HDTenEightyP/NetNews huggingface dataset:
From: GenBank-Updates@net.bio.net
Newsgroups: bionet.molbio.genbank.updates
Subject: Human STS primer Fr8-77 for locus D21S82 (21q21-q22.1), reverse.
Date: 7 Jan 93 05:51:02 GMT
Distribution: bionet
Checksum: 20659 2

LOCUS       HUMSTS21QR     19 bp ds-DNA             PRI       06-JAN-1993
DEFINITION  Human STS primer Fr8-77 for locus D21S82 (21q21-q22.1), reverse.
ACCESSION   M96001
KEYWORDS    STS sequence; primer; sequence tagged site.
SOURCE      Homo sapiens (library: pSP65) DNA.
  ORGANISM  Homo sapiens
            Eukaryota; Animalia; Chordata; Vertebrata; Mammalia; Theria;
            Eutheria; Primates; Haplorhini; Catarrhini; Hominidae.
REFERENCE   1  (bases 1 to 19)
  AUTHORS   Tang,X., Tashiro,H., Eki,T., Murakami,Y., Soeda,E., Sakakura,T.,
            Watkins,P.C. and Yokoyama,K.
  TITLE     Generation of nineteen STS markers that can be anchored at specific
            sites on human chromosome 21
  JOURNAL   Unpublished (1992)
  STANDARD  full automatic
COMMENT     PCR Profile:
            Denaturation: 94 C for 1 min
            Annealing: 55 C for 2 min
            Polymerization: 72 C for 3 min
            PCR cycles: 35.
BASE COUNT        6 a      3 c      6 g      4 t
ORIGIN      
        1 gatagtacct gagactagg
//
From: GenBank-Updates@net.bio.net
Newsgroups: bionet.molbio.genbank.updates
Subject: Human STS primer pPW237D for locus D21S6 (21pter-q21.1), forward.
Date: 7 Jan 93 05:49:31 GMT
Distribution: bionet
Checksum: 51637 2

LOCUS       HUMSTS21DF     23 bp ds-DNA             PRI       06-JAN-1993
DEFINITION  Human STS primer pPW237D for locus D21S6 (21pter-q21.1), forward.
ACCESSION   M95978
KEYWORDS    STS sequence; primer; sequence tagged site.
SOURCE      Homo sapiens (library: pBR328) DNA.
  ORGANISM  Homo sapiens
            Eukaryota; Animalia; Chordata; Vertebrata; Mammalia; Theria;
            Eutheria; Primates; Haplorhini; Catarrhini; Hominidae.
REFERENCE   1  (bases 1 to 23)
  AUTHORS   Tang,X., Tashiro,H., Eki,T., Murakami,Y., Soeda,E., Sakakura,T.,
            Watkins,P.C. and Yokoyama,K.
  TITLE     Generation of nineteen STS markers that can be anchored at specific
            sites on human chromosome 21
  JOURNAL   Unpublished (1992)
  STANDARD  full automatic
COMMENT     PCR Profile:
            Denaturation: 94 C for 1 min
            Annealing: 55 C for 2 min
            Polymerization: 72 C for 3 min
            PCR cycles: 35.
BASE COUNT        6 a      4 c      7 g      6 t
ORIGIN      
        1 atgtcagtca agctgagtac tgg
//
From: kristoff@NET.BIO.NET (Dave Kristofferson)
Newsgroups: bionet.molbio.genbank
Subject: Re: BLAZE survey
Date: 5 Jan 93 18:37:41 GMT
Distribution: bionet

> 
> 	Well, the survey posting makes BLAZE seem pretty wonderful. Is it
> available anywhere for us to give it a try???
> 
> 
> ----------------------------------------------------------------------
>  Michael Benedik				INTERNET: Benedik@uh.edu
>  Dept. of Biochemical & Biophysical Sciences	
>  University of Houston				BITNET: Benedik@uhou
> -----------------------------------------------------------------------
> 
> 

Blaze is available via the IntelliGenetics BIONET timesharing service.
You can get further information by contacting bionet@presto.ig.com.
As we have to pay for the use of the MasPar computer and no longer
have a government subsidy as we did for GOS, we have to charge for the
use of this service now.  We are also giving some thought to providing
access by e-mail to registered users on a fee per search basis to
alleviate the necessity of users having to get BIONET accounts, but
this presents some problems with billing that we still have to
resolve.

