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Specific pcr primers

Manufactured by Thermo Fisher Scientific
Sourced in United States

Specific PCR primers are short, synthetic DNA sequences designed to target and amplify specific regions of genetic material during a Polymerase Chain Reaction (PCR) process. They serve as the starting point for the DNA replication process, enabling the selective amplification of desired DNA sequences.

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8 protocols using specific pcr primers

1

CXCR7 mRNA Expression Quantification

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QRT‐PCR was carried out using the following conditions: initial denaturation for 10 min at 95°C, followed by 40 cycles of denaturation at 95°C for 3 sec, annealing at 60°C for 30 sec. The 2–ΔΔCt method was used to analyze the relative CXCR7 mRNA expression over the control group. Specific PCR primers for CXCR7 (forward:5′‐CACAGCACAGCCAGGAAGG‐3′; reverse:5′‐GTTCCCTGGCTCTGAGTAGTCGA‐3′), and for GAPDH (forward:5′‐AGCACCCCTGGCCAAGGTCA‐3′; reverse:5′‐GCAGTGGGGACACGGAAGGC‐3′) were used (ThermoFisher Scientific).
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2

Protein and Gene Expression Analysis

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Proteins were extracted and western blot was performed as previous described [18 (link)]. Total RNA was extracted using TRIzol reagent (Tiangen, China). cDNAs were reverse transcribed into mRNA through PrimeScript RT-polymerase (Vazyme). qRT-PCR was carried out by using SYBR-Green Premix (Vazyme) with specific PCR primers (ThermoFisher, USA), with Glyceraldehyde-3-phosphate dehydrogenase as an internal reference. The gene expression level was analyzed using the 2−ΔΔCt method. All steps of qRT-PCR follow the instructions.
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3

CXCR7 mRNA Expression Quantification

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QRT-PCR was carried out using the following conditions: initial denaturation for 10 min at 95°C, followed by 40 cycles of denaturation at 95°C for 3 s, annealing at 60°C for 30 s. The 2−ΔΔCt method was used to analyze the relative CXCR7 mRNA expression over the control group. Specific PCR primers for CXCR7 (forward:5′-CACAGCACAGCCAGGAAGG-3′; reverse:5′-GTTCCCTGGCTCTGAGTAGTCGA-3′), and for GAPDH (forward:5′-AGCACCCCTGGCCAAGGTCA-3′; reverse:5′-GCAGTGGGGACACGGAAGGC-3′) were used (ThermoFisher Scientific Inc.).
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4

Quantifying miR-214 and PSMD10 Expressions

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RNA was extracted from tissues or cells using TRIzol reagent (Thermo Fisher Scientific, Inc.) following the manufacturer’s protocol. Total RNA (2 µg) was reversed transcribed into cDNA using the TaqMan microRNA Reverse Transcription kit (Applied Biosystems; Thermo Fisher Scientific, Inc.). qPCR was performed in a Bio-Rad CFX96 Real-Time PCR System (Bio-Rad Laboratories, Inc., Hercules, CA, USA) using SYBR Premix Ex Taq kit (Takara Biotechnology Co., Ltd., Dalian, China) or TaqMan probes (Applied Biosystems; Thermo Fisher Scientific, Inc.), according to the manufacturer’s instructions. The thermo-cycling conditions were as follows: 95°C for 5 min followed by 45 cycles at 95°C for 10 sec and 55°C for 30 sec, then a melting curve analysis every 0.2°C from 55°C to 95°C for 2 min was obtained. Expressions were normalized to the levels of the internal reference gene GAPDH. Specific PCR primers were synthesized by Invitrogen and the sequences were as follows: miR-214 forward, 5′-TAT ACA TCA AAC AGC AGG CAC A-3′ and reverse, 5′-CAT TCG ATC TTC TCC ACA GTC TC-3′; PSMD10 forward, 5′-CGA GCT CTG GAA GGT TAA ACA GCT TGG A-3′ and reverse, 5′-GCT CTA GAA GAC TCA CAA CAG CCA CAG AA-3′; GAPDH forward, 5′-AAG AAG GTG GTG AAG CAG GC-3′ and reverse, 5′-TCC ACC ACC CTG TTG CTG TA-3′. The expression levels of miR-214 and PSMD10 were assessed using the 2−∆∆Cq method (22 (link)).
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5

