[MeltSim] Question about strand concentration
Kenneth_Marx at uml.edu
Fri Mar 26 18:42:18 EDT 2010
Boy, I thought Paul Doty was old when he was at the Albany meeting ~6 yrs ago. He really does span 2-3 generations of DNA physical property researchers. Now I don't feel so old- although that won't last for long.
All the Best, Ken
From: meltsim-bounces at bioinformatics.org on behalf of richard blake
Sent: Fri 3/26/2010 5:58 PM
To: General discussions about MeltSim
Subject: Re: [MeltSim] Question about strand concentration
It was good to hear from you. Yes, things are going well, although at
a snail's pace as you can imagine.
I began research at Harvard in Paul Doty's laboratory with Jacques
Fresco in 1958, and one of my first experiments was to prepare
oligonucleotides and study their interaction with polynucleotides.
The way oligo-poly- complements interacted established the importance
of stacking forces. (I think I might have written a simple function
somewhere in my book to account for concentration). Such work was
carried out so long ago. I will be attending Paul Doty's 90th
birthday in June, can you imagine?
On Mar 26, 2010, at 5:01 PM, Marx, Kenneth wrote:
> Hi Dick,
> The literature's so old, I'm not sure I 've even seen papers on
> this. Good to hear from you. Hope things are going well.
> Regards, Ken
> From: meltsim-bounces at bioinformatics.org on behalf of richard blake
> Sent: Fri 3/26/2010 3:56 PM
> To: General discussions about MeltSim
> Subject: Re: [MeltSim] Question about strand concentration
> Strand concentrations are important only for short DNAs, of for DNA
> strands interacting with oligonucleotides. The effects of
> concentration are nil for DNAs longer than about 20-mers. The
> literature on the effects of concentration is ancient, perhaps fifty
> years old, but it is what some of us cut our teeth on.
> On Mar 25, 2010, at 12:06 PM, Zachary L Dwight wrote:
>> Is strand concentration not included as a parameter because the
>> range of concentrations most likely being used would have no effect
>> on the TM? Thanks so much,
>> Zach Dwight
>> Univ of Utah
>> Dept of Pathology
>> MeltSim maillist - MeltSim at bioinformatics.org
> MeltSim maillist - MeltSim at bioinformatics.org
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