HDTenEightyP/NetNews huggingface dataset:
From: zauhar@SHIVA.PSU.EDU (Dr. Randy Zauhar)
Newsgroups: bionet.info-theory
Subject: Entropy at 0K (again)
Date: 10 Nov 92 19:48:33 GMT
Distribution: bionet

In article <9211101510.AA04425@shiva.psu.edu> zauhar@SHIVA.PSU.EDU
(Dr. Randy Zauhar) writes:
>  The entropy of a system is related to the volume of phase space it 
>occupies. A perfect crystal and a disordered structure both occupy the 
>same phase space volume (ignoring zero-point energy) at 0K - namely 
>ZERO. Why then don't they both have the same entropy (what does the
>particular arrangement of atoms have to do with anything?)

Marc Roussel replies:

>     I think I know what you're getting at (in fact I think this is one
>of the paradoxes that lead to Q.M. in the first place) but perhaps you
>could flesh out the phase space argument to make sure that we are all
>talking the same language.  If you would construct the phase space whose
>volume has a simple relationship to the entropy and point out this
>relationship, we should be able to clear this up quickly.
>     The stock answer of course is that the statistical definition of
>entropy tells us that, for a microcanonical ensemble, S vanishes only if
>the number of microscopic configurations yielding the ensemble energy
>reduces to one.  (A minor quibble:  Is a crystal at 0K a member of a
>microcanonical ensemble?  I don't know but the only other reasonable
>ensemble to which such a crystal could belong, the canonical ensemble,
>also has statistics which suggest that S vanishes only if the number of
>configurations reduces to 1.  I'm inclined to think that systems at 0K
>should really be members of microcanonical ensembles since a canonical ensemble
>requires a heat bath and I can't easily conceive of a 0K heat bath.)
>The arrangement of the atoms certainly matters in counting the
>microscopic configurations.  For an example with both calculations and
>experimental results, consult Moore's "Basic Physical Chemistry"

The picture I had in mind was the probability distribution in phase space 
(really, configuration space) and the relation between this distribution and
the entropy through the configuration integral. If you are at 0 K, then there
is only one state (classically), and the probability distribution collapses
to a delta function. (This is exactly the same has having one allowed state
in the "discrete view".) The configurational entropy appears the same in 
either case.

I think what I was not thinking about was the definition of entropy in 
terms of a STANDARD STATE as pointed out by another contributor. The
entropy _change_ is the only thing you measure when heating the system
from zero K. The absolute zero of _entropy_ has to be agreed on for a 
specified state, and obviously you can only "specify" a perfect 
crystalline state.   

Do I have it right, or am I fooling myself??

  Randy Zauhar
From: kjm@buc.edu.au (Kevin Moore)
Newsgroups: bionet.info-theory
Subject: Re: Trouble at the 0K corral!
Date: 13 Nov 92 15:22:40 GMT
Distribution: bionet


In article <9211121817.AA10338@net.bio.net>
mroussel@alchemy.chem.utoronto.ca (Marc Roussel) writes

>     To be honest, I think that we're running into this problem because
> absolute zero is mislabeled.  We should have called it -infinity and
> then no one would worry about what happens there.
> 
> 				  Marc R. Roussel
>                                 mroussel@alchemy.chem.utoronto.ca

Indeed, if you look at just about any derivation of statistical mechanics,
$\beta$ appears as a much more natural parameter by which to describe
thermal properties which are currently described by temperature. But
without the current conventions we couldn't have non-productive arguments
about what happens at absolute zero, could we?

Kevin Moore
kjm@buc.edu.au
From: toms@fcs260c2.ncifcrf.gov (Tom Schneider)
Newsgroups: bionet.info-theory
Subject: Re: Entropy at 0K
Date: 11 Nov 92 00:30:06 GMT
Distribution: bionet
Organization: Frederick Cancer Research and Development Center

In article <1992Nov10.170046.18037@hellgate.utah.edu>
tolman%asylum.cs.utah.edu@cs.utah.edu (Kenneth Tolman) writes:

|  If there DID exist a zero degree object, it could contain different
|amounts of information.  We could encode in its arrangement some number
|of bits.  Therefore, if entropy has any direct relationship to information
|it must have different values for different arrangements.  Thus, either
|we must abandon a direct relationship between entropy/information and
|question Szilard, or question our tables of zero degree entropy.

