From owner-chromosomes@net.bio.net Sat Sep 03 23:00:00 1994 Path: biosci!aol.com!JWLarrick From: JWLarrick@aol.com Newsgroups: bionet.genome.chromosomes Subject: chromosome 3--short arm Date: 4 Sep 1994 01:37:26 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 5 Sender: daemon@net.bio.net Distribution: world Message-ID: <9409031831.tn264629@aol.com> NNTP-Posting-Host: net.bio.net can you send all known gene mapping to the short arm of chromosome 3? thank you. JWLarrick@AOL.com From owner-chromosomes@net.bio.net Tue Sep 06 23:00:00 1994 Newsgroups: bionet.genome.chromosomes Path: biosci!galaxy.ucr.edu!ihnp4.ucsd.edu!usc!howland.reston.ans.net!EU.net!ub4b!idefix.CS.kuleuven.ac.be!reks.uia.ac.be!krols From: krols@reks.uia.ac.be (Luc.Krols) Subject: Re: chromosome 3--short arm Message-ID: <1994Sep7.100025.23643@reks.uia.ac.be> Organization: U.I.A. X-Newsreader: Tin 1.1 PL5 References: <9409031831.tn264629@aol.com> Date: Wed, 7 Sep 1994 10:00:25 GMT Lines: 5 Try http://gdbwww.gdb.org Much fun. From owner-chromosomes@net.bio.net Tue Sep 06 23:00:00 1994 Path: biosci!HOH.MBL.EDU!mriley From: mriley@HOH.MBL.EDU ("Monica Riley") Newsgroups: bionet.genome.chromosomes Subject: E. coli Genome Meeting Date: 7 Sep 1994 14:29:58 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 34 Sender: daemon@net.bio.net Distribution: world Message-ID: <20115.mriley@hoh.mbl.edu> NNTP-Posting-Host: net.bio.net >Second Announcement: Third International E. coli Genome Meeting > >The Third International E. coli Genome Meeting will be held November >4-8, 1994, at the Marine Biological Laboratory in Woods Hole, >Massachusetts. This Meeting will include invited talks, poster >sessions, and workshops analyzing the E. coli genome at the genetic, >sequence, and structural levels with the goal being to facilitate a >coordinated structure/function analysis of the genome. > >Specific topics will include: status reports on large-scale sequence >efforts; genome mapping technologies; applications of sequence >analysis; genome organization, rearrangements; interrelationships and >demonstrations of databases; global regulatory mechanisms; repeated >sequences; evolutionary origin of genes. > >Speakers will be: A. Bairoch, M. Berlyn, F. Blattner, M. Borodovsky, A. >Campbell, G.Church, A. Danchin, B. Demple, R. Doolittle, B. Hall, M. >Hofnung, K.Isono, P. Karp, E. Kofoid, C. Kurland, S. Letovsky, R. Milkman, >J.Miller, M. O'Neill, J. Ostell, G. Perriere, M. Riley, R. Robbins, S. >Rosenberg, J. Roth, K. Rudd, R. Schleif, T. Schneider, P. Sharp, R. >Van Bogelen, B. Wanner, G. Weinstock, T. Whittam. > >There will be two concurrent sessions of posters and database/software >demonstrations. Poster abstracts or short descriptions of the >database/software you wish to demonstrate should be submitted by >September 26, 1994. > >Advance registration is requested; deadline is September 26, 1994. >For registration materials please send your name and address to: >Conference Services, P.O. Box 477, Woods Hole, MA 02543-0477, phone >508-540-6055, fax 508-540-0155, e-mail confserv@mbl.edu > >Meeting Organizers: M. Riley (Woods Hole), J. Miller (UCLA), P. Sharp >(Nottingham), P. Karp (SRI), and M. Berlyn (Yale). From owner-chromosomes@net.bio.net Fri Sep 16 23:00:00 1994 Path: biosci!news.ohsu.edu!sheaj From: sheaj@ohsu.edu (Jackson Shea) Newsgroups: bionet.genome.chromosomes Subject: Pharmacia ALF Sequencer Date: 17 Sep 1994 00:04:55 GMT Organization: Oregon Health Sciences University Lines: 16 Sender: sheaj@ohsu.edu Message-ID: <35dbr7$o2s@steele.ohsu.edu> NNTP-Posting-Host: 137.53.1.40 An informal poll: How many subscribers out there are using or considering Pharmacia's Automated Laser Fluorescence DNA sequencer? We currently own a unit and have been approaced by Pharmacia regarding using a usenet group as a forum for discussion. I corresponded with Dave Kristofferson at biosci-help and he suggested this newsgroup. Please email responses to sheaj@ohsu.edu Thanks in advance. --------------------------------- Oregon Health Sciences University Voice: (503)494-2444 Molecular Microbiology & Immunology Fax: (503)494-6862 Mail Code L220 inet: sheaj@ohsu.edu