From owner-repertoires@net.bio.net Sun Feb 02 22:00:00 1997 Path: biosci!daresbury!not-for-mail From: Andrew Wallace Newsgroups: bionet.molecules.repertoires Subject: Molreps FAQ for Feb 97 Date: 3 Feb 1997 10:19:25 -0000 Lines: 310 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <5d4e3d$es9@mserv1.dl.ac.uk> Original-Sender: awallace@uk.ac.qub MIME-Version: 1.0 X-Authentication: none Read-Receipt-To: Andrew Wallace Original-To: molreps@dl.ac.uk M O L R E P S F R E Q U E N T L Y A S K E D Q U E S T I O N S ************* ******************* ********* ************** **1 Where can I obtain libraries?** 1.1 _Phage Libraries_ You can try approaching the following people and organisations: 1.1.1 pIII/6-mer, pIII/15-mer, pVIII-4/15-mer libraries: George Smith, University of Missouri, FAX +1-573-882-0123 1.1.2 pVIII/9-mer, pVIII/9-merCys and pVIII/zinc-finger phagemid libraries: Alessandra Luzzago, IRBM P. Angeletti, luzzago@irbm.it Franco Felici, IRBM P. Angeletti, felici@irbm.it (NON-COMMERCIAL USERS ONLY) 1.1.3 Antibody scFvs with synthetic CDRs: Greg Winter, MRC-LMB Cambridge, gw@mrc-lmb.cam.ac.uk Contact Fiona Sait at fs1@mrc-lmb.cam.ac.uk (NON-COMMERCIAL USERS ONLY) 1.1.4 Commercial Sources: Stratagene (Fab fragments in phage lambda) Affymax Pharmacia Cambridge Antibody Technology New England Biolabs (pIII/7-mer). (NEB catalog, p.166). see also this URL -> http://vent.neb.com/neb/phd/phd.html pSKAN Phagemid Display System from MoBiTec via NBL (+44-1670) 733015 EZtrap Phage Display cDNA libraries-AMS Biotechnology (+44-1993) 706500 1.2 _Synthetic Peptide Libraries_ 1.2.1 Commercial Sources: Affymax Chiron Corporation Most of the major peptide companies will custom-synthesise a library to your requirements. 1.3 _Nucleic Acid Libraries_ (Aptamers) 1.3.1 Jack Szostak at Harvard medical school? 1.3.2 NEXUS corporation (Larry Gold)? 1.4 _Organic Chemical Libraries_ 1.4.1 Affymax? 1.4.2 Parke-Davis (DIVERSOMERS)? **2) Where can I get anti-phage antibodies?** 2.1 anti-pIII MAb from Michael Tesar mte@gbf-braunschweig.de 2.2 anti-pIII polyclonals from GATC, a German company, FAX +49-7531-57313 TEL +49-7531-57204 2.3 rabbit anti-M13 from Stratagene. 2.4 sheep anti M13 phage sheep anti M13 phage biotinylated 5 Prime - 3 Prime Boulder CO (800)533-5703 2.5 HRP-conjugated anti-M13 from Pharmacia **3) How can I make my own libraries?** 3.1 _Phage Libraries_ You can obtain suitable vectors and strains from most of the sources in 1). For phagemid work you can buy XL-1 Blue cells from Stratagene and M13K07 helper phage from Pharmacia. 3.2 _Synthetic Peptide Libraries_ 3.2.1 Manual synthesis Houghten's "Tea Bag" method Geysen's "Pin" method MULTIBLOCK method - see http://www.azstarnet.com/~mlebl Any of these can be adapted to produce either support-bound or soluble libraries. 3.2.2 Automated synthesis Chiron Corporation (Zuckermann) Advanced Chemtech (Commercial robot for 75K sterling) 3.3 _Nucleic Acid Libraries_ 3.3.1 PCR methods 3.4 _Organic Chemical Libraries_ 3.4.1 Manual synthesis 3.4.2 Automated synthesis (Advanced Chemtech) **4) How can I analyse the results of my selection?** 4.1 Insert sequencing (phage libraries) 4.2 Micropanning (Smith and Scott, Methods Enzymol. (1993) 217:228-257) 4.3 Dot-blotting (Felici et al., J. Mol. Biol. (1991) 222:301-310) 4.4 ELISA (Smith and Scott, Methods Enzymol. (1993) 217:228-257) (Dente et al. Gene (1994) 148:7-13) 4.5 Colony immunoscreening (Christian et al. J. Mol. Biol. (1992) 227, 711-718) (Felici et al. Gene (1993) 128, 21-27) 4.5 Plaque immunoscreening (Luzzago et al., Gene (1993) 128:51-57) (Felici et al., Methods Enzymol. (1996) 267:116-129) **5) Are there any World Wide Web (WWW) sites about molreps?** 5.1 http://www.bio.net/ - The BIOSCI web site itself (MOLREPS message archive) 5.2 http://bionmr1.rug.ac.be/chemistry/overview.html - A useful chemistry site 5.3 http://vesta.pd.com/ - Site for the journal MOLECULAR DIVERSITY 5.4 http://www.mrc-cpe.cam.ac.uk/imt-doc/vbase-home-page.html - Immunoglobulin v-gene database 5.5 http://molbio.info.nih.gov/molbio/desk.html - Molecular biologists desk reference 5.6 http://www.Kairos-scientific.com/ - Kairos scientific home page 5.7 http://www-lmmb.ncifcrf.gov/~toms/sequencelogo.html - Tom Schneider's Sequence Logo 5.8 http://www.ebi.ac.uk/ - The European Bioinformatics Institute (EBI) 5.9 http://www.ebi.ac.uk/primers_home.html - PCR primers database at EBI 5.10 http://aminoacid.bri.nrc.ca:1125/ - Database of building blocks (including Fmoc- and Boc-amino acids) for library synthesis 5.11 http://vent.neb.com/neb/phd/phd.html - PHD phage library at New England Biolabs 5.12 ftp://ftp.netcom.com/pub/qu/quincicc/maxim.html - Another library source 5.13 http://www.ebi.ac.uk/imgt/ - Database of genes of immunological importance 5.14 http://immuno.bme.nwu.edu/ - Kabat database of proteins of immunological interest **6) Do phage absorb non-specifically to ELISA plates?** Yes, use MaxiSorp plates for best binding. Answer by: Pascal Mertens Laboratoire d'Immunologie et Microbiologie URBM-FUNDP 61 Rue de Bruxelles 5000 Namur, BELGIUM **7) What is the difference between pfu and TU?** PFU: if you titer a phage lysate for plaques, this is the number of plaques you get per unit volume (plaque forming units). In simple terms, this is the phage titer you observe when working with a functional phage. TU: If you have packaged phagemids, these don't form plaques because they are esentially plasmids. However you can use them to get Amp-R colonies (or whatever antibiotic) after infection of suitable recipient bacterial strain. TU is the same as PFU above except you are looking for transduction to Amp-R colonies instead of plaques. TU titration can be also used for phage vectors bearing an antibiotic resistance gene (for example: fd-tet and its derivatives, etc.). These both are measures of viable packaged particles in a lysate. The number of actual virions may be very different. These can only be measured by some physical technique such as electron microscopy or indirectly by an Elisa assay or something similar. But often many virions are not functional and will not give actual plaques, hence the PFU value is not always the same as the number of actual virions. But nobody generally measures the number of virions. Sometimes it is important to estimate the effective number of packaged particles in a lysate. For example, for calculating ligand/ligate ratio during selections, or for quantitative binding assays, or when using phage preparations for animal immunization, etc. Virion concentration in purified (CsCl) preparation can be estimated as Absorbance at 269nm x 6 x 10e16 / (bases/ssDNA), see Smith and Scott (1993) Methods in Enzymology 217:228-257. Note that the difference in numbers between PFU (or TU) and number of packaged particles in a lysate also depends on the efficiency of the bacterial cells in being infected (see the same above chapter for a protocol for preparation of starved F' cells). Michael Benedik Department of Biochemical Sciences University of Houston benedik@uh.edu Franco Felici, IRBM, Pomezia (Rome), Italy felici@irbm.it ------------------------------------------------------------------ Andrew Wallace, Ph.D, Queens University Belfast, N. Ireland (UK) a.wallace@qub.ac.uk http://web.qub.ac.uk/bb/awpage/wallace.html From owner-repertoires@net.bio.net Sun Feb 09 22:00:00 1997 Path: biosci!daresbury!not-for-mail From: Andrew Wallace Newsgroups: bionet.molecules.repertoires Subject: Moderating molreps? Date: 10 Feb 1997 09:40:55 -0000 Lines: 19 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <5dmqf7$cl1@mserv1.dl.ac.uk> Original-Sender: awallace@uk.ac.qub MIME-Version: 1.0 X-Authentication: none Read-Receipt-To: Andrew Wallace Original-To: molreps@dl.ac.uk In view of the amount of junk email being sent to molreps these days I am thinking of moderating this newsgroup. In practice, this means that all messages sent to the group will not be distributed to anyone else without being "approved" by someone who is called the moderator. I am prepared to act as moderator and as such my policy will be to refuse approval to messages of a commercial/sexist/racist nature. If anyone has any comments or questions about this please raise them on this newsgroup within the next 10 days, otherwise I will go ahead with arrangements to moderate the group as proposed. Andrew ------------------------------------------------------------------ Andrew Wallace, Ph.D, Queens University Belfast, N. Ireland (UK) a.wallace@qub.ac.uk http://web.qub.ac.uk/bb/awpage/wallace.html From owner-repertoires@net.bio.net Mon Feb 10 22:00:00 1997 Path: biosci!daresbury!not-for-mail From: Andrew Wallace Newsgroups: bionet.molecules.repertoires Subject: Postgraduate studentship opportunities Date: 11 Feb 1997 10:48:26 -0000 Lines: 61 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <5dpipq$qsc@mserv1.dl.ac.uk> Original-Sender: awallace@uk.ac.qub MIME-Version: 1.0 X-Authentication: none Read-Receipt-To: Andrew Wallace Original-To: molreps@dl.ac.uk The Queen's University of Belfast School of Biology and Biochemistry Postgraduate Research Studentships 1997-98 The School of Biology and Biochemistry offers excellent facilities for a wide range of fundamental and applied research extending from molecular and cellular biology to ecology. Applications are invited from UK and other EU candidates who have or expect to obtain a relevant First or Upper Second Class Honours Degree or equivalent qualification. Studentships are available in the following areas commencing October 1997: Study of cell permeable peptides by combinatorial libraries Combinatorial library approaches to studying the role of proteinases in programmed cell death (apoptosis) Discovery of novel cell adhesion receptors and ligands by combinatorial library methods Autoantibodies to apolipoproteins in atherosclerosis Biochemistry and genetics of organosulphonate metabolism by microorganisms Enzyme activity as an indicator of nutrient status of phytoplankton or seaweeds Applications from well qualified students in other areas of interest within the School will also be considered. Inquiries from non-EU students who expect to have appropriate funding are also very welcome. Further details and application forms are available from The Director, School of Biology and Biochemistry, The Queen's University of Belfast, Medical Biology Centre, 97 Lisburn Road, Belfast BT9 7BL Fax +44-1232-236505 Email sobb.office@qub.ac.uk OR contact the appropriate staff email address above. All applications for admission must be received by the Admissions Office, The Queen's University of Belfast no later than 15 MAY 1997. The first allocation of studentships to outstanding applicants will be made in APRIL so candidates are encouraged to apply early. The University is a charity established in 1845 to advance education. ------------------------------------------------------------------ Andrew Wallace, Ph.D, Queens University Belfast, N. Ireland (UK) a.wallace@qub.ac.uk http://web.qub.ac.uk/bb/awpage/wallace.html From owner-repertoires@net.bio.net Mon Feb 10 22:00:00 1997 Path: biosci!rutgers.rutgers.edu!news.sgi.com!su-news-hub1.bbnplanet.com!news.bbnplanet.com!newsxfer3.itd.umich.edu!rill.news.pipex.net!pipex!uknet!usenet1.news.uk.psi.net!uknet!uknet!strath-cs!queens-belfast.ac.uk!queens-belfast.ac.uk!nntp Newsgroups: bionet.molecules.repertoires Subject: Royal Society/NATO postdoc fellowships Message-ID: <330050A9.684C@qub.ac.uk> From: Andrew Wallace Date: Tue, 11 Feb 1997 10:57:46 +0000 Reply-To: a.wallace@queens-belfast.ac.uk Organization: Queens University Belfast Nntp-Posting-Host: awall.bc.qub.ac.uk X-Mailer: Mozilla 3.0 (Macintosh; I; PPC) MIME-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit Lines: 38 I am looking for candidates from NATO cooperation countries to apply jointly with me to THE ROYAL SOCIETY/NATO POSTDOCTORAL FELLOWSHIP PROGRAMME. If we are successful, the candidates will receive an award to work in my laboratory here in the UK for up to 12 months. Closing date for applications is 15 April 1997. POSTDOCTORAL SCIENTISTS from ONLY THE FOLLOWING NATO cooperation partner countries are eligible: Albania, Armenia, Azerbaijan, Belarus, Bulgaria, Czech Republic, Estonia, Georgia, Hungary, Kazakhstan, Kyrgyzstan, Latvia, Lithuania, Moldova, Poland, Romania, Russia, Slovak Republic, Slovenia, Tajikstan, Turkmenistan, Ukraine, Uzbekistan and the Former Yugoslav Republic of Macedonia. Under this programme, fellowship holders receive an award which covers living costs in the UK, together with a contribution towards travel costs and research expenses. I am particularly interested to hear from candidates in the following fields: 1. Intracellular signalling pathways. 2. Recombinant protein expression and mutagenesis. 3. Mammalian cell culture. 4. Combinatorial libraries (phage display, peptide libraries, etc.). 