So you'll have to abandon the idea that there is a direct (ie, one to one,
proportional) relationship between entropy and information!  :-)  It's indirect
- information gain (in my book) is always a change (decrease) in uncertainty
between two states of a system.  Uncertainty is proportional to the entropy of
the system when the probabilities referred to are the same.

I think the point is, though, that absolute zero is defined as the case where
all the pennies are heads, and they are motionless -- that's the perfect
crystal.  If some are tails it's not perfect.  (Substitute 'atoms' for pennies
and 'spin up' for 'heads' if you are a sticker ;-)

By the way, were are these tables of "zero degree entropy"?  The ones I know
about are for 25 C.

  Tom Schneider
  National Cancer Institute
  Laboratory of Mathematical Biology
  Frederick, Maryland  21702-1201
  toms@ncifcrf.gov
Newsgroups: bionet.info-theory
From: samodena@csemail.cropsci.ncsu.edu (S. A. Modena)
Subject: Re: test from sys mgr @ncifcrf.gov
Organization: Crop Science Dept., NCSU, Raleigh, NC 27695-7620
Distribution: usa
Date: Fri, 6 Nov 1992 05:07:02 GMT

In article <Bx9LFq.GoM@ncifcrf.gov> scott@fcs260c.ncifcrf.gov (Michael Scott) writes:
>
>Sorry to bother you but I am trying to debug a problem with posting
>to this newsgroup.  Our users do not seem to be able to post to this
>news group.  If anyone sees this message please respond to me by email.
>
>Thanks for the help.
>
>Mike Scott


You signal and Tom's signal are being heard at NCSU down here in the
Carolinas!  :^)
>
>--
>
>
>-- 
>	E-mail:		scott@ncifcrf.gov ,Phone #:	(301) 846-5798
>        Title:  	Sr. Systems Manager/Analyst
From: preissj@CLVAX1.CL.MSU.EDU ("J Preiss--Seq Anal")
Newsgroups: bionet.general
Subject: the worlds largest living thing?
Date: 12 Nov 92 04:43:00 GMT
Distribution: bionet

Hi Netters

	My brother just told me that when he comes to visit me in Michigan,
the one thing he wants to see is the worlds largest living organism, which
happens to live in MI!
	
Questions:

1.	What is the worlds largest living organism?

2.	Is it true that there is a fungal mycelium spreading over 37 acres
	of MI which is a contender for the title?

3.	What is the species (he thinks it's Armilaria borealis) of this 
	monster?

4.	What is the location of this mystical beast?

Any help will be appreciated.  Thanks in advance, and appologies to my old
college mycology proffessor.

Lenny Bloksberg
PreissJ@clvax1.cl.msu.edu
Dept of Biochemistry
Michigan State University


Newsgroups: bionet.general,sci.lang,sci.philosophy
From: martin@ai.univie.ac.at (Martin Rotter)
Subject: Osteology - translation of Goethe needed
Keywords: osteology, Goethe, anatomy
Organization: Dept.of Theoretical Biology,Prof.Riedl,Univ.Vienna,Austria,Europe
Date: Fri, 6 Nov 1992 16:22:38 GMT

Hello,

We are interested in understanding Goethe's ideas on the comparative
method in biology.
Has the following been translated into english:
>> Lectures on the first three chapters of a first draft of a general
introduction into comparative anatomy starting from osteology <<

We need it in English for one of our postdocs, Terri Williams,
who has been invited to Vienna to work on the topic.

You could be of great help to us, sending a mail 
whether and where any translation could be found, to

martin@ai.univie.ac.at      or to           a8731daq@vm.univie.ac.at

Thanks a Lot!
From: L.BERTSCHINGER@CGNET.COM ("L. Bertschinger, CIMMYT")
Newsgroups: bionet.general
Subject: Info on C. juncea and S. aculeata
Date: 11 Nov 92 22:02:52 GMT
Distribution: bionet

We have currently some plants of the species Crotalaria juncea
and Sesbania aculeata in the greenhouse (two seed trays).
Almost all of the plants of C. juncea display some virus-like
symptoms: Chlorosis, calico, mottling, flecking. Few plants of
S. aculeata display some necrotic spots on the leave blades.