				Sincerely,

				Dave Kristofferson
				(an employee of
				 IntelliGenetics, Inc.)

				kristoff@net.bio.net

Newsgroups: bionet.molbio.genbank
From: ernest@lenti.med.umn.edu (Ernest Retzel (1535 49118))
Subject: Corporate Gigs/UseNet: Alternatives [a LIVE horse to beat]
Organization: University of Minnesota
Date: Thu, 7 Jan 1993 07:09:31 GMT

Ummm...there might be a real easy answer to this, if anyone is interested.

We can't put 'em up on UseNet...but that doesn't mean we can't spin 'em
on disk somewhere.  And Gopher is a real easy answer to access...

Anyone who is not Private-Sector-Phobic with visible GopherHole care to 
volunteer?  Mine is access-controlled for the time being, but if no one
else volunteers, I will dig another one, and work out the details later.

Ernie Retzel
Medical School
University of Minnesota

ernest@lenti.med.umn.edu
From: robison1@husc10.harvard.edu (Keith Robison)
Newsgroups: bionet.molbio.genbank
Subject: "In press" entries
Date: 5 Jan 93 21:11:47 GMT


1) I have found a large number of GenBank entries
   (>100 in the bacterial division alone) with REFERENCE entries marked
   as "In press" but old dates (i.e. In press (1987) ).  I know some
   of these should be caught by NCBI's journal scanning (the entries which
   were temporarily in the NLM division), but many of these appear to
   have been missed, perhaps because they are in non-medical journals
   or relatively obscure journals.  Is there any effort to fix all these
   entries?  (it makes checking them a pain) 

2) I have found a few entries with an old "In press" REFERENCE entry which
   seems to duplicate a later REFERENCE entry.  Shouldn't the
   "In press" simply be replaced with the correct citation, rather than
   creating a new REFERENCE entry?


Keith Robison
Harvard University
Department of Cellular & Developmental Biology
Department of Genetics / HHMI

robison@biosun.harvard.edu
From: robison1@husc10.harvard.edu (Keith Robison)
Newsgroups: bionet.molbio.genbank
Subject: Annotating vector contamination
Date: 8 Jan 93 17:08:02 GMT

The problem of vector contamination of DNA sequence data is widespread.
The current method of annotating in in GenBank appears to be as
a misc_feature, with /note's explaining it to be likely contamination.

PLEASE!!!!!!

could we have a "vector" feature key for this!  Many of these
regions are propagating into the secondary databanks (i.e. protein
databanks), and it would be much easier to prevent that if the
stuff were marked better.  It would also make it easier for users
to discard it when collating and assembling data from GenBank.


Keith Robison
Harvard University
Department of Cellular & Developmental Biology
Department of Genetics / HHMI

robison@biosun.harvard.edu 
Newsgroups: bionet.molbio.genbank
From: kristoff@net.bio.net (David Kristofferson)
Newsgroups: bionet.molbio.genbank
Subject: Re: BLAZE survey
Date: 8 Jan 93 18:58:00 GMT
Organization: BIOSCI International Newsgroups for Biology

Bill,

	I'm sure everyone is appreciative of this informative posting.

Thanks,

Dave

Newsgroups: bionet.molbio.genbank
From: eddy@boulder.Colorado.EDU (Sean Eddy)
Subject: looking for pYAC4
Organization: University of Colorado, Boulder
Date: 11 Jan 93 15:30:29 GMT

Can anyone point me towards a sequence for the cloning vector
pYAC4? Can't find it in our copies of GenBank or EMBL.

Thanks much,
Sean Eddy
MRC Laboratory of Molecular Biology, Cambridge
sre@mrc-lmb.cam.ac.uk
From: S911896@VAX.CSC.CUHK.HK
Newsgroups: bionet.molbio.genbank
Subject: (none)
Date: 4 Jan 93 10:05:00 GMT
Distribution: bionet

Dear Sirs,

I want to obtain all documents in which some of their sequences will be
similar to a query sequence such as ggtcannntgacc. As you know, I can
not get these documents with a query sequence, using "retrieve" program.
On the other hand, I can obtain only statistic data using "blast" program,
when I use a query sequence. These two programs can not meet my need.
Are there other programs to meet my demand, from the Genebank or EMBL
database?

