HDTenEightyP/NetNews huggingface dataset:
From: idunham@crc.ac.uk (Dr. I. Dunham)
Newsgroups: bionet.genome.chrom22
Subject: SSTR3
Date: 28 Jan 93 17:45:29 GMT
Distribution: bionet
Original-To: chrom-22@uk.ac.daresbury

Dear Readers (if any)

There's not been any traffic here recently so I'll make some with
a request for info on somatostatin receptor 3.  

GDB tells me that this has been mapped to chromosome 22 but I can't
find any reference for this.  I can't find the sequence but have 
got the sequences for SSTR1 and SSTR2 from Genbank.  These were assigned
to (other) chromosomes using some neighbouring microsatellites the
sequences for which are also in Genbank from unpublished data.  

So is there a sequence for SSTR3?  Any reference?  And how did it map 
to chromosome 22?  

Any help would be appreciated


Ian

Ian Dunham
idunham@uk.ac.crc
From: MEEKSW@MOLBIO.UOREGON.EDU
Newsgroups: bionet.genome.arabidopsis
Subject: markers and YACs
Date: 27 Jan 93 20:14:11 GMT
Distribution: bionet

We are looking for additional RFLP markers and information on YACs that 
map near the Chang and Meyerowitz RFLP #220 on chromosome 2.  If anyone 
has information on this region I'd appreciate hearing about it.  Thanks, Ry
(MEEKSW@MOLBIO.UOREGON.EDU)
From: CHERRY@FRODO.MGH.HARVARD.EDU (Mike Cherry 726-5955)
Newsgroups: bionet.genome.arabidopsis
Subject: Re: Need current reviews...
Date: 27 Jan 93 22:57:24 GMT
Distribution: bionet

Perhaps the most recent "review" of Arabidopsis research that is
available electronically is the NSF report published last November.
The text of the document is available from the NSF gopher server,
which can be reached from the Arabidopsis gopher in the "Global
Biology Information Servers" folder.

I have placed a copy of this document on the Arabidopsis gopher and
ftp server. From anonymous ftp to weeds.mgh.harvard.edu the document
called "NSF_Arabidopsis_1992.report" is located in the "aatdb"
directory.  From gopher just look for "NSF_Arabidopsis_1992.report" in
the "AAtDB FTP archive" folder.  This document was produced by the
"The Multinational Science Steering Committee" for Arabidopsis.

If you need information on how to use either anonymous ftp or gopher
please let me know.

Mike
P.S. I will probably make a separate folder on the Arabidopsis gopher
for this type of information in the near future.
From: kearns@HUELINGS.HARVARD.EDU (Ellen V. Kearns)
Newsgroups: bionet.genome.arabidopsis
Subject: Arabidopsis total RNA
Date: 28 Jan 93 17:13:31 GMT
Distribution: bionet


Dear Colleagues,
Kerry Tucker recently asked me about the seven bands seen on gels of
Arabidopsis RNA. As a graduate student, I estimated the size of these bands
based on relative mobility compared with BRL RNA standards and assigned
identities to some of the bands by matching the transcript sizes with those
listed for RNAs in the handbook, Methods in Arabidopsis Research, edited by
Koncz, Chua, and Schell. We would like to know if there is published data
about these bands with which I could compare my own guess-timates.
Thanks, Ellen Kearns  kearns@huelings.harvard.edu
From: kerrylee@ATHENA.MIT.EDU
Newsgroups: bionet.genome.arabidopsis
Subject: RNA
Date: 28 Jan 93 19:27:16 GMT
Distribution: bionet

Hi there, Net people:
  Does anyone have the sizes, in nucleotides, of the seven bands to be
observed on an agarose gel when whole RNA from A. thaliana is run out?
Also, does anyone have experience with  multiple probe-strip cycles using
Nytran membranes and RNA?  I'm having problems reprobing my blots, and
it's getting me down.
  Thank you,
 Kerry Tucker
  kerrylee@athena.mit.edu
From: liptack@sfu.ca (Michael Liptack)
Newsgroups: bionet.genome.arabidopsis
Subject: Need current reviews...
Date: 27 Jan 93 13:42:19 GMT
Distribution: bionet


	I m a new participant in this newsgroup and I am looking for
some good review articles/papers on Arabidopsis genome sequencing so
that I can better understand the discussions.  Does anyone have any
suggestions??  Is there an Arabidopsis FAQ, and if so where can I get
it?  Sorry for the generality of this request and I apoligize if I'm
rehashing over past questions.  Please resppond to me directly if you
think it's appropriate at: liptack@sfu.ca       Thank You.
					