Do these symptoms look familiar to anybody (nutrient deficiency,
virus, viroids, MLOs etc., seed transmission of these agents)?

Thanks for an answer in advance.
____
L. Bertschinger, Virologist
International Maiz and Wheat Improvement Center (CIMMYT)
Apartado Postal 6-641, 06600 Mexico, D. F., MEXICO
Tels. (595) 42100/42011 ; FAX (595) 41069
Internet: l.bertschinger@cgnet.com
CGNET   : l.bertschinger
Newsgroups: bionet.general
From: khofmann@biomed.biolan.uni-koeln.de
Subject: Re: Seeking PD protein analysis software
Reply-To: khofmann@biomed.biolan.uni-koeln.de
Organization: Biochemical Institute, Cologne University
Date: Wed, 11 Nov 92 10:46:04 GMT

In article <7794@lib.tmc.edu>, dfenyes@thesis1.med.uth.tmc.edu (David Fenyes,ms89,,7901935) writes:
>Hello,
>
>I'm desperately looking for a collection of public domain programs
>to analyse protein and DNA sequences on a DOS or *nix platform.
>I'd be grateful for any information.
>
For a PD protein analysis program try PROFILEGRAPH,
it is available bye ftp from biomed.biolan.uni-koeln.de
                             ftp.embl-heidelberg.de
                             ftp.bio.indiana.edu
                             and possibly a number of other sites.
The site in COlogne holds the most recent version.

The program has been described in
CABIOS, 8:331-337 (1992)

Best regards,
                Kay
From: rodrigol@ulrik.uio.no (Rodrigo Lopez)
Newsgroups: embnet.general,bionet.general
Subject: Congratulation s
Date: 13 Nov 92 07:27:12 GMT
Reply-To: rodrigol@ulrik.uio.no (Rodrigo Lopez)
Organization: University of Oslo

This message arived this morning:


Date: Fri, 13 Nov 1992 00:13:51 +0100
From: Amos Bairoch <BAIROCH@cmu.unige.ch>
To: rodrigol@ulrik.uio.no
Subject: Colin

At last !
After having made us wait for 12 days [*], Colin is born this morning of
November 12th at 9 AM. He is a very nice and healthy baby of 3.5 Kg.
Martine is also in good shape and the birth took place very quickly.

Amos

[*] He probably inherited from me the knowledge that software or databases
    are available later than the predicted release date and decided that it
    should also apply to him !



CONGRATULATIONS!!!!!

Glad to hear all is well.
From: kristoff@net.bio.net (David Kristofferson)
Newsgroups: bionet.general
Subject: Re: Bionet FAQ (new, improved!)
Date: 11 Nov 92 23:41:55 GMT
Organization: BIOSCI International Newsgroups for Biology

Una's FAQ sheet draft is available for FTP from net.bio.net in
pub/BIOSCI/biosci.FAQ.

				Sincerely,

				Dave Kristofferson
				BIOSCI/bionet Manager

				kristoff@net.bio.net

Newsgroups: bionet.general
From: abigail@ramsey.cs.laurentian.ca (Shawn Abigail)
Newsgroups: bionet.general
Subject: Codon Table Thank you
Summary: Thanks
Keywords: codon
Date: 9 Nov 92 19:12:48 GMT
Organization: Dept. of Computer Science, Laurentian University, Sudbury, ON


I just wanted to say thanks to all the people who have provided me with
codon table information.  You have made my life MUCH easier!

Shawn Abigail
abigail@ramsey.cs.laurentian.ca
From: bsh@MED.PITT.EDU (Basavaraju Shankarappa)
Newsgroups: bionet.general
Subject: Re:  Codon tables
Date: 9 Nov 92 13:51:22 GMT
Distribution: bionet

The following was posted some time back on methods-and-reagents.
I think it will be of some help to you.
Good luck
Raj Shankarappa
bsh@med.pitt.edu


A request was made for information about codon usage tables in electronic form.