By the way, Mark Dalton, I send this message to this newgroup, because I
don't  know when you can find the message I send you separately.

Sincerely,

Qiu Yaowu
The Chinese Univ of Hong Kong.
Newsgroups: bionet.molbio.genbank
From: cbreiten@magnus.acs.ohio-state.edu (Caroline A Breitenberger)
Subject: Re: BLAZE survey
Organization: The Ohio State University
Distribution: usa
Date: Wed, 6 Jan 1993 19:32:24 GMT


In response to:
> how come ABI isn't allowed to put job adverts on USENET when
> this product information/adveristement is allowed? 

Dave Kristofferson (BioSci/Bionet manager) answers:
* Network regulations are rather wierd unfortunately.  There 
* is nothing wrong if a company **responds** to a request for 
* information... [stuff deleted]
* The point is that commercial job postings or ads *initiated* 
* by a company are still not allowed.  However, it *is* O.K. for
* companies to respond to requests for information.  ABI and any
* other company can post in response to questions about its
* products as MasPar did here.  The responses are supposed to be
* factual and avoid advertising hype.

Inquiring minds want to know:  According to these statements,
then, it would be acceptable for me to post a *request* for
ABI, or biotech companies in general to post succinct job
adverts?????

___________________________________________________________
Caroline Breitenberger
Ohio State University, Department of Biochemistry
email: caroline+@osu.edu
From: kristoff@NET.BIO.NET (Dave Kristofferson)
Newsgroups: bionet.molbio.genbank
Subject: Re: BLAZE survey
Date: 5 Jan 93 18:30:24 GMT
Distribution: bionet

> A question about the posting of this MasPar "ADVERTISEMENT".....
> Don't get me wrong, I'm very interested in the BLAZE survey, but
> how come ABI isn't allowed to put job adverts on USENET when this
>  this product information/adveristement is allowed? 

Chris,

	Network regulations are rather wierd unfortunately.  There is
nothing wrong if a company **responds** to a request for information.
However, NSF has specifically told me (read Steve Wolff who is the
head of networking there) that they do not want commercial job ads
posted.  I am continuing to lobby against this restriction because I
believe that the readers want to hear about all researh job
opportunities, be they commercial or academic.

> I would have thought the ABI job info was more beneficial to the 
> readers than ABI.

Yes, but to date I have had to tell other biotech companies that they
can't advertise jobs on bionet.jobs because of the NSF restriction, so
I can't allow ABI to transgress here.

> I guess it's a close call. Any other views?

The point is that commercial job postings or ads *initiated* by a
company are still not allowed.  However, it *is* O.K. for companies to
respond to requests for information.  ABI and any other company can
post in response to questions about its products as MasPar did here.
The responses are supposed to be factual and avoid advertising hype.
Neither ABI nor any other company is as yet allowed to post job
notices.

				Sincerely,

				Dave Kristofferson
				BIOSCI/bionet Manager

				kristoff@net.bio.net
Xref: sparky bionet.molbio.genbank:620 bionet.software:2389
From: kristoff@net.bio.net (David Kristofferson)
Newsgroups: bionet.molbio.genbank
Subject: Re: Corporate Gigs/UseNet: Alternatives [a LIVE horse to beat]
Date: 7 Jan 93 19:33:20 GMT
Organization: BIOSCI International Newsgroups for Biology

gilbertd@chipmunk.bio.indiana.edu (Don Gilbert) writes:

>In article <1993Jan7.070931.3031@news2.cis.umn.edu> ernest@lenti.med.umn.edu (Ernest Retzel (1535 49118)) writes:
>>Ummm...there might be a real easy answer to this, if anyone is interested.
>>
>>We can't put 'em up on UseNet...but that doesn't mean we can't spin 'em
>>on disk somewhere.  And Gopher is a real easy answer to access...
>>
>>Anyone who is not Private-Sector-Phobic with visible GopherHole care to 
>>volunteer?  Mine is access-controlled for the time being, but if no one
>>else volunteers, I will dig another one, and work out the details later.
>>
>>Ernie Retzel
>>Medical School
>>University of Minnesota
>>
>>ernest@lenti.med.umn.edu

>I am willing to set up a mail drop to the Gopher here
>for any biology related information, including commercial
>job postings.  That said, I wouldn't have any time to police
>it, and if some problem did arise, I might have to pull it.