					Michael Liptack
					Dept. of Biol. Sci.
					Simon Fraser Univ.
					Burnaby, B.C. V5A 1S6
					CANADA
					liptack@sfu.ca
From: GOGARTEN@UCONNVM.bitnet
Newsgroups: bionet.genome.arabidopsis
Subject: Problems with regeneration of transformed Arabidopsis
Date: 26 Jan 93 17:57:32 GMT
Distribution: bionet



We are experiencing difficulties in regenerating transformed
Arabidopsis shoots.  The protocol we are using is the one from
Valvekens et al. (PNAS 85,5536-5540, 1988).
 It involves incubating intact roots on B5 agar supplemented with
 0.5mg/L 2,4-D and 0.05mg/L Kinetin followed by inoculation of sectioned
 roots with Agrobacterium strain AGLO (donated from Bob Ludwig, UCSC) harboring
 various modified Ti binary vectors.  The root explants are then incubated
 on B5 agar containing 0.15mg/L IAA and 5mg/L 2.ipAde.
 50mg/L Kan is used to select for transformed calli and we used 200mg/L
 Timentin to kill the bacteria.
As described by Valvekens et al. green calli developped after 3 weeks and
shoots formed on the control calli (untransformed, no Kan), but the green
transgenic calli on root explant did not regenerate and turned brown
after 6 weeks.
If you have any suggestions regarding this procedure, or if you use a more
effective protocol for Agrobacterium mediated transformation of
Arabidopsis, please, let us know.
        Peter Gogarten, Richard Mercier

We will post a summary on the Arabidopsis net. - Many thanks in advance.
From: DPOST@AARDVARK.UCS.UOKNOR.EDU
Newsgroups: bionet.genome.arabidopsis
Subject: Postdoc announcement
Date: 22 Jan 93 03:01:00 GMT
Distribution: bionet




TWO POSTDOCTORAL POSITIONS IN PLANT MOLECULAR GENETICS

Map-Based Cloning Of cer and lec Mutants Of Arabidopsis


     Two postdoctoral positions are available at the S.R. Noble 
Foundation (Ardmore, OK) to pursue map-based cloning strategies in 
Arabidopsis.  Emphasis will be placed on molecular isolation of 
two classes of mutants: (1) eceriferum (cer) mutants altered in 
wax biosynthesis or distribution; and (2)  a homoeotic leafy 
cotyledon (lec) mutant defective in embryo development (Science 
258: 1647-1650).  Research will be performed in the laboratory of 
Dr. Dusty Post-Beittenmiller (Genetics Section Head, Plant Biology 
Division, S.R. Noble Foundation) in collaboration with Dr. David 
Meinke (Professor of Botany, Oklahoma State University). 
Applicants should have extensive experience in molecular biology 
and a solid understanding of genetics.  One position is available 
immediately; the second position will begin after June 1993.  The 
Plant Biology Division at the Noble Foundation currently employs 9 
permanent scientists, 20 postdoctoral fellows and 13 support 
staff.  Research interactions with plant biologists at Oklahoma 
State University have been strengthened by a joint NSF EPSCoR 
cluster in Molecular Analysis of Plant Biotic Stress. Interested 
individuals should send a CV and three letters of recommendation 
to:

Dr. Dusty Post-Beittenmiller
Plant Biology Division/Genetics Section
The Samuel Roberts Noble Foundation
P.O. Box 2180, Ardmore, Oklahoma 73402
Phone: 405-223-5810; FAX: 405-221-7380
Email: dpost@aardvark.ucs.uoknor.edu