Portland, Oregon 97201-3098 USA or jshea@lclark.edu From owner-chromosomes@net.bio.net Sun Sep 18 23:00:00 1994 Path: biosci!news.ohsu.edu!Jackson.Shea From: sheaj@ohsu.edu (Jackson Shea) Newsgroups: bionet.genome.chromosomes Subject: ALF Poll Date: 19 Sep 1994 16:06:03 GMT Organization: Oregon Health Sciences University, Microbiology Lines: 89 Sender: -Not-Authenticated-[2997] Message-ID: <35kctb$ciq@steele.ohsu.edu> NNTP-Posting-Host: 137.53.76.37 X-Posted-From: InterNews 1.0@steele.ohsu.edu. Xdisclaimer: No attempt was made to authenticate the sender's name. Thanks to all who replied. Over the weekend, I got six responses, which was six more than I expected to get since there was no traffic in this newsgroup when I posted. However, I am encouraged by your enthusiasm and will pass the encouraging news to the people in my dept. that are working with the ALF. In fact, I will forward all your email responses so that those who had questions can get a response. I will instruct my people to reply both by email and by posting to this newsgroup. Here's the responses I got: 1. nivil@gengenp.rug.ac.be (Nino Villarroel) We have one ALF DNA SEQUENCER and also the 373A from ABI. I would suggest one more general group like AUTOMATIC DNA SEQUENCERS and we could include also the other machines in the market like LYCOR, VISTRA, MILLIPORE, etc. Raimundo Villarroel Lab of Genetics University of Ghent Belgium 2. Tom_Keller@gene.biotech.wisc.edu We are considering getting one. I would be very interested in knowing your reasons for purchasing one, and your level of satisfaction with it. 3. DELABAR@ARTHUR.CITI2.FR We are using a ALF seq and are interested by a news group. 4. ROOS@operoni.Helsinki.FI The Institute of Biotechnology at the University of Helsinki is running an ALF and we've in fact been talking about a news group or a mailing list with Pharmaciea for at least two years, so we warmly support the idea. Christophe Roos computer system manager P.S. I'll forward this mail to PAULIN@operoni.helsinki.fi (Lars Paulin), who is responsible for the sequencing unit. 5. gabor@ruf.uni-freiburg.de We have been using an A.L.F. for about a year, and before that the EMBL prototype of the A.L.F. Both machines are running in routine research projects within our core facility. Regards, Dr. Gabor Igloi 6. URA1335@ARTHUR.CITI2.FR hi! This idea is great! I want to participate to the creation of this discussion group and wait for your suggestions. Dr. Bernard ARAL Thanks again. Jackson Shea --------------------------------- Oregon Health Sciences University Voice: (503)494-2444 Molecular Microbiology & Immunology Fax: (503)494-6862 Mail Code L220 inet: sheaj@ohsu.edu Portland, Oregon 97201-3098 USA or jshea@lclark.edu From owner-chromosomes@net.bio.net Thu Sep 22 23:00:00 1994 Path: biosci!bcm!cs.utexas.edu!howland.reston.ans.net!news.sprintlink.net!uunet!illuminati.io.com!nobody From: buc@pentagon.io.com (Craig Fox) Newsgroups: bionet.genome.chromosomes Subject: Chromosome Harvesting Date: 22 Sep 1994 21:47:06 -0500 Organization: Illuminati Online Lines: 16 Sender: buc@io.com (buc) Distribution: na Message-ID: <35tfja$a9c@pentagon.io.com> NNTP-Posting-Host: pentagon.io.com Keywords: cytogenetics Is anyone out there an expert in chromosome harvest? I have had the hardest time trying to get consistent harvests. Were I work we use a Tecan and a special drying chamber, so all of our sections harvests should be very consistent, but they are not. I have noticed that I am getting good spreading under the phase scope but after they are stained the chromosomes are often dark (but not under banded) chewy, split and I have alot of cyto. I also get alot of nice stuff. If anyone has had similar problems harvesting and has found a way to get consistently ok to good harvests, please let me know how you did it. Thanx buc From owner-chromosomes@net.bio.net Sun Sep 25 23:00:00 1994 Path: biosci!daresbury!trane.uninett.no!sunic!uunet!news.sprintlink.net!howland.reston.ans.net!cs.utexas.edu!geraldo.cc.utexas.edu!smf-m3.facsmf.utexas.edu!jtg From: john t. gonzales Newsgroups: bionet.genome.chromosomes Subject: need info on calf born artificially