From owner-chromosomes@net.bio.net Wed Jun 01 23:00:00 1994 Newsgroups: bionet.genome.chromosomes Path: biosci!lhc!borduas!francis From: francis@borduas.nlm.nih.gov (Francis Ouellette) Subject: New e-mail server for retrieving ESTs and STSs Message-ID: <1994Jun2.215031.23030@nlm.nih.gov> Sender: news@nlm.nih.gov Organization: National Library of Medicine X-Newsreader: Tin 1.1 PL4 Date: Thu, 2 Jun 94 21:50:31 GMT Lines: 81 [ Article crossposted from bionet.molbio.genbank ] [ Author was Francis Ouellette (francis@borduas.nlm.nih.gov) ] [ Posted on Thu, 2 Jun 94 21:48:58 GMT ] ============================================================== New e-mail server for retrieving ESTs and STSs by map location dbEST is NCBI's database of "Expressed Sequence Tags" and contains all PUBLICLY AVAILABLE information on cDNA projects from 60 different contributing laboratories. dbEST contains nearly 35,000 sequences from 16 different organisms and 122 different cDNA libraries. dbEST has been operating for more than 2 years and usage has increased approximately 10-fold over the past 12 months: dbEST is now the second most frequently- searched database at NCBI. STSs or "Sequence Tagged Sites" are short tracts of single-copy DNA sequences that are used as markers for the physical mapping of genomes (Olson M, Hood L, Cantor C, Botstein D Science 245: 1434-5 (1989)). To facilitate access to STS data in GenBank, we have created a new database, dbSTS, and a new division of GenBank. Now, for both STS and EST data, one may retrieve data based on chromosome assignment or a more detailed map location. To obtain a 'help' document describing the use of this resource: --------------------------------------------------------------------------- mail retrieve@ncbi.nlm.nih.gov Subject: datalib dbest {or dbsts} help --------------------------------------------------------------------------- A sample query that will retrieve all ESTs (or STSs) on chromosome 7: --------------------------------------------------------------------------- mail retrieve@ncbi.nlm.nih.gov Subject: datalib dbest {or dbsts} datatype chrom org Homo sapiens rpt 7 --------------------------------------------------------------------------- --------------------------------------------------------------------------- All retrieve services at NCBI are being consolidated into one address, retrieve@ncbi.nlm.nih.gov, but there is a specific syntax for retrieval by map location as illustrated in the above example and described more fully in the 'help' document. In addition to providing new retrieval services for STSs and ESTs, we have also implemented new streamlined submission procedures for these large data sets. Please contact info@ncbi.nlm.nih.gov for more information. ========================================================================== GenBank National Center for Biotechnology Information Building 38A, Rm 8N-803 National Library of Medicine, National Institutes of Health Bethesda, MD, 20894, USA telephone: +1 (301) 496-2475 fax: +1 (301) 480-9241 e-mail: info@ncbi.nlm.nih.gov WWW URL: http://www.ncbi.nlm.nih.gov ========================================================================== -- | B.F. Francis Ouellette | | francis@ncbi.nlm.nih.gov From owner-chromosomes@net.bio.net Fri Jun 03 23:00:00 1994 Path: biosci!agate!spool.mu.edu!nigel.msen.com!zib-berlin.de!tertius.in-berlin.de!mpimg-berlin-dahlem.mpg.de!andre Newsgroups: bionet.genome.chromosomes,bionet.genome.arabidopsis Subject: YAC vectors w/rare-cutter sites? Message-ID: <1994Jun4.144303.1@mpimg-berlin-dahlem.mpg.de> From: andre@mpimg-berlin-dahlem.mpg.de Date: 4 Jun 94 14:43:03 +0100 Organization: MPI f. Molekulare Genetik, Berlin Nntp-Posting-Host: pluto Nntp-Posting-User: andre Lines: 10 Xref: biosci bionet.genome.chromosomes:243 bionet.genome.arabidopsis:2164 Hello, Does