Additional information can be obtained by contacting:
Dr. David Meinke
Phone: 405-744-6549
FAX: 405-744-7673
Email: btnydwm@osucc.bitnet
From: UNDP.FO.BAR@CGNET.COM
Newsgroups: bionet.biology.tropical
Subject: POPULATION DENSITIES IN SMALL ISLANDS
Date: 25 Jan 93 21:32:36 GMT
Distribution: bionet


OUR REF: EMAIL 029/93

Subject: Population densities in small islands

Thanks for the responses I have got so far, but let me rephrase my
question:

Is anybody aware about publications which refer to population
densities on islands not species numbers or diversity. I have had
not time to check, but if i recall right neither MacArthur & Wilson
nor Siberloff do not refer for poulation densities of the species
(even "common species being rare" as here in Barbados).

I have an impression that somebody told me that butterflies are
rare in New Zealand, can anybody confirm this or have more this
type of references?

Matti Nummelin

UNDP.FO.BAR@CGNET.COM   Subject: Nummelin

Newsgroups: bionet.biology.tropical
From: spears@bobcat.lmc.edu (Gene Spears)
Subject: Re: POPULATION SIZES IN TROPICAL ISLANDS
Organization: Lees-McRae College, Banner Elk, NC
Distribution: bionet
Date: Thu, 21 Jan 1993 19:34:50 GMT

In article <9301182027.AA26225@net.bio.net> UNDP.FO.BAR@CGNET.COM writes:


>Our Ref Email 019/93

>Subject: Population sizes in tropical islands

>TO: TROPICAL-BIOLOGY@NET.BIO.NET

>I have collected arthropods by sweep net from forest floor
>vegetation in Barbados (monthly samples, almost one year).

>This semiquantative method gives extremely low population sizes.
>Can I explain this simply by basis of isolation and small habitat
>sizes? My understanding is that populations of species which harbor
>isolated islands reach reasonable population sizes  due low
>competition.

>Can anybody help me with references?

>Matti Nummelin UNDP.FO.BAR@CGNET.COM  Subject: Nummelin

Both topics are addressed in the classic MacArthur & Wilson _Island 
Biogeography_.  Their equilibrium model predicts higher extinction rates on 
smaller islands, due to the smaller population sizes that can be supported 
on such islands.  However, they also discuss ECOLOGICAL RELEASE, apparently 
experienced by some invading species.  (The brown tree boa on Guam is a 
good example of a species that experienced ecological release.)  These 
species have a higher niche diversity on islands - relative to mainland 
populations - and often occur in greater population numbers than they do on 
mainlands.

M&W and most island workers have focused on the community level -looking at 
species richness primarily.  I don't know of any good references that 
compare population densities between mainland and island habitats.

Gene Spears
spears@bobcat.lmc.edu
From: kristoff@NET.BIO.NET (David Kristofferson)
Newsgroups: bionet.biology.tropical
Subject: BIOSCI/bionet Frequently Asked Questions
Date: 26 Jan 93 10:00:03 GMT
Distribution: bionet


New users of BIOSCI/bionet may want to read the "Frequently Asked
Questions" or "FAQ" sheet for BIOSCI.  The FAQ provides details on how
to participate in these forums and is available for anonymous FTP from
net.bio.net [134.172.2.69] in pub/BIOSCI/biosci.FAQ.  It may also be
requested by sending e-mail to biosci@net.bio.net (use plain English
for your request).  The FAQ is also posted on the first of each month
to the newsgroup BIONEWS/bionet.announce immediately following the
posting of the BIOSCI information sheet.

				Sincerely,

				Dave Kristofferson
				BIOSCI/bionet Manager

				kristoff@net.bio.net
From: l.bertschinger@cgnet.com (L. Bertschinger, CIMMYT, Mexico)
Newsgroups: bionet.biology.computational
Subject: Image analysis
Date: 25 Jan 93 16:36:33 GMT
Distribution: bionet
Originator: biocomp@lerkim.umiacs.umd.edu

I am posting this message for a friend at CIMMYT. Please reply to
my Internet address. Thanks in advance.
__________________
Lukas Bertschinger, Virologist
International Maize and Wheat Improvement Center (CIMMYT)
Apdo Postal 6-641, 06600 Mexico, D. F. , Mexico
Tel. (595) 42100, Fax (595) 41069
E-mail:L.bertschinger@cgnet.com

