Talk:Real-time PCR: Difference between revisions

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==The Babel effect==
==The Babel effect==
There are several names for this technique. I chose Q-PCR because:
I originally thought to use Q-PCR as the title for a page describing QRT-PCR because:
* it's short (compare: quantitative reverse transcriptase PCR = QRT-PCR or RT-RT-PCR)
* it's short (compare: quantitative reverse transcriptase PCR = QRT-PCR or RT-RT-PCR)
* it indicates what this technique is about: quantification (would you know what the technique is for if you had never heard about it and just read the term "real time PCR"?)
* it indicates what this technique is about: quantification (would you know what the technique is for if you had never heard about it and just read the term "real time PCR"?)
Q-PCR with previous reverse transcription could be put separately but since Q-PCR is usually preceeded by RT, I thought it best to keep things together here.
Q-PCR with previous reverse transcription could be put separately but since Q-PCR is usually preceeded by RT, I thought it best to keep things together here.
[[User:Jasu|Jasu]] 13:47, 26 March 2007 (EDT)
[[User:Jasu|Jasu]] 13:47, 26 March 2007 (EDT), edited [[User:Jakob Suckale|Jakob Suckale]] 10:15, 14 January 2008 (CST)


*'''[[User:Reshma P. Shetty|Reshma]] 15:37, 9 October 2007 (CDT)''': I think it might be worth distinguishing between the different variants of quantitative PCR.  You're right that Q-PCR is normally preceded by reverse transcription and that normally when people talk about Q-PCR, they mean real time PCR.  But neither of these has to be the case.  So it might be worth making the Q-PCR page discuss all the variants so that people can understand what each variant does.
*'''[[User:Reshma P. Shetty|Reshma]] 15:37, 9 October 2007 (CDT)''': I think it might be worth distinguishing between the different variants of quantitative PCR.  You're right that Q-PCR is normally preceded by reverse transcription and that normally when people talk about Q-PCR, they mean real time PCR.  But neither of these has to be the case.  So it might be worth making the Q-PCR page discuss all the variants so that people can understand what each variant does.
:* Hi Reshma, you do have a point that quantitative PCR is not always ''real time reverse transcribed PCR'' and this is why we should have different pages. I do, however, think that most people looking for qPCR actually mean ''real time reverse transcribed/transcription PCR'', since endpoint PCR is not used much anymore especially for publication data. The same is probably true for real-time PCR which in most cases also means real-time PCR of cDNA/reverse transcribed RNA. I'll make sure to link these pages to [[PCR techniques]] as a central reference point to reduce the confusion created by these terms. [[User:Jakob Suckale|Jakob Suckale]] 10:15, 14 January 2008 (CST)
*'''[[User:Reshma P. Shetty|Reshma]] 16:20, 9 October 2007 (CDT)''': I moved some pages around.  See [[PCR techniques]] for the complete list.


==Thanks==
==Thanks==
[[Image:Sunflower thanks.png]] Mille grazie a Mile. Vielen Dank an Sandra. Thanks for getting me started with Q-PCR. [[User:Jasu|Jasu]] 10:37, 26 March 2007 (EDT)
[[Image:Sunflower thanks.png]] Mille grazie a Mile. Vielen Dank an Sandra. Thanks for getting me started with Q-PCR. [[User:Jasu|Jasu]] 10:37, 26 March 2007 (EDT)
==Reference genes==
===Stability===
*'''[[User:Ajeffs|Ajeffs]] 06:55, 21 April 2007 (EDT):''' In addition to the given requirements of good (well, acceptable) specificity and efficiency of the reference gene primers, the next most important aspect of reference gene selection is stability. I don't care if the CT value of my reference genes (yes, genes, not gene) is close to the target genes/s or not - as long as the efficiency of all the primers is similar, and they are all working within their respective limits of detection i.e. linear range, then the stability of the reference genes between samples, treatments, etc. is the most crucial aspect of generating believable qPCR results.
===Selection===
*'''[[User:Ajeffs|Ajeffs]] 06:55, 21 April 2007 (EDT):''' Screen a handful of ref genes, select the most stable using genorm, bestkeeper etc, use at least 2 reference genes for subsequent reactions and normalisation. Inlcude your genorm M values when publishing qPCR data.
===18S===
*'''[[User:Ajeffs|Ajeffs]] 06:55, 21 April 2007 (EDT):''' 18S is generally a terrible choice for a reference gene thanks to the combination of (i) high abundance (creating a 1:100 dilution of template to run in parallel with neat template just for 18S is a complete drag); and (ii) having different degradation characteristics to mRNAs (it appears to be more resistant to degradation). However, if you can show that you have screened 5-10 reference genes, and 18S is still the best for your specific situation then so be it (but do try 28S if you or you PI is hung-up on 18S).

Latest revision as of 09:15, 14 January 2008

The Babel effect

I originally thought to use Q-PCR as the title for a page describing QRT-PCR because:

  • it's short (compare: quantitative reverse transcriptase PCR = QRT-PCR or RT-RT-PCR)
  • it indicates what this technique is about: quantification (would you know what the technique is for if you had never heard about it and just read the term "real time PCR"?)

Q-PCR with previous reverse transcription could be put separately but since Q-PCR is usually preceeded by RT, I thought it best to keep things together here. Jasu 13:47, 26 March 2007 (EDT), edited Jakob Suckale 10:15, 14 January 2008 (CST)

  • Reshma 15:37, 9 October 2007 (CDT): I think it might be worth distinguishing between the different variants of quantitative PCR. You're right that Q-PCR is normally preceded by reverse transcription and that normally when people talk about Q-PCR, they mean real time PCR. But neither of these has to be the case. So it might be worth making the Q-PCR page discuss all the variants so that people can understand what each variant does.
  • Hi Reshma, you do have a point that quantitative PCR is not always real time reverse transcribed PCR and this is why we should have different pages. I do, however, think that most people looking for qPCR actually mean real time reverse transcribed/transcription PCR, since endpoint PCR is not used much anymore especially for publication data. The same is probably true for real-time PCR which in most cases also means real-time PCR of cDNA/reverse transcribed RNA. I'll make sure to link these pages to PCR techniques as a central reference point to reduce the confusion created by these terms. Jakob Suckale 10:15, 14 January 2008 (CST)
  • Reshma 16:20, 9 October 2007 (CDT): I moved some pages around. See PCR techniques for the complete list.

Thanks

Mille grazie a Mile. Vielen Dank an Sandra. Thanks for getting me started with Q-PCR. Jasu 10:37, 26 March 2007 (EDT)