5. Solid-phase organic chemistry. For details of my own research interests, please consult the web address in the signature of this message. Andrew -- ================================================================== Andrew Wallace,Ph.D., Queens University Belfast, N. Ireland (UK) a.wallace@qub.ac.uk http://web.qub.ac.uk/bb/awpage/wallace.html ================================================================== From owner-repertoires@net.bio.net Tue Feb 11 22:00:00 1997 Path: biosci!daresbury!not-for-mail From: Andrew Wallace Newsgroups: bionet.molecules.repertoires Subject: New molreps charter Date: 12 Feb 1997 10:19:43 -0000 Lines: 106 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <5ds5fv$f9n@mserv1.dl.ac.uk> Original-Sender: awallace@uk.ac.qub MIME-Version: 1.0 X-Authentication: none Read-Receipt-To: Andrew Wallace Original-To: molreps@dl.ac.uk In response to the overwhelming demand for moderation of this newsgroup, I am circulating a draft of the new charter for the molreps group. Please let me have any comments or suggestions by next week. Andrew ---------------------------------------------------------------------- Information for MOLECULAR-REPERTOIRES/bionet.molecules.repertoires (moderated) USENET newsgroup name: bionet.molecules.repertoires (moderated) Mailing list name: MOLECULAR-REPERTOIRES E-mail posting addresses: molreps@net.bio.net molreps@daresbury.ac.uk Moderator: Andrew Wallace a.wallace@queens-belfast.ac.uk Newsgroup charter: Molecular-Repertoires is to serve as a forum for all those who are interested in the generation and use of large collections of molecules for basic research and drug discovery. The interdisciplinary nature of this rapidly-growing new research frontier raises the need for a means by which investigators can communicate rapidly and easily across the boundaries which normally define more discipline-specific areas of research. Molreps exists to serve those scientists whose investigative efforts involve: --Libraries of biological macromolecules (phage libraries, peptides, proteins, nucleic acids, carbohydrates, etc.). --Organic chemical combinatorial libraries (benzodiazepines, etc.). --Development and adaptation of chemical reactions on solid-phase. --Novel methods to analyse and generate molecular diversity. --Screening of repertoires to identify molecules of interest. --Techniques which make use of combinatorial methods in isolating specific ligands. The molreps newsgroup aims to provide: --A forum for discussion of new ideas and recent developments in the various disciplines impinging on the field. --A source of information for new participants. --A bulletin board for announcements of meetings, funding sources and job opportunities, both for positions available and for persons seeking employment. --A means of initiating collaboration among participants. --Announcement of availability of novel reagents and other materials. --A repository of practical advice and other information, including advances in relevant methodology. --Identification of equipment and instrumentation for execution of combinatorial chemistry. Subscribers are welcome from universities or any academic institutions, government agencies, medical institutions, and industrial or commercial organizations. Contributions within the functions outlined above are encouraged. Moderation Policy: Mass-posted commercial messages, chain letters, and similar postings not germane to molecular repertoires and combinatorial libraries will be deleted without comment. Inappropriate messages posted in good faith will be returned to the sender where possible. Messages not strictly within the charter but likely to be of interest to many subscribers (e.g., messages dealing with certain aspects of structural biology or computational chemistry methods) will be accepted. Use of the newsgroup for commercial purposes is prohibited. ------------------------------------------------------------------- Moderator contact information: Andrew Wallace, PhD. Centre for Peptide and Protein Engineering The Queen's University of Belfast Medical Biology Centre 97 Lisburn Road Belfast BT9 7BL United Kingdom Tel. +44-1232-272089 a.wallace@qub.ac.uk Fax: +44-1232-236505 http://web.qub.ac.uk/bb/awpage/wallace.html ------------------------------------------------------------------- ------------------------------------------------------------------ Andrew Wallace, Ph.D, Queens University Belfast, N. Ireland (UK) a.wallace@qub.ac.uk http://web.qub.ac.uk/bb/awpage/wallace.html From owner-repertoires@net.bio.net Sat Feb 15 22:00:00 1997 Path: biosci!ihnp4.ucsd.edu!swrinde!cs.utexas.edu!howland.erols.net!cam-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!worldnet.att.net!dciteleport.com!news.internetsat.com!not-for-mail From: "FACKEURE Remi" Newsgroups: bionet.molecules.repertoires Subject: guaiacol oxydation, need some help PLEASE !! Date: 16 Feb 1997 21:09:44 GMT Organization: NetSat Inc. Lines: 98 Message-ID: <01bc1c4d$3f20b960$LocalHost@default> NNTP-Posting-Host: pont.nordnet.fr X-Newsreader: Microsoft Internet News 4.70.1157 Hi, i'm a young (16) French a bit interested in Biochemical ! At school we made experiment about guaiacol (2-metoxyphenol or 2-hydroxy anisol) & H2O2 with an enzyme called Peroxydase de Raifort. After a few minutes there is a brown-red colour that appears. It is quinones. But I'm unable to exactly understand what it happen & how "works" the oxydation of the guaiacol, exactly how do the quinones to make this brown color solution ! I searched a lot in the handbooks, but it seems to be an old thing used for oxydoreduction & there are not a lot of things int the Hand book about quinones ! I hope somebody is gonna help me because days after days i become a bit mad searching this little thing same seems to be not known ;);) ! If you can help me, please help me I'll be a very happy man :))) -- Remi FACKEURE rfackeure@nordnet.fr | an' it's so easy to be social | | it's so easy to be cool... | GN'R, Coma UYI1 begin 600 bio.gif M1TE&.#EA( 'U`/<``````#,S,V9F9IF9F,`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`,H `'2, "&O" 0]'2?Q!HP!4IR' , M%-SF'DBY""I/+!6T8-WNUS7;C$V#-MM?X=(%0IZMCW#<*R&3."@/4R MXA$5)4+7`'&*2,1B`9NE1?ZY3X)=Q!"4P!A&UKFGB=\K(YI4I9-_\6IF:DQA MG>Z5(1_N)H[)$Z/CZN@I'J*1>9CCFX#/&''&3>5,DOE[-JC/RFZ2)23C*7 7,BX(7*Q<\ DYBIW,[L\RO)_Y0*EVI)9 MKV5JYT1CG-NYM@E-*!82;=;T5^I6EJ(973(J-A)FR9 6SJ*U*FNW\=SF>$,\ M7&IS:9")ES[U^/^7>4YR?-0\6IS^R3% G=.97[O>\^R)O!D=,V*V6=2L#DI- MT:4.H-_,%#X)RC$*_O!":JKE0@/:LX'F\)T=.R.)_*E.[9 44ESBGD1[TDS< M3/!\#$U,,F?:,NSXR4'M)&)&J3A4);XMDRKR3X6DDU.3QI)3RXN5*:-IJR=J ME)U/+2HX963*V5356$0-:C6S*M:P2F9:7HVF2L<:U;*&\*C4^>!#.2D?8EG+ M?"55HEMA!