----- Begin message from LBROERS  22-Jan-93

Dear collegue,

In CIMMYT's wheat pathology group, several people are interested in Video Image 
Analysis (VIA). The applications that we have in mind are disease severity 
assessment and object countings and size measurements of microscope images. 
Since we do not have any equipment nor experience we would like to receive the 
opinion of (experienced) VIA-users (not necessarily with the same applications).
First the hardware. What kind of digitizer card could you recommend. We are 
doubting between 8-bit and 24-bit frame grabbers and do not have a special 
brand in mind. Any recommendation?
The video camera is the next part. We have seen several options in different 
price classes. What are the differences and what should we keep in mind when 
comparing different camera's?
The computer we want to use is a 486 IBM compatible with 4mB RAM, 200mB Hard 
disk, a 1mB videocard, a HRVGA color monitor and a windows accelerator. We 
probably would need a second monitor for image display. Again, many monitors 
with different prices exist. What would you recomend?
Finally, we come to the software. OPTIMUS from Bioscan ($ 4000,00) and JAVA 
from Jandel ($1500) are two commercial packages I know of. Does anybody have 
experience with one of them. Do you know of any other available software?
We would very much appreciate if someone could help us to solve the mentioned 
problems.

				Regards,

				Leon Broers
				CIMMYT, Wheat Program
				Mexico
				


----- End forwarded message
From: huff@mcclb0.med.nyu.edu (Edward J. Huff)
Newsgroups: bionet.biology.computational
Subject: Re: Computerized lab notebook?
Date: 22 Jan 93 16:02:25 GMT
Distribution: bionet
Organization: NYU Chemistry Dept.
Originator: biocomp@lerkim.umiacs.umd.edu


In article <1993Jan10.193926.4720@athena.mit.edu>, cvl@athena.mit.edu
(Craig V Lewis) wrote:
> 
> I strongly recommend against the use of a computer as your sole data record!!
> 
>[...]any reasonably well chosen ink will not run 
> significantly and you spend 5 minutes with a hairdryer to resurrect your
> data.[...]
> 
> In addition, most commercial computers do not provide a secure time stamp
> for the data.  A skilled computer operator can very quickly modify creation
> dates and data without leaving any trace of doing so.[...]
> 
> I hope I've made the case strongly enough[...]

A few points:

1.  In our lab, the data consists of gigabytes of images, and
cannot possibly be recorded in any way but digitally.  We use two
separate DAT tapes.  We also use paper notebooks, because there isn't
any very good lab notebook software immediately available for the Mac.

2.  See "Mapping the Whole Human Genome by Fingerprinting Yeast Artificial
Chromosomes," Cell 70:1059-1068, September 18, 1992.  They mention
use of lab notebook software.

3.  No one has mentioned published encrypted summary data.  Somewhere
I read about (but have not personally seen) services which take any
data file and produce from a large file a small "signature" which
is published in the classified section of a microfilmed newspaper.
Experts will testify that it is essentially impossible to produce
a file which matches the signature and is not the original.  

What is needed to make computerized lab notebooks feasible
is a similar service on the internet (maybe BioSci could offer it)
where "signature" files could be publically posted and permantly
archived in such a way that they could not be modified without
the cooperation of many people (and no one could be certain that
someone else didn't keep another copy somewhere).  E.G. create
a newsgroup for these files, and let anyone who wants to archive
it.

--
Edward J. Huff   huff@mcclb0.med.nyu.edu   (212)998-8465
Keck Laboratory for Biomolecular Imaging
NYU Chemistry Deptartment, 31 Washington Place, New York NY 10003
Posted from the new Mac NewsWatcher 1.3d5
From: silvio@cpsi7.dibe.unige.it (Silvio Sabatini)
Newsgroups: bionet.journals.contents
Subject: Test
Date: 21 Jan 1993 08:40:24 GMT
Organization: University of Genova - DIBE, Italy
Distribution: world
NNTP-Posting-Host: cpsi7.dibe.unige.it
Keywords: Test