There are codon usage tables for many species available by anonymous ftp
from ftp.bio.indiana.edu in the molbio/codon directory.  It is my understanding
that these will work without modification with the GCG package.
Kudos go to Mike Cherry for creating the tables and Don Gilbert for the ftp 
site.

These tables are also available at modl.unibas.ch, nic.funet.fi, and the
EMBL netserver. Thus Kudos also go out to Reinhard Doelz, Rob Harper, 
and the EMBL staff.

Dan Jacobson

danj@welchgate.welch.jhu.edu
From: A.J.Bleasby@daresbury.ac.uk (Alan Bleasby)
Newsgroups: bionet.general
Subject: EMAIL server at Daresbury down
Date: 8 Nov 92 23:00:37 GMT
Distribution: bionet
Organization: SERC Daresbury Laboratory, Warrington, UK

Owing to a hardware failure on Sunday 8th November the Europe/Asia/Africa
email connection is down. We hope to rectify this within 24 hrs.

Please note that NEWS messages will be queued and therefore not lost... just
delayed in getting to a wider audience. Similarly email from this side of
the pond will also be queued.

Email subscribers in Europe/Asia/Africa will not see this message until the
problem has been fixed.

Apologies for the inconvenience.

Rgds

Alan Bleasby
SERC Daresbury Laboratory
Warrington WA4 4AD
UK

Email: a.bleasby@seqnet.daresbury.ac.uk
From: dfenyes@thesis1.med.uth.tmc.edu (David Fenyes,ms89,,7901935)
Newsgroups: bionet.general
Subject: Seeking PD protein analysis software
Date: 9 Nov 92 23:12:47 GMT
Organization: University of Texas Medical School at Houston

Hello,

I'm desperately looking for a collection of public domain programs
to analyse protein and DNA sequences on a DOS or *nix platform.
I'd be grateful for any information.

Thanks,

David
--
David Fenyes                                 dfenyes@thesis1.med.uth.tmc.edu
University of Texas Medical School           Houston, Texas
Newsgroups: bionet.general
From: Jens.Burkert@arbi.informatik.uni-oldenburg.de (Jens Burkert)
Subject: wanted: neural spike trains
Organization: University of Oldenburg, Germany
Date: Mon, 9 Nov 1992 13:28:55 GMT
Summary: spike trains wanted
Keywords: neural spike train

Hello!

I'm looking for spike train data produced from real neurons.

It is for the analyse of stochastic point processe described by Perkel,
Gerstein and Moor (1967) and crosscorrellation analyse.

Spike trains from two interacting (inhibitory or excitatory)
pacemaker (or other) neurons would be very welcome.

The organisation of the data should be in Intervals
e.g.
|   |   |    |   |        <-  neuronal spike train
 10  10  15   10      ms
or 
|   |   |    |   |
0   10  20   35  45  ms

also floating point.

Thank you
Jens Burkert

-- 
Jens Burkert (jens)     *    Abteilung Prozessinformatik
Universitaet Oldenburg   *   DW-2900 Oldenburg  (FRG)
EARN:  Jens.Burkert%arbi.informatik.uni-oldenburg.de@DOLUNI1
ISO:  Jens.Burkert@arbi.informatik.uni-oldenburg.de
Newsgroups: bionet.general
From: abigail@ramsey.cs.laurentian.ca (Shawn Abigail)
Subject: Codon tables
Summary: Where can I find codon tables?
Keywords: codon
Organization: Dept. of Computer Science, Laurentian University, Sudbury, ON
Date: Mon, 9 Nov 1992 13:20:42 GMT


I am looking for the codon tables for various organisms.  I know that
the codon tables are different for the "universal code", mammalian
mitochrondia, yeast mitochondria, etc.  Can anyone give me a reference
that would have all these codes, as well as the codes for other, more
obscure organisms?  Thanks.