=^"U[DSC!RY&U8>,\;R+D$UZ1;C&=ZX;E>`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`#NE ` end From owner-repertoires@net.bio.net Sun Feb 16 22:00:00 1997 Path: biosci!daresbury!not-for-mail From: Andrew Wallace Newsgroups: bionet.molecules.repertoires Subject: Re: Estimating dissociation constants by phage titer Date: 17 Feb 1997 18:26:09 -0000 Lines: 27 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <5ea7s1$scp@mserv1.dl.ac.uk> Original-Sender: awallace@uk.ac.qub MIME-Version: 1.0 X-Authentication: none Read-Receipt-To: Andrew Wallace Original-To: "D. KIM" Was it Duenas et al., (1996) "Selection Of Phage Displayed Antibodies Based On Kinetic Constants", Molecular Immunology 33, 279-285? On 17 Feb 1997 08:58:07 -0800 "D. KIM" wrote: > Hi: > > I used to have a paper on my desk on this subject. I cannot remember > where I put it, and haven't been able to locate it using a search engine > or Current Contents. The paper is at least a year old. > > Has anyone seen this? I am pretty sure the title explicitly states the > subject matter. I would be grateful if anyone can give me the reference. > > Daniel Kim > dkim@nmsu.edu > > > ------------------------------------------------------------------ Andrew Wallace, Ph.D, Queens University Belfast, N. Ireland (UK) a.wallace@qub.ac.uk http://web.qub.ac.uk/bb/awpage/wallace.html From owner-repertoires@net.bio.net Sun Feb 16 22:00:00 1997 Path: biosci!NMSU.EDU!dkim From: dkim@NMSU.EDU ("D. KIM") Newsgroups: bionet.molecules.repertoires Subject: Estimating dissociation constants by phage titer Date: 17 Feb 1997 08:58:07 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 12 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Hi: I used to have a paper on my desk on this subject. I cannot remember where I put it, and haven't been able to locate it using a search engine or Current Contents. The paper is at least a year old. Has anyone seen this? I am pretty sure the title explicitly states the subject matter. I would be grateful if anyone can give me the reference. Daniel Kim dkim@nmsu.edu From owner-repertoires@net.bio.net Mon Feb 17 22:00:00 1997 Path: biosci!NMSU.EDU!dkim From: dkim@NMSU.EDU ("D. KIM") Newsgroups: bionet.molecules.repertoires Subject: re: dissociation constantestimates Date: 18 Feb 1997 09:48:23 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 9 Sender: daemon@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Thanks for all the response to my query about phage display dissociation constant estimation. I will get to the library right away. Has anyone tried this method? How does it compare, in consistency and ease of use, to more conventional methods?> Daniel Kim dkim@nmsu.edu From owner-repertoires@net.bio.net Tue Feb 18 22:00:00 1997 Path: biosci!daresbury!not-for-mail From: Andrew Wallace Newsgroups: bionet.molecules.repertoires Subject: UK PhD Studentships Date: 19 Feb 1997 17:26:23 -0000 Organization: Queens University Belfast Lines: 62 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <5efd3v$ie8@mserv1.dl.ac.uk> Reply-To: a.wallace@Queens-Belfast.ac.uk Alternate-Recipient: Allowed MIME-Version: 1.0 The Queen's University of Belfast School of Biology and Biochemistry Postgraduate Research Studentships 1997-98 The School of Biology and Biochemistry offers excellent facilities for a wide range of fundamental and applied research extending from molecular and cellular biology to ecology. Applications are invited from UK and other EU candidates who have or expect to obtain a relevant First or Upper Second Class Honours Degree or equivalent qualification. Studentships are available in the following areas commencing October 1997: Study of cell permeable peptides by combinatorial libraries Combinatorial library approaches to studying the role of proteinases in programmed cell death (apoptosis) Discovery of novel cell adhesion receptors and ligands by combinatorial library methods Autoantibodies to apolipoproteins in atherosclerosis Biochemistry and genetics of organosulphonate metabolism by microorganisms Enzyme activity as an indicator of nutrient status of phytoplankton or seaweeds Applications from well qualified students in other areas of interest within the School will also be considered. Inquiries from non-EU students who expect to have appropriate funding are also very welcome. Further details and application forms are available from The Director, School of Biology and Biochemistry, The Queen's University of Belfast, Medical Biology Centre, 97 Lisburn Road, Belfast BT9 7BL Fax +44-1232-236505 Email sobb.office@qub.ac.uk OR contact the appropriate staff email address above. All applications for admission must be received by the Admissions Office, The Queen's University of Belfast no later than 15 MAY 1997. The first allocation of studentships to outstanding applicants will be made in APRIL so candidates are encouraged to apply early. The University is a charity established in 1845 to advance education. -- ================================================================== Andrew Wallace,Ph.D., Queens University Belfast, N. Ireland (UK) a.wallace@qub.ac.uk http://web.qub.ac.uk/bb/awpage/wallace.html ================================================================== From owner-repertoires@net.bio.net Tue Feb 18 22:00:00 1997 Path: biosci!daresbury!not-for-mail From: Andrew Wallace Newsgroups: bionet.molecules.repertoires Subject: Moderation Date: 19 Feb 1997 12:05:18 -0000 Lines: 14 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <5eeq9u$nov@mserv1.dl.ac.uk> Alternate-Recipient: Allowed MIME-Version: 1.0 X-Authentication: none Read-Receipt-To: Andrew Wallace Original-To: molreps@dl.ac.uk Since no-one has raised any objections to the new charter for the molreps newsgroup and many people have expressed their support for moderation of the group, I plan to implement moderation of this newsgroup as soon as possible. Thanks for your support, Andrew ------------------------------------------------------------------ Andrew Wallace, Ph.D, Queens University Belfast, N. Ireland (UK) a.wallace@qub.ac.uk http://web.qub.ac.uk/bb/awpage/wallace.html From owner-repertoires@net.bio.net Wed Feb 19 22:00:00 1997 Path: biosci!daresbury!not-for-mail From: Andrew Wallace Newsgroups: bionet.molecules.repertoires Subject: Question about scFv purification Date: 20 Feb 1997 09:49:45 -0000 Lines: 41 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <5eh6np$pi5@mserv1.dl.ac.uk> Alternate-Recipient: Allowed MIME-Version: 1.0 X-Authentication: none Read-Receipt-To: Andrew Wallace Original-To: molreps@dl.ac.uk Forwarded message on behalf of Ricardo Mutuberria. Please reply to him (address at end of message). ******************************** I am purifying scFv-s from E.coli periplasmic fractions to carry out some in vitro tests on endothelial cells. I am concerned that I may also copurify bacterial lipopolysaccharides that would have an effect on the endothelial cells. Is there any purification method that will