TCAGTCCAGGAAGAGGT-3’. Primers for SKA1: Forward: 5’-CCTGAACCCGTAAAGAAGCCT-3’, Reverse: 5’-TCATGTACGAAGGAACACCATTG-3’. Primers for GAPDH: Forward: 5’-GGAGCGAGATCCCTCCAAAAT-3’, Reverse: 5’-GGCTGTTGTCATACTTCTCATGG-3’.
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5

Quantifying lncRNA XIST, miR-497-5p, and FOXK1

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Total RNA extraction was conducted using Trizol Reagent (Shanghai Pufei Biotech Co., Ltd., Shanghai, China). Reverse transcription into cDNA was conducted with Prime Script RT Master Mix (Takara Biotechnology Co., Ltd.) according to the manufacturer’s protocol. cDNA was obtained by reverse transcription after DNA elimination and amplified using SYBR Green Master Mixture (Takara, Otsu, Japan). The primer sequences are: LncRNA XIST: F: (5’-3’) AGC TCC TCG GAC AGC TGT AA; R: (5’-3’) CTC CAG ATA GCT GGC AAC C. miR-497-5p: F: (5’-3’) CCT TCA GCA GCA CAC TGT GG; R: (5’-3’) CAG TGC AGG GTC CGA GGT AT. FOXK1: F: (5’-3’) ACA CGT CTG GAG GAG ACA GC; R: (5’-3’) GAG AGG TTG TGC CGG ATA GA. GAPDH: F: (5’-3’) AAC GGA TTT GGT CGT ATT G; R: (5’-3’) GGA AGA TGG TGA TGG GAT T. The thermocycling conditions were applied as follows: denaturation at 95 °C for 5 min followed by 40 cycles at 95 °C for 30 sec, primer annealing at 60 °C for 30 sec, and primer extension at 72 °C for 5 min. Thermal cycling and real-time detection were conducted on a LightCycler 480 real-time PCR system (Roche, Indianapolis, Ind). The mRNA levels were calculated using the comparative (2−△△Ct) method.
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6

Cardiac Gene Expression Analysis by qPCR

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Myocardial total RNA was extracted with TRIzol reagent (Invitrogen; Thermo Fisher Scientific, Inc.). Complementary DNA was synthesized using the PrimeScript RT Master Mix kit (Takara Bio, Inc.) and then used for qPCR with a SYBR-Green Master Mixture (Takara Bio, Inc.) on the ABI StepOnePlus RT-PCR system (Applied Biosystems, Thermo Fisher Scientific, Inc.). The reverse transcription conditions were as follows: 37°C for 15 min and 85°C for 5 sec. The qPCR cycling conditions were as follows: 95°C for 10 min and 40 cycles of 95°C for 15 sec and 60°C for 15 sec. qPCR was performed with 3 replicates of each sample. The relative expression quantity was analyzed by normalizing to the GAPDH level and calculated with the 2−ΔΔCq method (38 (link)). The primers were as follows: 5′-AGG TCG GTG TGA ACG GAT TTG-3′ and 5′-AGG TCG GTG TGA ACG GAT TTG-3′ for GAPDH, 5′-GCT TCC AGG CCA TAT TGG AG-3′ and 5′-GGG GGC ATG ACC TCA TCT T-3′ for natriuretic peptide type A (ANP), 5′-GAG GTC ACT CCT ATC CTC TGG-3′ and 5′-GCC ATT TCC TCC GAC TTT TCT C-3′ for natriuretic peptide type B (BNP), 5′-ACT GTC AAC ACT AAG AGG GTC A-3′ and 5′-TTG GAT GAT TTG ATC TTC CAG GG-3′ for myosin heavy polypeptide 7 (β-MHC), 5′-GCT CCT CTT AGG GGC CAC T-3′ and 5′-CCA CGT CTC ACC ATT GGG G-3′ for collagen I, 5′-ACG TAG ATG AAT TGG GAT GCA G-3′ and 5′-GGG TTG GGG CAG TCT AGT G-3′ for collagen III.
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7