Shawn Abigail
abigail@ramsey.cs.laurentian.ca
From: L.BERTSCHINGER@CGNET.COM ("L. Bertschinger, CIMMYT")
Newsgroups: bionet.general
Subject: Establish usersgroup
Date: 12 Nov 92 15:09:33 GMT
Distribution: bionet


CIMMYT may be interested in the future to establish a new
usersgroup connecting people studying barley yellow dwarf
viruses or cereal viruses in general.

Please let me know what CIMMYT would need to pay BIOSCI for
the establishment of such a usersgroup and its administration.
______
L. Bertschinger
CIMMYT, Apdo Postal 6-641, 06600 Mexico, D. F., Mexico
Tels. (595) 42100/42011; Fax (595) 41069
E-mail (Internet): l.bertschinger@cgnet.com; (Cgnet): l.bertschinger
From: chend@ucs.orst.edu (Donald Chen - Microbiology)
Newsgroups: bionet.general
Subject: Mac files via ftp
Date: 6 Nov 92 20:54:35 GMT
Organization: University Computing Services - OSU

Hi

A friend would like to know, as would I, how to get files
destined for a mac via ftp.  I am familar with getting
them for ibms, as well as setting switches such as bin and
tenex.
What are the comparable parameters for a Mac? Are mac files
compressed differently?  What is an hqx file?  Does this mean
I need some type of mac version of kermit? Is there a FAQlist
for macs and their ilk?

Thanks for any help.  Please reply via followup or email.

Don Chen
Microbiology
From: karuzis@wccf.mit.edu (GLENN HOLM)
Newsgroups: bionet.general
Subject: Affiniti brand antibodies
Date: 10 Nov 92 23:18:00 GMT
Organization: MIT - Whitaker College
News-Software: VAX/VMS VNEWS 1.41

There was an abstract at the latest Society for Neuroscience
meeting (#363.16) by B. Bjelke et al. talking about changes in
c-Fos immunoreactivity following amphetamine.  i've been assigned
to try to track down the source of the antibody, which i hear is
from a company called Affiniti.  (possibly Swedish, since that's
where the authors are from).  I've been through their earlier 
publications and the Linscott Directory of Antibody suppliers to
no avail.

Does anyone have a lead on the Affiniti company (address, tel #),
or even better, to a U.S. distributor?


------------------------------------------------------------------
|Glenn Holm                         Internet:karuzis@wccf.mit.edu|
|M.I.T Dept. of Brain + Cog. Sci.   This VAX doesn't do NeXTmail |
|Cambridge, MA 02139       "Real Neuroscientists don't do gels!" |
------------------------------------------------------------------
From: PARSONS_A@snd01.pcr.co.uk
Newsgroups: bionet.general
Subject: Sequence of vector Lambda gt22 anybody??
Date: 11 Nov 92 14:28:38 GMT
Distribution: bionet

Netfolk,

I am not sure this hit the bulletin board on my last mail so here goes again...

Does anybody have or know where I can get the sequence of Lambda gt22 vector.
The reference is Jang H. Han and William J. Rutter (1987) NAR vol 15 no. 15
"Lambda gt22 an improved lamda vector for the directional cloning of 
 full-length cDNA"

Any of the other lamda variants would also be a bonus (eg gt11, gt18 etc.)

Many thanks,

Tony Parsons
 +----------------------------------------------------------------------------+
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 | IT Department,			FAX   : + 44 304 616670               |
 | Pfizer Central Research,				 		      |
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From: A.J.Bleasby@daresbury.ac.uk (Alan Bleasby)
Newsgroups: bionet.general
Subject: Daresbury email server.. update
Date: 9 Nov 92 18:54:29 GMT
Distribution: bionet
Organization: SERC Daresbury Laboratory, Warrington, UK

The hardware problems are serious.
It is not expected that the service will resume before Tuesday afternoon
at the earliest.

Apologies again for the inconvenience.