>In fact, there is now a mail drop here:

>    jobs@bio.indiana.edu

>Any mail to there will appear in the IUBio gopher under
>   Netnews/Job-Postings/

>-- Don



>-- 
>Don Gilbert                                     gilbert@bio.indiana.edu
>biocomputing office, biology dept., indiana univ., bloomington, in 47405

Don and Ernie,

I don't appreciate being in essence penalized for my attempts to
resolve this issue by going through regular channels.  What you are
doing will obviously impact the utility of bionet.jobs.

I would be much happier if you assisted me in contacting NSF about
this issue and helped to get it fixed.  It would be counterproductive,
however, to launch a massive e-mail writing campaign, so I would
rather have a few well known people in the community try to contact
Steve Wolff than for eveyone to just bombard his mailbox.

Dave Kristofferson
From: S911896@VAX.CSC.CUHK.HK
Newsgroups: bionet.molbio.genbank
Subject: (none)
Date: 5 Jan 93 09:57:00 GMT
Distribution: bionet

Dear nectters,

If you know the e mail address of Dr. Young-ping Hwung of Dept of 
Pharmacology, Stanford University. Please let me know.

Best regards.

Qiu Yaowu
The Chinese University of Hong Kong.

Xref: sparky bionet.molbio.genbank:616 bionet.software:2383
Newsgroups: bionet.molbio.genbank,bionet.software
Subject: This is a question to bionet.software, commercial issue.  
From: doelz@comp.bioz.unibas.ch (Reinhard Doelz)
Date: Thu, 7 Jan 1993 07:22:33 GMT
Reply-To: doelz@urz.unibas.ch
Organization: EMBnet Switzerland [BASEL]   

With respect to the discussion going on about Maspar's posting on 
the nicety of the BLAZE program, I would like to ask whether companies 
like GCG woudln't have the same rights? They've been public domain for 
a bit longer than BLAZE, and still each time I inquired about a 
bionet.software.gcg newsgroup I was told by Dake K. that this is not an 
issue (sorry that I don't quote the mail here, the last was already some 
time back and I deleted them.) Despite the full appreciation of the 
beauty and beneficious nature of BIONET I start to worry whether there 
isn't some bias coming in in interpreting the rules. There are hundreds 
of postings in comp.sys which permanently reflect commercial issues. 
So why not have the policy adopted for BIONET also? In USENET terminology, 
BIONET still does behave a little different (just remember voting, email gw 
etc), but wouldn't it be time to revise this fear of being commercial and 
afterwards filter (other would call it censor) at the justice of 
administrators? 

Regards 
Reinhard 


-- 
+----------------------------------+-------------------------------------+
|    Dr. Reinhard Doelz            | RFC     doelz@urz.unibas.ch         |
|      Biocomputing                | DECNET  20579::48130::doelz         |
|Biozentrum der Universitaet       | X25     022846211142036::doelz      |
|   Klingelbergstrasse 70          | FAX     x41 61 261- 6760 or 267- 2078     
|     CH 4056 Basel                | TEL     x41 61 267- 2076 or 2247    |   
+------------- bioftp.unibas.ch is the SWISS EMBnet node ----------------+
               -----------------------------------------
From: gilbertd@chipmunk.bio.indiana.edu (Don Gilbert)
Newsgroups: bionet.molbio.genbank
Subject: Re: Corporate Gigs/UseNet: Alternatives [a LIVE horse to beat]
Date: 7 Jan 93 17:32:21 GMT
Organization: Biology, Indiana University - Bloomington

In article <1993Jan7.070931.3031@news2.cis.umn.edu> ernest@lenti.med.umn.edu (Ernest Retzel (1535 49118)) writes:
>Ummm...there might be a real easy answer to this, if anyone is interested.
>
>We can't put 'em up on UseNet...but that doesn't mean we can't spin 'em
>on disk somewhere.  And Gopher is a real easy answer to access...
>
>Anyone who is not Private-Sector-Phobic with visible GopherHole care to 
>volunteer?  Mine is access-controlled for the time being, but if no one
>else volunteers, I will dig another one, and work out the details later.
>
>Ernie Retzel
>Medical School
>University of Minnesota
>
>ernest@lenti.med.umn.edu

I am willing to set up a mail drop to the Gopher here
for any biology related information, including commercial
job postings.  That said, I wouldn't have any time to police
it, and if some problem did arise, I might have to pull it.