Just a test, please don't mind it!
From: bhjelle@carina.unm.edu ()
Newsgroups: bionet.journals.note
Subject: Re: Science
Date: 21 Jan 1993 14:41:03 GMT
Organization: University of New Mexico, Albuquerque
NNTP-Posting-Host: carina.unm.edu

In article <1993Jan20.032833.1014@athena.mit.edu> retentiv@athena.mit.edu (Sandra Chang) writes:
>
>Hi. I'm a staff reporter with Science (And as such, I have no input into
>or knowledge of manuscript selection--so don't flame me!). I'm curious
>whether it would be helpful to this forum to have someone from our editorial
>side answering queries of a general nature. I make no promises and may
>be sticking my nexk out to far. But if there is interest, I could inquire.
>
>john travis
>ne bureau

Sounds great! What particular type of questions would you be willing
to entertain?

Brian
From: kristoff@net.bio.net (David Kristofferson)
Newsgroups: bionet.journals.note
Subject: Re: Science
Date: 22 Jan 93 00:56:25 GMT
Organization: BIOSCI International Newsgroups for Biology

retentiv@athena.mit.edu (Sandra Chang) writes:


>Hi. I'm a staff reporter with Science (And as such, I have no input into
>or knowledge of manuscript selection--so don't flame me!). I'm curious
>whether it would be helpful to this forum to have someone from our editorial
>side answering queries of a general nature. I make no promises and may
>be sticking my nexk out to far. But if there is interest, I could inquire.

>john travis
>ne bureau
>(please respond to jstravis@world.std.com   "retentiv" is a friends account!)

DEFINITELY!!  I would hope that other journals would also get
involved!

				Sincerely,

				Dave Kristofferson
				BIOSCI/bionet Manager

				kristoff@net.bio.net
From: Davison@UH.EDU (Dan Davison)
Newsgroups: bionet.molbio.bio-matrix
Subject: Re: The Biomatrix: what it is
Date: 27 Jan 93 16:07:50 GMT
Distribution: bionet

cherry@OPAL.MGH.HARVARD.EDU said:
> Finally, what is the timeframe considered by the BioMatrix group.  Is
> the BioMatrix another Xanadu project? Is this an endeavor that is
> waiting for significance technology advancements in software
> development or are there many active projects currently being pursued
> with the Matrix as a goal.

Perhaps it could be considered a Xanadu project; but I prefer to
consider it a philosophy. We aren't out there applying for money to do
the Biomatrix through some Grand Institute of The Biomatrix.  We are
trying to encourage information providers and information designers to
allow the kinds of access that Gopher and WAIS are the bare beginnings
of.  Consider us an advocacy group for a way to think about and access
the entire spectrum of biological information.

dan
-- 
dr. dan davison/dept. of biochemical and biophysical sciences/univ. of
Houston/4800 Calhoun/Houston,TX 77204-5934/davison@uh.edu/DAVISON@UHOU

-----RIP Isaac Asimov 1920-1992     I'll miss him --------------------

Disclaimer: As always, I speak only for myself, and, usually, only to
myself.
From: jm68@quads.uchicago.edu (James R. Mensch Jr.)
Newsgroups: bionet.molbio.methds-reagnts
Subject: Rat chondrosarcoma library?
Date: 27 Jan 93 17:00:59 GMT
Reply-To: jm68@midway.uchicago.edu
Distribution: na
Organization: University of Chicago Computing Organizations

Netpeople,  Does anyone have a non-commercial rat chondrosarcoma cDNA library
in an expression vector such as lambda gt11 (or related phage)?  Would you be
willing to share a bit with us (N.B. Schwartz lab at U. of Chicago) ?
Please respond by e-mail only to: j-mensch@quads.uchicago.edu
Thanks, Jim M.
-- 
===============================================================================
Jim Mensch : j-mensch@uchicago.edu
             menche@biovax.uchicago.edu
===============================================================================
Newsgroups: bionet.molbio.methds-reagnts
From: jgraham@bronze.ucs.indiana.edu (the End)
Subject: Direct Lambda Sequencing : new answers to old thread ?
Organization: Indiana University
Date: Sun, 24 Jan 1993 23:36:58 GMT


A mysterious rumor is circulating around here that one of them new-fangled
"kit" things allows sequencing via Sequenase protocols using LAMBDA DNA
AS A TEMPLATE !!!

