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A 2 µl aliquot of the reverse transcription solution was used as a template for specific PCR.
Using 1 μl reverse transcription solution and gene-specific primers (Qiagen, Mississauga, ON, Canada), PCR was performed in a 25 μl reaction Supermix (BioRad Laboratories).
After in situ reverse transcription, solution over the tissue section was recovered and the cDNA contained in this solution was amplified using standard liquid-phase PCR.
The mRNA immobilized on the magnetic beads was extracted from the cell lysis droplet with an externally applied magnetic force and sequentially transferred into droplets of washing solution 1, washing solution 2 and the reverse transcription solution.
A 4 μl aliquot of this reverse transcription solution was used for PCR using 50 pmol of each specific primer, 10 mmol dNTP (Invitrogen), 1.5 mmol/l MgCl2 (Invitrogen), and 10 × PCR buffer (Invitrogen) in a total volume of 50 μl (see Table 2 for PCR amplification conditions).
After incubation, each mixture was added to 5 μl reverse transcription solution (2 μl 5X first strand buffer, 1 μl DTT at 20 mM, 1 μl dNTPs at 10 mM each, and 1 μl mint reverse transcriptase), incubated at 42°C for 30 min, and then incubated with IP-solution (solution for incorporation of the PlugOligo sequence) for 1.5 hr at 42°C.
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One hundred ng of RNA from each sample was primed with random primers before addition of a reverse-transcription solution [5x buffer, Ribolock, 500 μM deoxyribose nucleoside triphosphates (dNTPs) (Life Technologies, Carlsbad, CA, USA) Maxima polymerase].
The RNA sample was reverse-transcribed at 42°C for 60 min into first-strand cDNA in reverse-transcription solution (400 U of Moloney murine leukaemia virus reverse transcriptase (Life Technologies, Inc ., 50 m M Tris-HCl (pH 8.3), 75 m M KCl, 3 m M MgCl2, 0.01 M DTT, 0.5 m M each dNTP, and 16 U of RNasin (Promega, Madison, WI, USA) with a total volume of 100 μl.
One microliter of the reverse transcription reaction solution was used as a template in a 25 μL PCR solution.
To synthesize cDNA, a reverse transcription reaction solution containing 1.0 µg total RNA in RNase/DNase-free water and 1.5 µl of random hexamer primer (GeNeiTM, Bangalore) were incubated for 10 min at 72°C and chilled immediately.
Reverse transcription reaction solution (20 μL) consisted of 2 μg of total RNA, 100 U of MMLV (Moloney Murine Leukemia Virus) reverse transcriptase (Toyobo, Osaka, Japan), 20 U of an RNAse inhibitor (Toyobo, Osaka, Japan), 0.5 mmol/L of deoxyribonucleotide triphosphates (dNTP) (Toyobo, Osaka, Japan), and 0.5 μL oligo-dT primers.
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