In fact, there is now a mail drop here:

    jobs@bio.indiana.edu

Any mail to there will appear in the IUBio gopher under
   Netnews/Job-Postings/

-- Don



-- 
Don Gilbert                                     gilbert@bio.indiana.edu
biocomputing office, biology dept., indiana univ., bloomington, in 47405
Newsgroups: bionet.molbio.genbank
From: dab@ray.nlm.nih.gov (Dennis Benson)
Subject: Another FTP source for GenBank
Organization: National Library of Medicine
X-Newsreader: Tin 1.1 PL4
Date: Fri, 8 Jan 93 17:54:25 GMT




In addition to NCBI as a source of GenBank files, the folks at the
Pittsburgh Supercomputing Center (PSC) have kindly made the GenBank flat files
available through anonymous FTP.  Thanks to Hugh Nicholas and
Alex Ropelewski.

They provide everything in the NCBI 'ncbi-genbank' directory tree
including the full release and daily cumulative and non-cumulative updates.
Update files are copied over nightly from NCBI.

To access the files:

 SERVER:    ftp.psc.edu
 USER:      anonymous
 PASSWORD:  <Email-address> 
 DIRECTORY: biomed/genbank/annotated

If users are running the Andrew File System (AFS) and have the PSC cell 
(psc.edu) mounted, they should be able to copy the files from:

     /afs/psc.edu/usr/anonymous_ftp/biomed/genbank/annotated
  
If you have any questions contact Alex Ropelewski at PSC (ropelews@psc.edu).


Dennis Benson
NCBI
National Library of Medicine
benson@ncbi.nlm.nih.gov
From: bchs1b@Elroy.UH.EDU (Michael Benedik)
Newsgroups: bionet.molbio.genbank
Subject: Re: BLAZE survey
Date: 5 Jan 93 16:18:40 GMT
Reply-To: bchs1b@Elroy.UH.EDU
Distribution: bionet
Organization: University of Houston
NNTP-Posting-Host: elroy.uh.edu


	Well, the survey posting makes BLAZE seem pretty wonderful. Is it
available anywhere for us to give it a try???


----------------------------------------------------------------------
 Michael Benedik				INTERNET: Benedik@uh.edu
 Dept. of Biochemical & Biophysical Sciences	
 University of Houston				BITNET: Benedik@uhou
-----------------------------------------------------------------------
From: jasper@molbiol.ox.ac.uk
Newsgroups: bionet.molbio.genbank
Subject: Re: BLAZE survey
Date: 8 Jan 93 18:04:59 GMT
Organization: Oxford University Molecular Biology Data Centre
Nntp-Posting-User: jasper

In article <16B501C66.LILMARA@YaleVM.YCC.Yale.Edu>, MCKMICP@YaleVM.YCC.Yale.Edu (Michael McKenna) writes:
> 
>>barely relevant, but I obviously am happy that he exists.
>  
> me too!

Arrg, another virtual existance obliterated :)
  
> I never thought I'd see a flame-war in bionet.molbio.genbank!

Never thought I'd create one! 

> Michael McKenna  MCKMICP@YaleVM.YCC.Yale.edu
> I do exist-- really...