Regulation of PTPN13 by miR-30e in Lung Adenocarcinoma

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Human LAC tissues were collected from The Third Affiliated Hospital of Kunming Medical University. LAC cell lines (BEAS‐2B, A549. NCI‐2228, NCI‐H23, NCI‐H2085, NCI‐H2087. NCI‐H1993, NCI‐H522 and NCI‐H1975) used in our experiments were from Chinese Academy of Science Shanghai Cell Bank. Lentivirus‐mediated miR‐30e overexpression, miR‐30e shRNA and PTPN13 overexpression vectors, negative control vector (NC) and virion‐packaging elements were from Genechem (Shanghai, China); The primary antibodies of PTPN13 (rabbit monoclonal antibody, ab198882), β‐actin (mouse monoclonal antibody, ab8226), EGFR (rabbit monoclonal antibody, ab52894), AKT(rabbit polyclonal antibody, ab126811), p‐AKT(rabbit polyclonal antibody, ab18206) were from Abcam (Cambridge, MA, USA). The horseradish peroxidase‐linked second goat antibody was from Sigma Corporation (St Louis, MO, USA). Dulbecco's modified Eagle medium (DMEM) and foetal bovine serum (FBS) were from Thermo Fisher Scientific Inc (Waltham, MA, USA); 3‐(4,5)‐dimethylthiahiazo (‐z‐yl)‐3,5‐ di‐phenytetrazoliumromide (MTT) was from Dingguo biology (Shanghai, China); TRIzol reagent and lipofectamine 2000 were from Invitrogen (Carlsbad, CA, USA); M‐MLV Reverse Transcriptase was from Promega (Madison, WI, USA); SYBR Green Master Mixture was from Takara (Otsu, Japan). ECL‐PLUS/Kit was from GE Healthcare (Piscataway, NJ, USA).
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8

Sensitive qPCR Detection of Parasite DNA

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SYBR Green-based qPCR was used to quantify the parasite’s kinetoplast DNA (kDNA) in the liver for accurate sensitivity. Twenty microliters of PCR reaction consisted of SYBR Green master mixture (2×) from TaKaRa (Shiga, Japan), Milli-Q water, DNA template, and forward and reverse primers of kDNA. The initial qPCR setup consisted of an initial incubation for 2 min at 50°C followed by denaturation for 10 min at 95°C, 40 cycles for 15 s at 95°C, and 1 min at 60°C for each. The ABI SDS software was used to create standard curves, mean values, and amplification plots, and the melting temperatures of each amplicon were calculated using the same software. Negative controls, including a healthy control and no template controls, were included in each plate to address contamination concerns (37 (link)).
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9

Delphinidin Inhibits VEGFR2 Activity

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Delphinidin (>98% pure), a VEGFR2 inhibitor was obtained from Extrasynthase (Lyon, France). Dulbecco’s Modified Eagle medium (DMEM) and fetal bovine serum (FBS) were from Thermo Fisher Scientific Inc (Waltham, MA, USA); TRIzol Reagent and Lipofectamine 2000 were from Invitrogen (Carlsbad, CA, USA); M-MLV Reverse Transcriptase was from Promega (Madison, WI, USA); SYBR Green Master Mixture was from Takara (Otsu, Japan). ECL-PLUS/Kit was from GE Healthcare (Piscataway, NJ, USA). Cell apoptosis kit [Propidium Iodide (PI), RNase A, Annexin V-FITC] was from KeyGEN biology (Nanjing, China).
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10

Extraction and Quantification of RNAs

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Extraction of total RNAs from OS tissues and cells (U2OS and SAOS-2) was performed using TRIzol reagent (Invitrogen, CA, USA). After quantification with NanoDrop 2000 (Thermo Fisher Scientific), RNA samples were reverse-transcribed into cDNA using M-MLV Reverse Transcriptase (Promega, USA). SYBR Green Master Mixture (Takara, Dalian, China) on an ABI 7500 system (Applied Biosystems, USA) was used to evaluate the expression levels of LINC00662 and ITPR1. GAPDH acted as the internal control. SYBR PrimeScript miRNA RT-PCR Kit (Takara) on an ABI 7500 system was used to detect the expression of miR-16-5p. U6 acted as the internal control. Thermal cycles were as follows: 95°C for 30 s, 95°C for 5 s for 40 cycles, and 60°C for 35 s. Relative expression was detected using the 2−ΔΔCt method. The primers used in this study are shown as follows:

  LINC00662: Forward, 5′-CACGCTTCTGAAACTGGTGT-3′

  Reverse, 5′-TGTACAGCCTGGTGACAGAG-3′

  ITPR1: Forward, 5′-GAAGGCATCTTTGGAGGAAGT-3′

  Reverse, 5′-ACCCTGAGGA-AGGTTCTG-3′

  MiR-16-5p: Forward, 5′-TCCACTCTAGCAGCACGTAAAT-3′

  Reverse, 5′-TCACACTAAAGCAGCACAGTAAT-3′

  U6: Forward, 5′-CTCGCTTCGGCAGCACA-3′

  Reverse, 5′-AACGCTTCACGAATTTGCGT-3′

  GAPDH: Forward, 5′-ACAACTTTGGTATCGTGGAAGG-3′

  Reverse, 5′-GCCATCACGCCACAGTTTC-3′

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