anybody know of a YAC vector containing an AscI site in the cloning site (or, for that matter, a vector with any rare-cutting restriction sites besides NotI. Thanks in advance. Charles Andre From owner-chromosomes@net.bio.net Mon Jun 06 23:00:00 1994 Path: biosci!agate!howland.reston.ans.net!pipex!sunic!trane.uninett.no!eunet.no!nuug!EU.net!uunet!news1.digex.net!usenet From: sdoyle@cadillac.digex.net Newsgroups: bionet.genome.chromosomes Subject: Info wanted on DISOMY/DELETIONS on #15 Date: 7 Jun 1994 14:04:18 GMT Organization: Citizens United Lines: 14 Message-ID: <2t1up2$bhr@news1.digex.net> Reply-To: sdoyle@cadillac.digex.net NNTP-Posting-Host: cadillac.digex.net X-Newsreader: IBM NewsReader/2 v1.00 My son has Prader-Willi syndrom which is a genetic disorder caused by either a deletion or uniparental disomy on chromosone 15. I am trying to do some research on the net and I am looking for any information on (obviously)prader willi, angelman syndrome(also caused by problem with #15 but different), affects of disomy and its role in other disorders. I would greatly appreciate it if someone could point me in the right direction on the net for this kind of, or any type of medical information. Thanks in advance. Sean Doyle From owner-chromosomes@net.bio.net Mon Jun 06 23:00:00 1994 Path: biosci!GALAXY.GOV.BC.CA!PMACLEOD From: PMACLEOD@GALAXY.GOV.BC.CA (Patrick Macleod 727-4461) Newsgroups: bionet.genome.chromosomes Subject: PRADER WILLI SYNDROME Date: 7 Jun 1994 12:44:46 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 11 Sender: daemon@net.bio.net Distribution: world Message-ID: <01HD9EV1TP0ECVAHWS@mr.gov.bc.ca> NNTP-Posting-Host: net.bio.net This area of human developmental biology is receiving worldwide attention. It has been nicely reviewed in and editorial by Robert D Nicholls writing in the American Journal of Human Genetics 54:733-740, 1994(May) There is a large international parents support newtwork accesible by contacting Tere A Schaefer 6490 Excelsior Blvd Suite E103 St Louis Park Minnesota 55426 612 926 1947 From owner-chromosomes@net.bio.net Mon Jun 06 23:00:00 1994 Path: biosci!MCZ.HARVARD.EDU!dmw From: dmw@MCZ.HARVARD.EDU (Dan Weinreich) Newsgroups: bionet.genome.chromosomes Subject: Re: Info wanted on DISOMY/DELETIONS on #15 Date: 7 Jun 1994 10:44:01 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 29 Sender: daemon@net.bio.net Distribution: world Message-ID: References: <2t1up2$bhr@news1.digex.net> Reply-To: Dan Weinreich NNTP-Posting-Host: net.bio.net The genetic relationship between PWS and AS is remarkable. They are both generally associated with a cytogentic deletion of on the long arm of chromosome 15 (15q11q13), or uniparental disomy of chromosome 15. However, PWS patients have the deletion on the chromosome of paternal origin or maternal disomy; AS patients have the deletion on the chromosome of maternal origin or parental disomy. Apparently parental imprinting is responsible: failure to express from the paternal copy (for whatever reason) results in PWS, and failure to express from the maternal copy results in AS. I gleened all of this from Marc E. Lalande's work described in the 1994 Howard Hughes Medical Institute publication _Research_In_Progress_. Hope it helps. ------------------------------------------------------------------- Dan Weinreich email: dmw@mcz.harvard.edu Harvard University usmail: 26 Oxford Street Museum of Comparative Zoology Cambridge, MA 02138 voice: (617) 495-1954 fax: (617) 495-5667 ------------------------------------------------------------------- From owner-chromosomes@net.bio.net Tue Jun 07 23:00:00 1994 Path: biosci!agate!howland.reston.ans.net!EU.net!uknet!bt!npatel From: npatel@axion.bt.co.uk (Navin Patel) Newsgroups: bionet.genome.chromosomes Subject: Robertsonian Translocation Date: 8 Jun 1994 14:52:36 