Anyway enough of this thread; lets get to Bill's posting which actually tells
us all what we need to know. 

regards,   jasper

jasper@molbiol.ox.ac.uk
From: kristoff@NET.BIO.NET (Dave Kristofferson)
Newsgroups: bionet.molbio.genbank
Subject: Re: BLAZE survey
Date: 7 Jan 93 01:26:56 GMT
Distribution: bionet

> 
> In response to:
> > how come ABI isn't allowed to put job adverts on USENET when
> > this product information/adveristement is allowed? 
> 
> Dave Kristofferson (BioSci/Bionet manager) answers:
> * Network regulations are rather wierd unfortunately.  There 
> * is nothing wrong if a company **responds** to a request for 
> * information... [stuff deleted]
> * The point is that commercial job postings or ads *initiated* 
> * by a company are still not allowed.  However, it *is* O.K. for
> * companies to respond to requests for information.  ABI and any
> * other company can post in response to questions about its
> * products as MasPar did here.  The responses are supposed to be
> * factual and avoid advertising hype.
> 
> Inquiring minds want to know:  According to these statements,
> then, it would be acceptable for me to post a *request* for
> ABI, or biotech companies in general to post succinct job
> adverts?????
> 
> ___________________________________________________________
> Caroline Breitenberger
> Ohio State University, Department of Biochemistry
> email: caroline+@osu.edu
> 
> 

Other clever people asked me this same question privately.  My
understanding is that requests for information can be answered, but
this is obviously an attempt to override the other restriction against
commercial job postings.  (This job is starting to make me feel like a
rabbi interpreting NSF's Talmud 8-).

It is perfectly O.K. for you to post your resume and say that you are
interested in working for a commercial company.  There should be
nothing wrong in them answering you privately.  I think that asking
them to post the jobs publicly tries to improperly circumvent a
specific restriction, but that is my personal reading.

Everyone, let me try to call Steve Wolff at NSF again tomorrow.  Maybe
I'll get lucky and get through this time.  I would like as much as
anyone to get this job posting issue resolved at a minimum along the
lines of the compromise job posting format that I posted yesterday.

				Sincerely,

				Dave Kristofferson
				BIOSCI/bionet Manager

				kristoff@net.bio.net

Xref: sparky bionet.molbio.genbank:624 bionet.software:2395
From: kristoff@GENBANK.BIO.NET (Dave Kristofferson)
Newsgroups: bionet.general
Subject: Use of BIOSCI/bionet newsgroups by commercial firms on NSFnet
Date: 16 May 91 18:29:44 GMT

I was approached by a publishing firm which wanted to know if it would
be appropriate to use the BIOSCI/bionet newsgroups for surveying its
readers about possible improvements to its journals.  Although I
recently became aware of a change in policy on NSFnet which now
permits commercial concerns to provide support for research and
educational customers over NSFnet, it was not clear whether or not
surveys of our readers by commercial concerns was appropriate.
Because of this, I contacted NSF and was told that commercial concerns
can conduct these kinds of surveys over NSFnet if the surveys are:

        1) posted to newsgroups specifically targeted to their
           research and educational clientele as are the BIOSCI/bionet
           groups.  Posting such surveys to a general interest
           newsgroup, e.g., rec.general 8-), would not be appropriate.

        2) for the purpose of improving services provided to
           research and educational customers.  New product announcements
           and similar advertisements do not fall under this heading,
           but surveys asking for feedback on existing products or
           features that might be desirable in new products are
           permissible. 


Please note that many readers of the BIOSCI/bionet newsgroups are NOT
directly connected to NSFnet or Internet and thus may be governed by
other regulations.  It is the responsibility of the posters of
messages to determine the appropriate use of their network connection.
I can not possibly monitor this kind of point of origin issue on the
BIOSCI/bionet groups and will not attempt to challenge any surveys
that conform to the above regulations (however I will continue to nag
commercial advertisers if they overstep the bounds 8-).

I will also monitor the extent of this kind of traffic on the
BIOSCI/bionet groups.  If any danger presents itself of the newsgroups
becoming overloaded with customer surveys, we may restrict these
postings to a subset of the newsgroups, or have a newsgroup dedicated
completely to this purpose.


Commercial Job Postings:

Because I have received many requests from academic readers on the
topic of commercial job postings on EMPLOYMENT/bionet.jobs, I also
inquired again about this issue.  Unfortunately it still remains the
case that NSFnet does not permit the posting of commercial jobs, so I
must continue to discourage this kind of posting on the BIOSCI
newsgroups.

                                Sincerely,

                                Dave Kristofferson
                                GenBank Manager

                                kristoff@genbank.bio.net