help me to get rid of LPSs in my purified antibody fragments? I heard about a commercial method available, but I do not know which company provides it...Does anyone know about it? Thanks and greetings from Maatricht, Ricardo Mutuberria Zabala. ************************* Ricardo Mutuberria Zabala University of Maastricht Faculty of Medicine Department of Pathology CESAME P.O Box 616 6200 MD Maastricht Netherlands Tel. 31-43-3876626 Fax. 31-43-3876613 Email RMUT@ms-azm-2.azm.nl Home Address: Sint Bernardus Straat 37 6211 HK Maastricht ************************* From owner-repertoires@net.bio.net Wed Feb 19 22:00:00 1997 Path: biosci!daresbury!not-for-mail From: Andrew Wallace Newsgroups: bionet.molecules.repertoires Subject: Question about scFv purification (repost) Date: 20 Feb 1997 19:32:19 -0000 Lines: 41 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <5ei8s3$f3t@mserv1.dl.ac.uk> Alternate-Recipient: Allowed MIME-Version: 1.0 X-Authentication: none Read-Receipt-To: Andrew Wallace Original-To: molreps@dl.ac.uk Repost due to error in address given in previous message. Forwarded message on behalf of Ricardo Mutuberria. Please reply to him (address at end of message). ******************************** I am purifying scFv-s from E.coli periplasmic fractions to carry out some in vitro tests on endothelial cells. I am concerned that I may also copurify bacterial lipopolysaccharides that would have an effect on the endothelial cells. Is there any purification method that will help me to get rid of LPSs in my purified antibody fragments? I heard about a commercial method available, but I do not know which company provides it...Does anyone know about it? Thanks and greetings from Maatricht, Ricardo Mutuberria Zabala. ************************* Ricardo Mutuberria Zabala University of Maastricht Faculty of Medicine Department of Pathology CESAME P.O Box 616 6200 MD Maastricht Netherlands Tel. 31-43-3876626 Fax. 31-43-3876613 Email RMUT@LPAT.AZM.NL Home Address: Sint Bernardus Straat 37 6211 HK Maastricht ************************* From owner-repertoires@net.bio.net Thu Feb 20 22:00:00 1997 Path: biosci!qub.ac.uk!a.wallace From: a.wallace@qub.ac.uk (Andrew Wallace) Newsgroups: bionet.molecules.repertoires Subject: re: dissociation constantestimates Date: 21 Feb 1997 08:46:23 -0800 Organization: Queens University Belfast Lines: 25 Sender: daemon@net.bio.net Distribution: world Message-ID: <330DD1F0.28A5@qub.ac.uk> Reply-To: a.wallace@queens-belfast.ac.uk NNTP-Posting-Host: net.bio.net > To: molreps@net.bio.net > > From: dkim@nmsu.edu ("D. KIM") > > Subject: re: dissociation constantestimates > > Date: 18 Feb 1997 09:48:23 -0800 > > Thanks for all the response to my query about phage display > dissociation > constant estimation. I will get to the library right away. > > Has anyone tried this method? How does it compare, in consistency and > ease of use, to more conventional methods?> > Daniel Kim > dkim@nmsu.edu Hi, how about letting the rest of us in on the secret? Where was this method described originally, anyway? Andrew ================================================================== Andrew Wallace,Ph.D., Queens University Belfast, N. Ireland (UK) a.wallace@qub.ac.uk http://web.qub.ac.uk/bb/awpage/wallace.html ================================================================== From owner-repertoires@net.bio.net Sun Feb 23 22:00:00 1997 Path: biosci!ihnp4.ucsd.edu!news1.ucsd.edu!usenet From: Kevin Shreder Newsgroups: bionet.molecules.repertoires Subject: The Antibody Resource Page Date: Sun, 23 Feb 1997 18:30:31 -0700 Organization: Antibody Resource Page Lines: 33 Message-ID: <3310EF37.292A@znet.com> NNTP-Posting-Host: chegood10.ucsd.edu Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 2.02 (Macintosh; I; PPC) The Antibody Resource Page (ARP) has recently been updated and given a new user-friendly look. The ARP is divided up into 7 sections: 1. Educational Resources - links to pages on antibodies that will interest the novice and expert alike 2. Online Databanks and Databases - links to scientific databases in the area of sequence analysis and hybridoma work 3. Online Journals 4. How to Find an Antibody - a section for ways to find commercial sources (online or otherwise) of antibodies. If you are a researcher who works with antibodies, you cannot afford to miss this section. 5. Online Companies - a large list of online companies (over 75) that sell antibodies or antibody related products. There is also a section for companies that are not online. 6. Miscellaneous - links to various immunological and biotechnology webpages 7. Antibody Gallery - a new addition to the ARP. This is a section where researchers can donate pictures of antibodies for educational purposes. If you have something to donate, please contact me. The ARP is designed for both beginners and experts who are looking for information about antibodies. I am always looking for new links, so if you know of something, please contact me. Or just contact me to let me know what you think of the page! The URL for the Antibody Resource Page is: http://www-chem.ucsd.edu/Faculty/goodman/antibody.html/abpage.html Kevin Shreder, Ph.D. kshreder@znet.com From owner-repertoires@net.bio.net Tue Feb 25 22:00:00 1997 Path: biosci!daresbury!not-for-mail From: Andrew Wallace Newsgroups: bionet.molecules.repertoires Subject: Molreps FAQ Date: 26 Feb 1997 12:04:03 -0000 Lines: 17 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <5f18rj$n16@mserv1.dl.ac.uk> Alternate-Recipient: Allowed MIME-Version: 1.0 X-Authentication: none Read-Receipt-To: Andrew Wallace Original-To: molreps@dl.ac.uk Please note that the Molreps FAQ is now available as a link on my web page at the following URL: http://web.qub.ac.uk/bb/awpage/faq.htm Note to Dave K.: Could you add this URL to the MOLECULAR-REPERTOIRES page on www.bio.net? Thanks. Andrew ------------------------------------------------------------------ Andrew Wallace, Ph.D, Queens University Belfast, N. Ireland (UK) a.wallace@qub.ac.uk http://web.qub.ac.uk/bb/awpage/wallace.html From owner-repertoires@net.bio.net Wed Feb 26 22:00:00 1997 Path: biosci!daresbury!bioftp.unibas.ch!news.vub.ac.be!news.belnet.be!news.rediris.es!news.uoregon.edu!hammer.uoregon.edu!xfer.kren.nm.kr!usenet.kornet.nm.kr!howland.erols.net!cam-news-hub1.bbnplanet.com!news.bbnplanet.com!news.maxwell.syr.edu!insync!uunet!in3.uu.net!198.151.175.33!news.xensei.com!news From: chi@healthtech.com (Cambridge Healthtech Institute) Newsgroups: bionet.molecules.repertoires Subject: Cambridge Healthtech Institute’s MOLECULAR EVOLUTION Date: Thu, 27 Feb 1997 18:15:07 GMT Organization: Cambridge