Date: 26 Sep 1994 16:07:07 GMT Organization: UT Austin Lines: 5 Distribution: world Message-ID: <366rjb$c1@geraldo.cc.utexas.edu> NNTP-Posting-Host: smf-m3.facsmf.utexas.edu X-Newsreader: Nuntius Version 1.2 X-XXMessage-ID: X-XXDate: Mon, 26 Sep 1994 17:07:07 GMT i saw a story on the news about a month where a calf was born completely artificially. that is to say without being inside the womb of a real cow or even being placed in one after it got going. does anyone know anything about this i.e. where it happened or where i can read more about. thanx for the help!!!! From owner-chromosomes@net.bio.net Mon Sep 26 23:00:00 1994 Path: biosci!CORNELL.EDU!gy11 From: gy11@CORNELL.EDU (Guangning Ye) Newsgroups: bionet.genome.chromosomes Subject: (none) Date: 27 Sep 1994 08:26:53 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 2 Sender: daemon@net.bio.net Distribution: world Message-ID: <199409271526.LAA02603@postoffice.mail.cornell.edu> NNTP-Posting-Host: net.bio.net subscribe From owner-chromosomes@net.bio.net Mon Sep 26 23:00:00 1994 Path: biosci!daresbury!not-for-mail From: Andrew John Lowe Newsgroups: bionet.genome.chromosomes Subject: Re: subscribe Date: 27 Sep 1994 19:35:57 +0100 Lines: 6 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <369omd$ssd@mserv1.dl.ac.uk> Original-To: biochrom@dl.ac.uk > Please add me to the subscription list > thanks > Andrew Lowe From owner-chromosomes@net.bio.net Tue Sep 27 23:00:00 1994 Path: biosci!OLLAMH.UCD.IE!TGALLAGH From: TGALLAGH@OLLAMH.UCD.IE ("Thomas F. Gallagher ") Newsgroups: bionet.genome.chromosomes Subject: subscribe Date: 28 Sep 1994 00:41:37 -0700 Organization: University College Dublin Lines: 1 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net please add me to the subscription list From owner-chromosomes@net.bio.net Tue Sep 27 23:00:00 1994 Path: biosci!bcm!cs.utexas.edu!howland.reston.ans.net!swiss.ans.net!solaris.cc.vt.edu!news.duke.edu!godot.cc.duq.edu!newsfeed.pitt.edu!dsinc!netnews.upenn.edu!news.cc.swarthmore.edu!news.haverford.edu!s159.union_roberts.haverford.edu!user From: jturner@haverford.edu () Newsgroups: bionet.genome.chromosomes Subject: Hugo News Followup-To: bionet.genome.chromosomes Date: 28 Sep 1994 17:39:27 GMT Organization: Bryn Mawr and Haverford College NetNews Lines: 6 Message-ID: NNTP-Posting-Host: 165.82.11.159 i am a Haverford undergrad with a very limited access to info. Does anybody out there have any news on the progress of the HUGO project? I would appreciate any comments anyone has... From owner-chromosomes@net.bio.net Wed Sep 28 23:00:00 1994 Path: biosci!bcm!cs.utexas.edu!howland.reston.ans.net!usc!nic-nac.CSU.net!charnel.ecst.csuchico.edu!csusac!csus.edu!netcom.com!ix.netcom.com!netnews From: TC@ix.netcom.com (Drew Reichelt) Newsgroups: bionet.genome.chromosomes Subject: Re: Chromosome Harvesting Date: 28 Sep 1994 23:44:21 GMT Organization: Netcom Lines: 23 Distribution: world Message-ID: <36cv4l$7j6@ixnews1.ix.netcom.com> NNTP-Posting-Host: ix-dfw2-02.ix.netcom.com In <35tfja$a9c@pentagon.io.com> buc@pentagon.io.com (Craig Fox) writes: > >Is anyone out there an expert in chromosome harvest? > >I have had the hardest time trying to get consistent harvests. Were I >work we use a Tecan and a special drying chamber, so all of our sections >harvests should be very consistent, but they are not. > >I have noticed that I am getting good spreading under the phase scope >but after they are stained the chromosomes are often dark (but not under >banded) chewy, split and I have alot of cyto. I also get alot of nice >stuff. If anyone has had similar problems harvesting and has found a >way to get consistently ok to good harvests, please let me know how you >did it. > >Thanx >buc > > I have no idea, sorry can't help! Drew From owner-chromosomes@net.bio.net Thu Sep 29 23:00:00 1994 Path: biosci!news.ohsu.edu!sheaj From: sheaj@ohsu.edu (Jackson Shea) Newsgroups: bionet.genome.chromosomes Subject: DNA Sequencing Discussion Newsgroup Update Date: 30 Sep 1994 17:03:39 GMT Organization: Oregon Health Sciences University Lines: 209 Sender: sheaj@ohsu.edu Message-ID: <36hgdb$3h@steele.ohsu.edu> NNTP-Posting-Host: 137.53.10.2 