Alan Bleasby
SERC Daresbury Laboratory
Warrington WA4 4AD
UK

Email: ajb@seqnet.dl.ac.uk
From: rdna@matt.ksu.ksu.edu (Paul Paukstelis)
Newsgroups: bionet.general
Subject: Research Suggestions
Date: 9 Nov 92 20:18:14 GMT
Organization: Kansas State University
NNTP-Posting-Host: matt.ksu.ksu.edu

[Note: I'm posting this for fellow students]

	To those interested,

We are trying to locate a plausible experiment, which deals in the area
of molecular biology. This would be conducted in our high school independent
scientific research class. We have previously explored experiments in the
field of agrobacteria, and drosophila, but our former plans fell through.
We are open to other ideas, yet these are still of interest to us. Because
we are located near Kansas State University, we have access to their materials
and equipment. If you have any ideas, please contact us at this e-mail 
address. Thanks for your consideration.

Kelly Bradley and JohnGarrett
From: ABOLA@PB1.PDB.BNL.GOV
Newsgroups: bionet.xtallography
Subject: re: Published ciioordinated
Date: 7 Nov 92 03:08:38 GMT
Distribution: bionet

>From:	BNLDAG::CA%"turcotte@saguenay.IRO.UMontreal.CA"  5-NOV-1992 12:49:18.28
>To:	protein-crystallography@net.bio.net
>CC:	
>Subj:	Published coordinated
>
>Received: From STANFORD(MAILER) by BNLDAG with Jnet id 5966
>          for ABOLA@BNLDAG; Thu,  5 Nov 1992 12:48 EST
>Received: by Forsythe.Stanford.EDU; Thu,  5 Nov 92 09:47:27 PST
>Received: by net.bio.net (5.65/IG-2.0)
>        id AA15591; Thu, 5 Nov 92 09:05:37 -0800
>Received: by net.bio.net (5.65/IG-2.0)
>        id AA15587; Thu, 5 Nov 92 09:05:32 -0800
>Message-Id: <9211051705.AA15587@net.bio.net>
>To: protein-crystallography@net.bio.net
>From: turcotte@saguenay.IRO.UMontreal.CA (Marcel Turcotte)
>Subject: Published coordinated
>Date: 5 Nov 92 16:48:36 GMT
>Sender: news@IRO.UMontreal.CA
 
 
>I have  a set  of nucleotide,  modified nucleotide and poly-nucleotide
>structures,  published in  Acta Cryst and other journals,  for which I
>need  the  coordinates  in  order  to  create  pictures, that  will be
>included in  a book  to  be  published  soon.   I  have looked  in the
>Brookhaven data bank but did not find what I  expected.  I've heard of
>something called  Crystor.   Is it the place to  look?   How can I get
>access to it? What other data bases are available?
> 
>Marcel TURCOTTE(Etudiant Ph.D.)  Departement Informatique et Recherche
>e-mail:turcotte@IRO.UMontreal.CA  Operationnelle et depart. Biochimie
>                                 Universite de Montreal
>tel. (514) 343-6111 ext.5354     C.P. 6128, Succ A
>fax  (514) 343-2210              Montreal (Quebec) Canada
>pavillon principal local G-316   H3C 3J7
 
 
 
 
--
 >
>Marcel TURCOTTE(Etudiant Ph.D.)        Departement Informatique et Recherche
>e-mail:turcotte@IRO.UMontreal.CA        Operationnelle et departement Biochimie
>                                       Universite de Montreal
>tel. (514) 343-6111 ext.5354           C.P. 6128, Succ A
>fax  (514) 343-2210                    Montreal (Quebec) Canada
>pavillon principal local G-316         H3C 3J7
 
 
The Nucleic Acid Database may have some of the structures that you are
looking for. They can be accessed via e-mail or ftp.  The e-mail server
address is ndblib@helix.rutgers.edu and the anonymous ftp address is
helix.rutgers.edu.  More details on the NDB can be found in the April 1992
PDB newsletter which is available through the PDB anonymous ftp account.

Drop me a line if you need more help

________________________________________________________________ 
				 | 
enrique e. abola                 |   BITNET:    abola1@bnl
Protein Data Bank                |   INTERNET:  abola1@bnl.gov 
Department of Chemistry          |   (516)-282-4383 
Brookhaven National Laboratory   | 
Upton NY 11973                   |
________________________________________________________________ 

 
Newsgroups: bionet.xtallography