Healthtech Institute Lines: 129 Message-ID: <5f4iq2$qqc@xensei3.xensei.com> Reply-To: chi@healthtech.com NNTP-Posting-Host: chi.xensei.com X-Newsreader: Forte Free Agent 1.0.82 Cambridge Healthtech Institute’s MOLECULAR EVOLUTION April 24-25, 1997 Copley Plaza, Boston, Massachusetts Co-sponsored by: Canji, Inc., Pharmacia Biotech, and PharmaGenics A large number of biomedical applications involve the search for compounds with improved activity or performance. The application of molecular evolution is proving to be extremely well suited for this purpose, particular for identification of nucleic acids or peptides. Genetics makes it possible to employ sequential rounds of screening and selection, followed by further mutation, to allow for the generation of compounds adapted for a desired target or under specific conditions. Phage display and other related techniques have been used extensively for this purpose. Examples of the development of antibodies, mutated proteins, and a range of research, selection, and therapeutic applications are covered in detail. Learn how leaders in this field are taking advantage of the power of this technology and how you might benefit from making greater use of it by attending this timely event. NUCLEIC ACID EVOLUTION In Vivo and In Vitro Applications of Nucleic Acid Ligands Dr. Daniel W. Drolet, NeXstar Pharmaceuticals (confirmed) Mirror-Image RNA Ligands Dr. Jens P. Furste, Freie Universitst Berlin (confirmed) Aptamer Evolution: Prospects for Diagnostics and Therapeutics Dr. Andrew D. Ellington, Indiana University (confirmed) Ribozymes from Random Sequences: Dr. David Bartel, Whitehead Institute and Massachusetts Institute of Technology (confirmed) ENGINEERING PROTEINS AND ANTIBODIES Exploiting the Diversity of Large Human Antibody Libraries Dr. John McCafferty, Cambridge Antibody Technology Ltd. (confirmed) Molecular Evolution of Proteins, Pathways and Viruses by DNA Shuffling Dr. Willem Stemmer, Maxygen, Inc. (confirmed) In Vitro Selection of Peptides Acting on NMDA Glutamate Receptors Dr. Min Li, John Hopkins School of Medicine (confirmed) Synthesis Based Molecular Design of Antibodies and Proteins: Dr. William D. Huse, Ixsys, Inc. (confirmed) Dr. Manuel Baca, Genentech, Inc. (confirmed) RESEARCH AND SELECTION USING PHAGE DISLAY Cloning Novel Genes with Phage-Displayed Peptide Ligands Dr. Brian Kay, University of North Carolina at Chapel Hill (confirmed) Adenovirus Expression Systems in Conjunction with Autofluorescent Proteins: Potential Use in the Screening of Peptide Libraries Dr. Luc Peloquin, Quantum Biotechnologies Inc. (confirmed) Functional Epitope Mapping by Negative Selection of Phage-Displayed Randomized Protein Libraries Dr. Laurent Jespers, Flanders Interuniversity Institute for Biotechnology (confirmed) Automated Affinity Based Screening Using Serial Column Chromatography Interfaced with Mass Spectrometry Dr. Satish Jindal, ChemGenics Pharmaceuticals (confirmed) Use of Combinatorially Generated Phage Displayed Ligands to Develop Engineered Microprotein Ligands for Large Scale Biotherapeutic Purification Dr. John Maclennan, Dyax Corporation (confirmed) Identification of Optimal Ligands for Protein Domains Using Oriented Peptide Libraries Dr. Zhou (Sonny) Songyang, Harvard Medical School (confirmed) THERAPEUTIC DEVELOPMENTS USING PHAGE DISPLAY Identification of Amino Acids Critical for the Activity of a Peptide Mimetic of Erythropoietin and Discription of a Minimal Functional Epitope Dr. Dana Johnson, R.W. Johnson Pharmaceutical Research Institute (confirmed) Combinatorial Methods and Directed Evolution Applied to Staphylococcal a-hemolysin, a Pore-Forming Protein Dr. Hagan Bayley, Worcester Foundation for Biomedical Research (confirmed) Human Protein Display: A New System for Discovering Drug Binding Targets Dr. Allan Peng, GeneMax, Inc. (confirmed) Novel Approaches for Targeting Tumors and Inhibiting Metastasis Dr. Renata Pasqualini, La Jolla Cancer Research Center, The Burnham Institute (confirmed) Sampling Peptide Space for Cell-Targeting Peptides Dr. Stephen A. Johnston, University of Texas, Southwestern Medical Center, (confirmed) Cloning Using Phage Display Dr. Bob Shopes, Tera Biotechnology Corporation (confirmed) Establishing Site Directed Assays Using Phage Displayed Libraries of Peptides and Antibodies Dr. Arthur J. Blume, DGI BioTechnologies, L.L.C. (confirmed) From the rapid progess of combinatorial chemistry and genetics an interest has been generated in the selection of random peptides from target proteins and in investigating ligand-receptor interactions. Some challenges that will be examined are the screening of combinatorial libraries for selecting high-affinity ligands against target molecules, following the sequential cycles of random mutagenesis and screening to direct the evolution of enzymes, and developing new techniques such as phage display for optimum peptide /receptor binding. The expectation that from the selection and use of phage display, proteins for therapeutics and drug discovery may be developed. Advance registration March 7, 1997 poster deadline March 21, 1997 For registration and hotel information, please contact: Cambridge Healthtech Institute 1037 Chestnut Street Newton Upper Falls, MA 02164 USA Phone: 617-630-1300 Fax: 617-630-1325 e-mail: chi@healthtech.com http://www.healthtech.com/conferences/ ______________________________ Cambridge Healthtech Institute 1037 Chestnut Street Newton Upper Falls, MA 02164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ tel: 617.630.1300 fax: 617.630.1325 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ inquiries@healthtech.com World Wide Web http://www.healthtech.com/conferences From owner-repertoires@net.bio.net Wed Feb 26 22:00:00 1997 Path: biosci!daresbury!not-for-mail From: "Janet Clench, Library, Tel:(39 6)91093220" Newsgroups: bionet.molecules.repertoires Subject: At long last, for those of you who thought I'd given up searching or theghost ... Date: 27 Feb 1997 16:40:40 -0000 Lines: 307 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <5f4de8$p11@mserv1.dl.ac.uk> Original-To: molreps@dl.ac.uk ******************************************************** SUBJECT: Phage & Combinatorial Libraries DATE: January 20, 27, February 3,10,17 1997 ******************************************************** Boons, G.J.; Heskamp, B.; Hout, F. Vinyl glycosides in oligosaccharide synthesis: A strategy for the preparation of trisaccharide libraries based on latent-active glycosylation Angewandte Chemie - International Edition in English 35: 23-24 (JAN 3 1997) 2845-2847 Pursch, M.; Schlotterbeck, G.; Tseng, L.H.; Albert, K. Monitoring