GMT Organization: BT Laboratories Lines: 24 Distribution: world Message-ID: <2t4lvk$8ng@pheidippides.axion.bt.co.uk> NNTP-Posting-Host: baloo.axion.bt.co.uk Mime-Version: 1.0 Content-Type: text/plain; charset=US-ASCII Content-Transfer-Encoding: 7bit Case ---- Due to triple test referral, my friend had an amniocentesis done. Results ------- The investigation showed that a large metacentric chromosome present, this is due to centric fusion between a no. 14 and a no. 15 chromosome (45,XY,-14,-15,+t(14q15q), this chromosome is present in the father. Therefore the baby is the carrier of a "Familial Robertsonian Translocation". Other known facts ----------------- My friend has suffered multiple miscarriages. Quest ----- I would like information on above metioned result, ie impact, effect etc. From owner-chromosomes@net.bio.net Tue Jun 07 23:00:00 1994 Path: biosci!agate!howland.reston.ans.net!pipex!bt!npatel From: npatel@axion.bt.co.uk (Navin Patel) Newsgroups: bionet.genome.chromosomes Subject: test Date: 8 Jun 1994 14:37:12 GMT Organization: BT Laboratories Lines: 1 Distribution: world Message-ID: <2t4l2o$8jl@pheidippides.axion.bt.co.uk> NNTP-Posting-Host: baloo.axion.bt.co.uk Mime-Version: 1.0 Content-Type: text/plain; charset=US-ASCII Content-Transfer-Encoding: 7bit test From owner-chromosomes@net.bio.net Wed Jun 08 23:00:00 1994 Path: biosci!GALAXY.GOV.BC.CA!PMACLEOD From: PMACLEOD@GALAXY.GOV.BC.CA (Patrick Macleod 727-4461) Newsgroups: bionet.genome.chromosomes Subject: Robertsonian Translocations Date: 9 Jun 1994 08:50:08 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 13 Sender: daemon@net.bio.net Distribution: world Message-ID: <01HDBZ5W4ZDGCVARS7@mr.gov.bc.ca> NNTP-Posting-Host: net.bio.net This is a much too complicated and potentially dangerous topic for an a adequate explaination over the NET. A place to begin would be in the chapters in Chromosome Abnormalities and Genetic Counselling by Gardner R.J.M. and Sutherland, G.M.ISBN 0195049321 published by Oxford University Press and available through most Med School Libraries. If you tell me more about your city I can put you in touch with the local genetic counselling clinic. THe fact that your friends were ascertained because of recurrent miscarriage is one big factor in their favor. From owner-chromosomes@net.bio.net Thu Jun 09 23:00:00 1994 Path: biosci!internet!biosci!not-for-mail From: kristoff (David Kristofferson) Newsgroups: bionet.genome.chromosomes Subject: UNSUBSCRIBING, BIOSCI ARCHIVES, ADDRESS DATABASE & BIOSCI FAQ Date: 10 Jun 1994 02:00:21 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 319 Sender: daemon@net.bio.net Distribution: world Message-ID: <199406100900.CAA20459@net.bio.net> NNTP-Posting-Host: net.bio.net Four important items follow: How to cancel e-mail subscriptions to BIOSCI newsgroups, BIOSCI archive searching, the BIOSCI FAQ, and the BIOSCI User Address Directory form. If you have not yet listed yourself in our BIOSCI user directory, please take a few minutes to complete and return the form below. If your personal information has changed since you listed yourself, please send us a complete new updated form. We can not make manual revisions to existing entries. Sincerely, Dave Kristofferson BIOSCI/bionet Manager biosci-help@net.bio.net **** How to cancel a BIOSCI e-mail subscription **** If you want to cancel your e-mail subscription to this group, PLEASE DO NOT POST YOUR UNSUBSCRIBE REQUEST TO THE NEWSGROUP ADDRESS (NOR REPLY TO A MESSAGE POSTED TO THE NEWSGROUP)!!! This would send your request to all of the readers of the newsgroup, but it might still not be seen by the BIOSCI staff - thus you would annoy many people and possibly not accomplish your goal anyway. IF YOU ARE LOCATED IN THE AMERICAS OR PACIFIC RIM COUNTRIES, please send a message to biosci@net.bio.net Instructions will be returned automatically, so the contents of your message do not matter. IF YOU ARE LOCATED IN EUROPE, AFRICA OR CENTRAL ASIA, please send a message to MXT@dl.ac.uk containing the word help in the body of the message to retrieve e-mail server instructions. 