I gave up this long ago when I heard of several people wasting large amounts
of time trying to get it to work. Another annecdote came my way about a 
group at Madison that was trying to develope this technique for (gasp) 
Promega, and their dismal failure.

Anyone ??

Thanks much. please E-mail me anything

Jim
J. Graham
jgraham@bio.indiana.edu
From: wmelchior@ntet.nctr.fda.gov
Newsgroups: bionet.molbio.methds-reagnts
Subject: RE: Long Seq Gels
Date: 26 Jan 93 14:30:28 GMT
Distribution: bionet
Organization: NATIONAL CENTER FOR TOXICOLOGICAL RESEARCH

> Also, we don't have a gel dryer that accomodates long gels.  Any
> alternative drying method?

I bind the gel to one of the glass plates, making for easier handling, but
meaning a regular gel dryer can't be used.  I now put the plate in an oven
for an hour at about 100 deg C.  Before we got a large oven I used to put
the gel under a group of hair dryers for a couple of hours.  It was noisy
and not as fast as an oven, but it works.  I would think this would also
work for a gel transfered to paper. 
________________________________________________________________________________
The opinions stated are mine, not those of NCTR or its sponsoring organizations.

Bill Melchior                                ||     OMNISCIENCE
National Center for Toxicological Research   ||    Knowing what
Jefferson, AR  72079                         ||    thou knowest not
(501) 543-7206                               ||    is in a sense
                                             ||    omniscience.
WMELCHIOR@NTET.NCTR.FDA.GOV                  ||       from Grooks, Piet Hein
From: GIETZ@bldghsc.lan1.umanitoba.ca
Newsgroups: bionet.molbio.methds-reagnts
Subject: re:SDS, nylon and hybridization
Date: 25 Jan 93 19:44:00 GMT
Distribution: bionet


------------------------------------------------------------------------------
REPLY FROM: Gietz, Dr. Dan
Return-Path: <BIOSCI-REQUEST@net.bio.net>
Date: 22 Jan 1993 14:34:10 -0600 (CST)
From: DMEIER@mis.mcw.edu
Subject: SDS, nylon and hybridization
To: methods-and-reagents@net.bio.net
Message-Id: <01GTTMI620SY8WW6J6@mis.mcw.edu>
Organization: Medical College of Wisconsin (Milwaukee, WI)
X-Vms-To: IN%"methods-and-reagents@net.bio.net"
Mime-Version: 1.0
Content-Type: TEXT/PLAIN; CHARSET=US-ASCII
Content-Transfer-Encoding: 7BIT
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
Hello to All!
  I am using Nytran nylon membranes in my Northern blotting. Often, I see 
SDS used in hybridizations, mostly with protocols using nylon filters. 
  Will anyone please share their expertise on this matter?  Is SDS
important in filter hybridizations, particularly with nylon?  Also, I've 
heard dextran works well with nitrocellulose, but that it is not 
recommended for nylon due to high background artifacts.
  Thanks much!

Dan
dmeier@mis.mcw.edu
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

Hi Dan!
    I recall that 1% SDS is important for low background
using nylon filters (I used hybond [amersham]).  
The high concentration of SDS is key to 
getting low background using 32P labelled probes. I used this 
for many years with northerns and Southerns.  I also used
dextran sulfate (high MW) to 10% w/v in my hybs to concentrate
the probe by exclusion.  It worked well.  My hyb conditions (42 degreesC)
were 50% formamide
`        1% SDS
          1M NaCl
and a bunch of sonicated carrier DNA  and 
    Denhardts as a blocking agent and a buffer ( then I would dissolve 1 gm
of dextran sulfate/ 10mls of hyb mix)
If you want specifics I'll look them up for you!
________________________________________
Dan Gietz
Department of Human Genetics
University of Manitoba
770 Bannatyne Ave, Rm 250
Winnipeg, Man, Canada
R3E 0W3
GIETZ@BLDGHSC.LAN1.UMANITOBA.CA
_________________________________________