the reaction progress in combinatorial Chemistry: H-1 MAS NMR investigations on single macro beads in the suspended state Angewandte Chemie - International Edition in English 35: 23-24 (JAN 3 1997) 2867-2869 Crews, C.M. Deciphering isozyme function: Exploring cell biology with chemistry in the post-genomic era Chemistry & Biology 3: 12 (DEC 1996) 961-965 Bruno, R.; Bradbury, A. A natural longer glycine-rich region in IKe filamentous phage confers no selective advantage Gene 184: 1 (JAN 3 1997) 121-123 Rassu, G.; Zanardi, F.; Battistini, L.; Gaetani, E.; Casiraghi, G. Expeditious syntheses of sugar-modified nucleosides and collections thereof exploiting furan-, pyrrole-, and thiophene-based siloxy dienes Journal of Medicinal Chemistry 40: 2 (JAN 17 1997) 168-180 Lustbader, J.W.; Pollak, S.; Lobel, L.; Trakht, I.; Homans, S.; Brown, J.M.; Canfield, R.E. Three-dimensional structures of gonadotropins Molecular and Cellular Endocrinology 125: 1-2 (DEC 20 1996) 21-31 Short, K.M.; Mjalli, A.M.M. A solid-phase combinatorial method for the synthesis of novel 5- and 6- membered ring lactams Tetrahedron Letters 38: 3 (JAN 20 1997) 359-362 Cui, T.; Jiang, Y.L.; Porter, A.G. Protease site-restricted selection of phage-displayed peptides on glutathione-sepharose Analytical Biochemistry 244: 1 (JAN 1 1997) 186-187 Dunn, I.S. Mammalian cell binding and transfection mediated by surface-modified bacteriophage lambda Biochimie 78: 10 (1996) 856-861 Yu, Z.G.; Chu, Y.H. Combinatorial epitope search: Pitfalls of library design Bioorganic & Medicinal Chemistry Letters 7: 1 (JAN 7 1997) 95-98 Park, J.Y.; Kim, I.J.; Lee, M.H.; Seo, J.K.; Suh, P.G.; Cho, B.Y.; Ryu, S.H.; Chae, C.B. Identification of the peptides that inhibit the stimulation of thyrotropin receptor by Graves' immunoglobulin G from peptide libraries Endocrinology 138: 2 (FEB 1997) 617-626 Dunn, I.S. In vitro alpha-complementation of beta-galactosidase on a bacteriophage surface European Journal of Biochemistry 242: 3 (DEC 15 1996) 720-726 Leung, P.S.C.; Cha, S.; Joplin, R.E.; Galperin, C.; VandeWater, J.; Ansari, A.A.; Coppel, R.L.; Schatz, P.J.; Cwirla, S.; Fabris, L.E.; Neuberger, J.M.; Gershwin, M.E. Inhibition of PDC-E2 human combinatorial autoantibodies by peptide mimotopes Journal of Autoimmunity 9: 6 (DEC 1996) 785-793 Hong, S.T.; Carney, J.R.; Gould, S.J. Cloning and heterologous expression of the entire gene clusters for PD 116740 from Streptomyces strain WP 4669 and tetrangulol and tetrangomycin from Streptomyces rimosus NRRL 3016 Journal of Bacteriology 179: 2 (JAN 1997) 470-476 Chapman, D. The measurement of molecular diversity: A three-dimensional approach Journal of Computer - Aided Molecular Design 10: 6 (DEC 1996) 501-512 Devraj, R.; Cushman, M. A versatile solid phase synthesis of lavendustin A and certain biologically active analogs Journal of Organic Chemistry 61: 26 (DEC 27 1996) 9368-9373 DeLalla, C.; Tamborini, E.; Longhi, R.; Tresoldi, E.; Manoni, M.; Siccardi, A.G.; Arosio, P.; Sidoli, A. Human recombinant antibody fragments specific for a rye-grass pollen allergen: Characterization and potential applications Molecular Immunology 33: 13 (SEP 1996) 1049-1058 Pivonka, D.E.; Russell, K.; Gero, T. Tools for combinatorial chemistry: In situ infrared analysis of solid- phase organic reactions Applied Spectroscopy 50: 12 (DEC 1996) 1471-1478 Hill, C.L.; Gall, R.D. The first combinatorially prepared and evaluated inorganic catalysts. Polyoxometalates for the aerobic oxidation of the mustard analog tetrahydrothiophene (THT) Journal of Molecular Catalysis A - Chemical 114: 1-3 (DEC 23 1996) 103-111 Balass, M.; Morag, E.; Bayer, E.A.; Fuchs, S.; Wilchek, M.; KatchalskiKatzir, E. Recovery of high-affinity phage from a nitrostreptavidin matrix in phage-display technology Analytical Biochemistry 243: 2 (DEC 15 1996) 264-269 Terwilliger, T.C. Gene V protein dimerization and cooperativity of binding to poly(DA) Biochemistry 35: 51 (DEC 24 1996) 16652-16664 Reason, D.C.; Wagner, T.C.; Lucas, A.H. Human fab fragments specific for the Haemophilus influenzae b polysaccharide isolated from a bacteriophage combinatorial library use variable region gene combinations and express an idiotype that mirrors in vivo expression Infection and Immunity 65: 1 (JAN 1997) 261-266 Soengas, M.S.; Mateo, C.R.; Salas, M.; Acuna, A.U.; Gutierrez, C. Structural features of phi 29 single-stranded DNA-binding protein .1. Environment of tyrosines in terms of complex formation with DNA Journal of Biological Chemistry 272: 1 (JAN 3 1997) 295-302 Soengas, M.S.; Mateo, C.R.; Rivas, G.; Salas, M.; Acuna, K.U.; Gutierrez, C. Structural features of phi 29 single-stranded DNA-binding protein .2. Global conformation of phi 29 single-stranded DNA-binding protein and the effects of complex formation on the protein and the single- stranded DNA Journal of Biological Chemistry 272: 1 (JAN 3 1997) 303-310 Georgiou, G.; Stathopoulos, C.; Daugherty, P.S.; Nayak, A.R.; Iverson, B.L.; Curtiss, R. Display of heterologous proteins on the surface of microorganisms: From the screening of combinatorial libraries to live recombinant vaccines Nature Biotechnology 15: 1 (JAN 1997) 29-34 Kuwabara, I.; Maruyama, H.; Mikawa, Y.G.; Zuberi, R.I.; Liu, F.T.; Maruyama, I.N. Efficient epitope mapping by bacteriophage lambda surface display Nature Biotechnology 15: 1 (JAN 1997) 74-78 Li, Y.; Owen, M.R.L.; Cockburn, W.; Kumagai, I.; Whitelam, G.C. Study of antibody-antigen interaction through site-directed mutagenesis of the VH region of a hybrid phage-antibody fragment Protein Engineering 9: 12 (DEC 1996) 1211-1217 Thennarasu, S.; Nagaraj, R. Specific antimicrobial and hemolytic activities of 18-residue peptides derived from the amino terminal region of the toxin pardaxin Protein Engineering 9: 12 (DEC 1996) 1219-1224 Hegy, G.; Gorlach, E.; Richmond, R.; Bitsch, F. High throughput electrospray mass spectrometry of combinatorial chemistry racks with automated contamination surveillance and results reporting Rapid Communications in Mass Spectrometry 10: 15 (1996) 1894-1900 Yuan, Q.P.; Clarke, J.R.; Zhou, H.R.; Linz, J.E.; Pestka, J.J.; Hart, L.P. Molecular cloning, expression, and characterization of a functional single-chain Fv antibody to the mycotoxin zearalenone Applied and Environmental Microbiology 63: 1 (JAN 1997) 263-269 deBont, D.B.A.; Dijkstra, G.D.H.; denHartog, J.A.J.; Liskamp, R.M.J. Solid-phase synthesis of peptidosulfonamide containing peptides derived from Leu-enkephalin Bioorganic & Medicinal Chemistry Letters 6: 24 (DEC 17 1996) 3035-3040 Kaldor, S.W.; Fritz, J.E.; Tang, J.; McKinney, E.R. Discovery