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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/doc/biosci.FAQ or for retrieval by gopher to net.bio.net, port 70. It may also be requested by sending the command info faq in the body of an e-mail message to the Internet address biosci-server@net.bio.net. Please do not enter the info faq command on the Subject: line of your message since the e-mail server ignores text on the Subject: line. 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. **** BIOSCI USER ADDRESS DIRECTORY **** Please take this opportunity to add your name and address information to the BIOSCI User Address Database if you have not already done so. Below is the address form that we would like each reader of the BIOSCI/bionet newsgroups to complete and return if you would like to be listed in our database. The database serves as a directory that enables biologists, who are currently using (or even just reading) the BIOSCI newsgroups, to look up e-mail addresses and other information about our users. The address database is reindexed nightly for WAIS, waismail, and gopher access. If you have access to gopher, connect to net.bio.net to search the database. If you have access to WAIS, please use our WAIS source biologists-addresses.src. If you are not on the Internet, please use our waismail server (send the word "help" to waismail@net.bio.net to get instructions; any text on the Subject: line of your message will be ignored, so put the help command in the body of the mail message.). Please carefully follow the instructions for completing the form below and return it to either of the following two addresses (whichever is more convenient for you). Thanks in advance for taking the time to complete and return the form. Addresses for returning forms Location Network ----------------------------- -------- ------- biovote@net.bio.net U.S.A. Internet/BITNET biovote@daresbury.ac.uk U.K. JANET MAKING SURE THAT YOUR INFORMATION IS CURRENT This notice will be mailed bimonthly to each newsgroup. You should check your database entry from time-to-time to see if your address information is still up-to-date. Using Gopher to complete the form --------------------------------- If you don't want to use a text editor, you can also use Dan Jacobson's gopher site to fill out the address database form as follows. Otherwise skip this section on gopher and proceed to the instructions for filling out the form below. > To add yourself to the database just point your > gopher client at merlot.gdb.org and select the following: > > --> 15. Searching For Biologists/ > > --> 9. E-mail Addresses of Biosci-Bionet Users/ > > --> 1. 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For example: comment: ARABIDOPSIS PLANT-BIOLOGY BIONEWS On the comment: lines use these names below ---- NOT the USENET names below MAILING LIST NAME USENET Newsgroup Name ----------------- --------------------- ACEDB-SOFT bionet.software.acedb AGEING bionet.molbio.ageing AGROFORESTRY bionet.agroforestry ARABIDOPSIS bionet.genome.arabidopsis BIOFORUM bionet.general BIO-INFORMATION-THEORY bionet.info-theory BIONAUTS bionet.users.addresses BIONEWS bionet.announce BIO-JOURNALS bionet.journals.contents BIO-MATRIX bionet.molbio.bio-matrix BIOPHYSICAL-SOCIETY bionet.prof-society.biophysics BIOPHYSICS bionet.biophysics BIO-SOFTWARE bionet.software BIOTHERMOKINETICS bionet.metabolic-reg CELL-BIOLOGY bionet.cellbiol CHLAMYDOMONAS bionet.chlamydomonas CHROMOSOMES bionet.genome.chromosomes COMPUTATIONAL-BIOLOGY bionet.biology.computational CYTONET