Quantifying miR-125b and BMF Expression

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Total RNA was extracted from tissue or cells using TRIzol reagent (Invitrogen; Thermo Fisher Scientific, Inc.) according to the manufacturer's instructions. RNA was reversed-transcribed into cDNA using PrimeScript Reverse Transcription kit (Takara Bio, Inc., Otsu, Japan). The qRT-PCR reactions were performed using SYBR Premix Ex Taq (Takara Bio, Inc.) on a 7500 ABI system (Applied Biosystems; Thermo Fisher Scientific, Inc). U6-siRNA was used for normalization. Specific PCR primers were synthesized at Invitrogen; Thermo Fisher Scientific, Inc. The primer sequences used were as follows: miR-125b, 5′-TCCCTGAGACCTAACTTGTG-3′ (forward); U6, 5′-ACGCAAATTCGTGAAGCGTT-3′ (forward), a universal primer (reverse); BMF, 5′-CCCATAAGCCAGGAAGACAA-3′ (forward), and 5′-CTGAAGCTTTCTGGCGATTCT-3′ (reverse).
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6

Quantifying HULC and miR-218 Expression

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Total RNA was extracted from cultured cells using Trizol reagent (Invitrogen, USA) and reverse-transcribed to cDNA using a PrimeScript RT Reagent Kit (TaKaRa, China) following the manufacturer’s protocol. qRT-PCR was performed to amplify the cDNA template using the SYBR Green PCR kit (TaKaRa, China). The levels of HULC and miR-218 were normalized to those of U6. The mRNA level of TPD52 was normalized to GAPDH. Specific PCR primers were synthesized at Invitrogen, USA. The relative expression was calculated using the 2−ΔΔCT method.
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7

Total RNA Extraction and qPCR Analysis

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Total RNA was extracted from cells using TRIzol® Reagent (Life Technologies, Cat. No. 15596018), then cDNA was synthesized using ReverTra Ace® qPCR RT Master Mix (TOYOBO CO., LTD, Cat. No. FSQ-201). Quantitative real-time PCR was performed using Power Up™ SYBR™ Green Master Mix (Applied Biosystems, Cat. No. A25742) or THUNDERBIRD® Probe qPCR Mix (TOYOBO CO., LTD, Cat. No. QPS-101). As another procedure, using TaqMan™ Fast Advanced Cells-to-CT™ Kit (Invitrogen) in accordance with the manufacturer’s protocol, after cells were lysed cDNA was synthesized and then quantitative real-time PCR was performed. The TaqMan™ IDs (Applied Biosystems) of the gene expression assay were as follows: Gapdh (Mm99999915_g1), Alp (Mm00475834_m1), and Osteocalcin (Mm03413826_mH). Following are the sequences of the specific PCR primers (Life Technologies): Gapdh: 5ʹ-AAATGGTGAAGGTCGGTGG-3ʹ and 5ʹ-TGAAGGGGTCGTTGATGG-3ʹ, Npnt: 5ʹ-CACGAGTAATTACGGTTGACAACAG-3ʹ and 5ʹ-CTGCCGTGGAATGAACACAT-3ʹ.
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8

Quantitative microRNA Expression Analysis

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RNA was reverse transcribed to cDNA using the High-Capacity cDNA Reverse Transcription Kit (Life Technologies), MultiScribe Reverse Transcriptase (Life Technologies), RNase inhibitor (New England BioLabs), and microRNA specific primers (Life Technologies), for 10 min at 25 °C, 2 h at 37 °C and 5 s at 85 °C, followed by a cooling step at 4 °C. microRNA qPCR was carried out using TaqMan Universal PCR Master Mix, No AmpErase UNG (Life Technologies) with specific PCR primers (Life Technologies). Reactions were run on a ViiA7 real-time PCR System using Optical 96-Well Fast Plates (Life Technologies), for 10 min at 95 °C and then 40 cycles of 15 s at 95 °C and 1 min at 60 °C. Expression levels of microRNAs were normalised to the expression level of small nuclear RNA U6 (U6 snRNA) as internal control.
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