* Categories used to describe molecules
@ 2018-04-28 15:54 Dennis Stevenson
2018-04-29 14:17 ` David Spivak
2018-04-29 14:57 ` John Baez
0 siblings, 2 replies; 3+ messages in thread
From: Dennis Stevenson @ 2018-04-28 15:54 UTC (permalink / raw)
To: Categories List
I would appreciate references to the use of category theory to describe molecular structure and/or changes in molecules.
—
D. E. (Steve) Stevenson
Emeritus Associate Professor,
School of Computing, Clemson University
[For admin and other information see: http://www.mta.ca/~cat-dist/ ]
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* Re: Categories used to describe molecules
2018-04-28 15:54 Categories used to describe molecules Dennis Stevenson
@ 2018-04-29 14:17 ` David Spivak
2018-04-29 14:57 ` John Baez
1 sibling, 0 replies; 3+ messages in thread
From: David Spivak @ 2018-04-29 14:17 UTC (permalink / raw)
To: Dennis Stevenson; +Cc: Categories List
Here is a paper using operads as a language for forming proteins from
simpler proteins:
https://pubs.acs.org/doi/abs/10.1021/acsbiomaterials.5b00251
On Sat, Apr 28, 2018 at 11:54 AM, Dennis Stevenson <fatmarauder@gmail.com>
wrote:
> I would appreciate references to the use of category theory to describe
> molecular structure and/or changes in molecules.
>
> —
> D. E. (Steve) Stevenson
> Emeritus Associate Professor,
> School of Computing, Clemson University
>
>
[For admin and other information see: http://www.mta.ca/~cat-dist/ ]
^ permalink raw reply [flat|nested] 3+ messages in thread
* Re: Categories used to describe molecules
2018-04-28 15:54 Categories used to describe molecules Dennis Stevenson
2018-04-29 14:17 ` David Spivak
@ 2018-04-29 14:57 ` John Baez
1 sibling, 0 replies; 3+ messages in thread
From: John Baez @ 2018-04-29 14:57 UTC (permalink / raw)
To: categories
Hi -
Dennis Stevenson wrote:
> I would appreciate references to the use of category theory
> to describe molecular structure and/or changes in molecules.
I recommend the papers by Christoph Flamm and collaborators:
https://arxiv.org/search/?searchtype=author&query=%22Flamm%2C+Christoph%22
I heard Flamm and Merkle talk at "Dynamics, Thermodynamics and
Information Processing in Chemical Networks" in Luxembourg last year,
and I wrote:
> Merkle is speaking. This is the first talk I’ve seen where someone
> argues strongly for the usefulness of category theory, then explains
> the definition of pushouts, and then illustrates it with examples from
> organic chemistry! Good thing I’d explained the definition of ‘category’
> earlier in the day! Double-pushout graph rewriting applied to chemistry,
> and implemented in software that creates pictures of molecules using TikZ.
Best,
jb
[For admin and other information see: http://www.mta.ca/~cat-dist/ ]
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