bionet.cellbiol.cytonet DROSOPHILA bionet.drosophila EMBL-DATABANK bionet.molbio.embldatabank EMPLOYMENT bionet.jobs GDB bionet.molbio.gdb GENBANK-BB bionet.molbio.genbank GENETIC-LINKAGE bionet.molbio.gene-linkage GRASSES-SCIENCE bionet.biology.grasses HIV-MOLECULAR-BIOLOGY bionet.molbio.hiv HUMAN-GENOME-PROGRAM bionet.molbio.genome-program IMMUNOLOGY bionet.immunology INFO-GCG bionet.software.gcg JOURNAL-NOTES bionet.journals.note METHODS-AND-REAGENTS bionet.molbio.methds-reagnts MOLECULAR-EVOLUTION bionet.molbio.evolution MYCOLOGY bionet.mycology NEUROSCIENCE bionet.neuroscience N2-FIXATION bionet.biology.n2-fixation PARASITOLOGY bionet.parasitology PHOTOSYNTHESIS bionet.photosynthesis PLANT-BIOLOGY bionet.plants POPULATION-BIOLOGY bionet.population-bio PROTEIN-ANALYSIS bionet.molbio.proteins PROTEIN-CRYSTALLOGRAPHY bionet.xtallography PROTISTA bionet.protista RAPD bionet.molbio.rapd SCIENCE-RESOURCES bionet.sci-resources STRUCTURAL-NMR bionet.structural-nmr TROPICAL-BIOLOGY bionet.biology.tropical VIROLOGY bionet.virology WOMEN-IN-BIOLOGY bionet.women-in-bio YEAST bionet.molbio.yeast Listing newsgroups on the comment: line is optional, of course. Thanks again for your cooperation! --------------- please cut here and return portion below --------------- New information or Update to old record (enter N or U): date (DD-MM-YY): first name: middle initial: family name: job title: e-mail address: e-mail network: phone number: FAX number: institution: address1: address2: address3: city: state/province: country: postal code: research interest: research interest: comment: comment: comment: comment: comment: From owner-chromosomes@net.bio.net Mon Jun 13 23:00:00 1994 Path: biosci!agate!howland.reston.ans.net!cs.utexas.edu!not-for-mail From: lhs@iucaa.ernet.in (Laxman Sahasrabuddhe) Newsgroups: bionet.genome.chromosomes Subject: Q: Help for Friedrich's Ataxia Date: 14 Jun 1994 05:18:05 -0500 Organization: UTexas Mail-to-News Gateway Lines: 9 Sender: nobody@cs.utexas.edu Message-ID: <9406141048.AA20894@iucaa> NNTP-Posting-Host: news.cs.utexas.edu My friend has Friedrich's ataxia. His sister is getting married. What are the chances that his sister's children will have the disease. Is the gene a recessive gene? Can one find this information through some sort of DNA testing? How sure can a doctor be with his answer if he is allowed to perform all the necessary tests? Please mail all the answers to lhs@iucaa.ernet.in. I am not a biologist so please try and answer the questions in a laymans language. From owner-chromosomes@net.bio.net Wed Jun 15 23:00:00 1994 Path: biosci!AMGEN.COM!SCLARK From: SCLARK@AMGEN.COM (Steve Clark) Newsgroups: bionet.genome.chromosomes Subject: Quantifying hybridization to arrayed colonies Date: 16 Jun 1994 16:34:36 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 21 Sender: daemon@net.bio.net Distribution: world Message-ID: <940616163439.1a8@amgen.com> NNTP-Posting-Host: net.bio.net Hi, I'm trying to locate software that can be used to quantify hybridization to arrayed colonies that have been spotted, in an interleaved fashion, on membranes. The colonies will have been spotted on the filter from 96 well (or denser) microtitre plates in a 3x3 to 5x5 interleaved pattern (that is, 9 to 25 plates of clones will be spotted on one filter). The software should be able to read a rasterized image of the autorad, automatically locate the colonies and write out a file with the colony positions and the amount of hybridization. If anyone knows of people or groups using or developing such software, I would appreciate hearing about them. (For hardware, we prefer something that will run on a Mac or Sun, but we can handle just about anything.) Thanks in advance for the help. I'll summarize the responses back to the newsgroup. Steve Clark sclark@amgen.com From