Keywords: newsgroup,sequencing,ALF,ABI,Pharmacia Well, folks, thank you for your patience, but most of all, thank you for your enthusiasm and the time you took to respond to my poll. As I may have mentioned to some of you, in a week, I got responses from 15 people from all over the world (as you can see since this is a mass mailing). On Monday, I summarized all the responses and grouped them into about three categories and sent them off to Rich Walko, who works for Pharmacia and CC'd a copy to the director of the core facility here in my department: 1. Those who have either ALF or ABI sequencers and expressed interest, but didn't have any comments or questions. (I wasn't expecting any since I was only asking if people were interested.) 2. Those who have either ALF or ABI sequencers and expressed interest, and went one step further and actually sent questions or comments about po- tential topics of discussion. [I have included them below to hopefully spark some discussion.] 3. Others, those who are considering ALFs, or didn't specify whether they had a sequencer or not. 4. I also received some extremely helpful messages from Bruce Roe, the co-founder of the bionet.genome.chromosomes group. His support and cautionary (and encouraging) words were much appreciated. As I mentioned above, I sent the messages on to Rich at pharmacia on Monday and he responded by saying that they were going to talk about this at a (A copy of Rich's response is included below, indicated by >). meeting and that he'll get back to me. Since I haven't heard back from him and I mentioned to several of you that I would post something this week, here it is. I'll post something again after I hear from Rich. Now, as I under- stand it, this group is UNMODERATED, so please reinforce my faith in the in- ternet scientific community and keep discussions somewhat focussed, but most importantly, polite and respectful. Don't get me wrong, please go off on tangents, that's what this is all about, but let's not sell cars or stereo equipment in this group, good deal on reagents, that's okay, but no electric breadmakers 8^). This reminds me, someone suggested that this discussion could take place in the newsgroup bionet.molbio.methds-reagnts. As I responded below with my annotation to Rich, I feel this group is too high traffic and that Bruce Roe really laid a wonderful foundation with the bionet.genome.chromosomes group, but that I will cross-post the introductory remarks to that group as well as bionet.announce. Just a point of clarification. I'm not posting this message you're reading, because I want to get some response from pharmacia before I do that. So, with that, Thanks again for your participation and I hope this endeavor proves to merit the attention it has received. Sincerely, Jackson Shea catalytic agent (by the way, it's Mr., not Dr.; but thanks for giving me the benefit of the doubt.) --------------------------------- Oregon Health Sciences University Voice: (503)494-2444 Molecular Microbiology & Immunology Fax: (503)494-6862 Mail Code L220 inet: sheaj@ohsu.edu Portland, Oregon 97201-3098 USA or jshea@lclark.edu >Message from Rich Walko >From: !RichWalko@aol.com >Date: Mon Sep 26 21:15:28 EDT 94 >Subject: Copies of responses >To: !sheaj@ohsu.EDU >Content-Type: text >Content-Length: 414 > >Jackson, Thanks much for forwarding the responses from the bionet.... >We are meeting in Pharmacia this week and I will be bringing up the new >newsgroup and see how we can work this to keep it organized. I'll be back to >you in a few days. > > Best wishes, > > Rich Walko ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ Group 2: THE FOLLOWING 4 COMMENTS ARE FROM RESPONDENTS WHO HAVE ALF OR ABI SEQUENCERS AND ARE INTERESTED IN THE GROUP, AND HAVE SPECIFIC QUESTIONS/COMMENTS. ================================================== 1. From: !nivil@gengenp.rug.ac.be (Nino Villarroel) Date: Sat Sep 17 13:49:00 +0100 94 Subject: Re: Pharmacia ALF Sequencer Cc: !nivil@gengenp.rug.ac.be Cc: !jagie@gengenp.rug.ac.be We have one ALF DNA SEQUENCER and also the 373A from ABI. I would suggest one more general group like AUTOMATIC DNA SEQUENCERS and we