owner-chromosomes@net.bio.net Thu Jun 16 23:00:00 1994 Path: biosci!SLUVCA.SLU.EDU!PHILLINJ From: PHILLINJ@SLUVCA.SLU.EDU ("Nancy J. Phillips, M.D.") Newsgroups: bionet.genome.chromosomes Subject: lambda Charon 40 in RecA- host Date: 17 Jun 1994 16:52:28 -0700 Organization: SAINT LOUIS UNIVERSITY St. Louis, MO Lines: 16 Sender: daemon@net.bio.net Distribution: world Message-ID: <01HDNQ3WPLG290PTWI@SLUVCA.SLU.EDU> NNTP-Posting-Host: net.bio.net Dear netters, Does anyone have suggestions on how to get decent titers/DNA yields with lambda Charon 40 clones in the recA- host K802recA-? I have tried liquid lysates with multiplicities of infection from 1:100 to 1:500 and 4 - 12 hour incubations, and media including LB/1mM MgCl2 and LB/2 mM CaCl2/10 mM MgSO4/0.1% glucose. Also, is PEG-8000/NaCl precipitation of lambda inherently inefficient at low titers? I follow the usual Maniatis protocol. Thanks! Nancy Phillips phillinj@sluvca.slu.edu Pathology phone:(314)577-8782 St. Louis University Hospital fax:(314)268-5120 3635 Vista Ave. St. Louis MO 63110 USA From owner-chromosomes@net.bio.net Thu Jun 16 23:00:00 1994 Path: biosci!agate!howland.reston.ans.net!xlink.net!scsing.switch.ch!swidir.switch.ch!univ-lyon1.fr!bmpc6.univ-lyon1.fr!alain From: alain@bmserveur.univ-lyon1.fr Newsgroups: bionet.genome.chromosomes Subject: transposon -like human element Date: Fri, 17 Jun 1994 14:55:25 Organization: C.I.S.M. Universite de Lyon 1 / INSA de Lyon Lines: 2 Message-ID: NNTP-Posting-Host: bmpc6.univ-lyon1.fr X-Newsreader: Trumpet for Windows [Version 1.0 Rev A] Are there other THE describe in literatures. Send anserw to Charlot@bmserveur-univ-lyon1.fr From owner-chromosomes@net.bio.net Sat Jun 18 23:00:00 1994 Newsgroups: bionet.genome.chromosomes,bionet.structural-nmr Path: biosci!agate!spool.mu.edu!sol.ctr.columbia.edu!usenet.ucs.indiana.edu!silver.ucs.indiana.edu!bhostetl From: bhostetl@silver.ucs.indiana.edu (Brian Hostetler) Subject: Needed: info on Protein <-> Nucleic Acid Interactions Message-ID: Sender: news@usenet.ucs.indiana.edu (USENET News System) Nntp-Posting-Host: silver.ucs.indiana.edu Organization: Indiana University, Bloomington IN Date: Sun, 19 Jun 1994 21:35:33 GMT Lines: 9 Xref: biosci bionet.genome.chromosomes:255 bionet.structural-nmr:146 I'm looking for information (databases, pages, etc) on Protein <-> Nucleic Acid interactions (databases, pages, etc). Please reply via e-mail. Thank you, -- Brian "Life is a sexually transmitted disease with a terminal prognosis." http://sparrow.bio.indiana.edu/brian/me From owner-chromosomes@net.bio.net Sun Jun 19 23:00:00 1994 Newsgroups: bionet.genome.chromosomes Path: biosci!agate!howland.reston.ans.net!gatech!udel!news2.sprintlink.net!news.sprintlink.net!uunet!newsflash.concordia.ca!nstn.ns.ca!dragon.acadiau.ca!dragon.acadiau.ca!901106c From: 901106c@dragon.acadiau.ca (Timothy Chipman) Subject: Inquiry re: Karyotype Stain... Message-ID: <1994Jun20.132601.22125@relay.acadiau.ca> Sender: news@relay.acadiau.ca Nntp-Posting-Host: dragon.acadiau.ca Organization: Acadia University Date: Mon, 20 Jun 1994 13:26:01 GMT Lines: 7 I hope that this is the appropriate newsgroup for these questions... I am attempting the preparation of a karyotype of the amphipod,Corophium volutator using a standard protocol that employs colchicine and heated 10% Giemsa stain. I would be grateful for any methods/tips that anyone has found useful,with marine crustaceans especially. Specifically, I am wondering about standard times for the staining process. My literature review has turned up several staining times ranging from 20 min. to 3 h. Also, I am curious whether the appearance (colour) of the stained squash varies with staining time. If you can help me with these questions, I would appreciate it if you would email responses to: 901106c@dragon.acadiau.ca.