could include also the other machines in the market like LYCOR, VISTRA, MILLIPORE, etc. Raimundo Villarroel Lab of Genetics University of Ghent Belgium --------- 2. From: !lwashing@sunflower.bio.indiana.edu (Lawrence Washington) Date: Mon Sep 19 16:02:49 -0500 1994 Subject: Re: Pharmacia ALF Sequencer References: <35dbr7$o2s@steele.ohsu.edu> Organization: Indiana University Dear Jackson Shea, I have a Li-Cor autosequencer, which is, I think, more closely related to your Pharmacia than to ABI's. I would be interested in following your discussions even though I might not have a lot to contribute. By the way, why use genome.chromosomes instead of methds-reagnts? That is where I usually check for autosequencing postings. Lawrence Washington [**NOTE: Incidentally, you might want to check out bionet.molbio.methds-reagnts but I think it's too high traffic. What I will do, however, is post messages simultaneously to bionet.genome.programs, bionet.molbio.methds-reagnts, and bionet.announce when the introductory message is ready and let people in all those grousp know that bionet.genome.chromosome will now be the place to discuss the ALF sequencer and related issues. Jackson] --------- 3. Date: Mon, 19 Sep 94 22:09:01 CDT From: Mary Irene Coolbaugh To: jshea@lclark.edu Subject: ALF newsgroup Hello Mr/Dr. J. Shea, We too have an ALF sequencer. Casey Chin at Pharmacia told me that some of the northwest users were putting together a newsgroup, and I finally saw your notice on bionet.genome.chromosomes.:> Maybe this'll prompt the folks at Pharmacia to join the rest of us and get on the Inet....? Essentially, we have our ALF linked/mounted on our UNIX SYSTEM via DOS-Windows for the networking. The data is dumped onto the unix drive [great storage] then automatically batched out to fasta and blast searches---the results are automatically sent to the directory of the sequences' "owner"....thus not clogging up _my_ mailbox. Anyway, the Dos link isn't pretty, but since Baylor Unix/Network support refuses to support OS2 and/or OS2 networking, well, you just do whatcha gotta do.... I'd _really_ like to network through OS2, but I'd need to talk to somebody who's done it - successfully. By the way, Casey informed me last week that he's gotten an "off-site" net account. You can reach him at cchin@crl.com -- he'd be glad to know this thing is getting off the ground. [I know I am.] So --- What's your intended purpose for this little forum? Exchange of protocols, tips, tricks, and traps to watch out for? Computing assistance -- how to get OS2 to do what _you_ want it to do? Or just general gritch sessions? Who else is in here? [So much to find out, and so little time....] later, Mary Coolbaugh Murphy Molecular and Human Genetics T836 One Baylor Plaza Houston, TX 77030 Voice: [713]-798-6548 [713]-798-4774 Fax: [713]-798-7383 inet: maryic@bcm.tmc.edu or maryic@kiwi.bcm.tmc.edu --------- 4. From: !BROE@aardvark.ucs.uoknor.edu Date: Thu Sep 22 10:59 CDT 94 Subject: RE: ALF Poll Jackson, I tried something like this for and ABI user group and quite frankly it was a waste of time. This then led to the creation of biochrom@net.bio.net. I'd suggest that one of the stated purposes of this news group is to discuss automated sequencing so it might be best to deal with your suggestion by just having everyone ask questions to this news group. Doing an e-mail group was a big pain and really didn't do what it was supposed to. Cheers.......bruce - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - \ Bruce A. Roe Dept. Chemistry and Biochemistry / / BROE@uoknor.edu University of Oklahoma \ - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - [**NOTE: I think Bruce is making a great point. I think we should concentrate on just using the newsgroup as opposed to doing a news- group AND a mailing list as well. Ken should, however keep a pretty close watch on the group and be sure to save postings that might have lasting value. Also, Bruce should receive a great deal of credit for having set up this newgroup originally and is now kind enough to offer his advice and participation. I'm emailing a copy of the original charter that he sent me.]