of antirhinoviral leads by screening a combinatorial library of ureas prepared using covalent scavengers Bioorganic & Medicinal Chemistry Letters 6: 24 (DEC 17 1996) 3041-3044 Bowditch, R.D.; Tani, P.; Fong, K.C.; McMillan, R. Characterization of autoantigenic epitopes on platelet glycoprotein IIb/IIIa using random peptide libraries Blood 88: 12 (DEC 15 1996) 4579-4584 Fakhfakh, F.; Ayadi, H.; Bahloul, Z.; Jarraya, A.; Sioud, M.; Zouali, M. Antibody epitopes probed by immunoselected phage-display library peptides in members of a family with various rheumatic manifestations Clinical and Experimental Rheumatology 14: 6 (NOV-DEC 1996) 607-611 Dunn, I.S. Total modification of the bacteriophage lambda tail tube major subunit protein with foreign peptides Gene 183: 1-2 (DEC 12 1996) 15-21 Pasqualini, R.; Ruoslahti, E. Tissue targeting with phage peptide libraries Molecular Psychiatry 1: 6 (DEC 1996) 423-423 Bone, R.G.A.; Villar, H.O. Exhaustive enumeration of molecular substructures Journal of Computational Chemistry 18: 1 (JAN 15 1997) 86-107 Ruoslahti, E. RGD and other recognition sequences for integrins Annual Review of Cell and Developmental Biology 12 (1996) 697-715 Pestov, N.B.; Gusakova, T.V.; Kostina, M.B.; Shakhparonov, M.I. Phage mimotopes for monoclonal antibodies against plasma membrane Ca2+-ATPase Bioorganicheskaya Khimiya 22: 9 (SEP 1996) 664-670 Simon, P.M. Pharmaceutical oligosaccharides Drug Discovery Today 1: 12 (DEC 1996) 522-528 Terrett, N. Combinatorial chemistry Drug Discovery Today 1: 12 (DEC 1996) 537-538 deKruif, J.; Storm, G.; vanBloois, L.; Logtenberg, T. Biosynthetically lipid-modified human scFv fragments from phage display libraries as targeting molecules for immunoliposomes FEBS Letters 399: 3 (DEC 16 1996) 232-236 Nishi, T.; Budde, R.J.A.; McMurray, J.S.; Obeyesekere, N.U.; Safdar, N.; Levin, V.A.; Saya, H. Tight-binding inhibitory sequences against pp60(c-src) identified using a random 15-amino-acid peptide library FEBS Letters 399: 3 (DEC 16 1996) 237-240 Lundin, K.; Samuelsson, A.; Jansson, M.; Hinkula, J.; Wahren, B.; Persson, M.A.A. Peptides isolated from random peptide libraries on phage elicit a neutralizing anti-HIV-1 response: Analysis of immunological mimicry Immunology 89: 4 (DEC 1996) 579-586 Takahashi, Y.; Ametani, A.; Totsuka, M.; Kaminogawa, S. The direct cloning of the immunoglobulin V-H genes from primary cultured B cells specific for a short peptide Journal of Biotechnology 49: 1-3 (AUG 20 1996) 201-210 Roben, P.; Barbas, S.M.; Sandoval, L.; Lecerf, J.M.; Stollar, B.D.; Solomon, A.; Silverman, G.J. Repertoire cloning of lupus anti-DNA autoantibodies Journal of Clinical Investigation 98: 12 (DEC 15 1996) 2827-2837 Kurth, M.J.; Randall, L.A.A.; Takenouchi, K. Solid-phase combinatorial synthesis of polyisoxazolines: A two- reaction iterative protocol Journal of Organic Chemistry 61: 25 (DEC 13 1996) 8755-8761 Smith, J.; Liras, J.L.; Schneider, S.E.; Anslyn, E.V. Solid and solution phase organic syntheses of oligomeric thioureas Journal of Organic Chemistry 61: 25 (DEC 13 1996) 8811-8818 From owner-repertoires@net.bio.net Thu Feb 27 22:00:00 1997 Path: biosci!daresbury!not-for-mail From: chames@ir2cbm.cnrs-mrs.fr (Patrick CHAMES) Newsgroups: bionet.molecules.repertoires Subject: input phages Date: 28 Feb 1997 11:30:44 -0000 Lines: 17 Sender: lpddist@mserv1.dl.ac.uk Distribution: bionet Message-ID: <5f6fl4$klt@mserv1.dl.ac.uk> Original-To: molreps@dl.ac.uk does anybody know if during a selection of phages (phagemids) on immunotube, a too high phage concentration can be a problem (for example 10(13) phages in one ml of milk/pbs). thank you for your responses ------------------------------------ Patrick CHAMES CNRS-LIDSM 31 chemin Joseph Aiguier 13402 MARSEILLE cedex 20 tel 04 91 16 45 61 fax 04 91 71 21 24 ------------------------------------- From owner-repertoires@net.bio.net Thu Feb 27 22:00:00 1997 Path: biosci!internet!biosci!not-for-mail From: biohelp (BIOSCI Administrator) Newsgroups: bionet.molecules.repertoires Subject: BIOSCI/bionet miniFAQ & Fundraiser Date: 28 Feb 1997 02:00:13 -0800 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 239 Sender: daemon@net.bio.net Distribution: world Message-ID: <199702281000.CAA25835@net.bio.net> NNTP-Posting-Host: net.bio.net (LAST REVISION: 30-JUL-95) This BIOSCI "miniFAQ" is designed to answer the questions that come up the *most frequently*. The main BIOSCI FAQ (Frequently Asked Questions) is accessible on the World Wide Web at URL http://www.bio.net/. If you can not find an answer to your question in this or other documentation, the BIOSCI technical support staff answers e-mail queries sent to biosci-help@net.bio.net We can only answer questions about the use of the newsgroups and mailing lists. We unfortunately do not have the staff to do Internet information searches or answer scientific questions. Please post those to the appropriate BIOSCI/bionet newsgroups. Contents: -------- 0) BIOSCI NEEDS YOUR SUPPORT!! 1) Using the WWW to access the BIOSCI/bionet newsgroups. 2) What to do about "spams," i.e., junk mail, ads, etc. 3) Examples of subscribing and unsubscribing to the mailing lists. 4) The BIOSCI user address and research interest directory. 0) BIOSCI NEEDS YOUR SUPPORT!! ------------------------------ BIOSCI's government funding has been expended, and we are now operating solely from advertising revenue that we have raised from our Web site at http://www.bio.net/. We need just a few minutes of your time to help us serve you. You can do two important things which will take very little time for you individually and will immensely help us continue to help you. First, please use our WWW system at http://www.bio.net/ to access the archives. You can post or reply to messages via your Web browser as described in item #1 below. Your usage helps attract sponsors. If you contact any of our sponsors, please be sure to thank them for supporting BIOSCI. It is critical for them to get this feedback if they are to continue their sponsorship for the long term. Second, if you work for a company or organization that provides products or services of interest to the biology community, please pass this message on to your marketing or marketing communications department or other appropriate group. Please ask them to help support BIOSCI by sponsoring our Web site and explain the uses and benefits of the system to the biology community. If they are interested, they can then contact us for further information at our tech support address, biosci-help@net.bio.net. 1) Using the WWW to access the BIOSCI/bionet newsgroups. -------------------------------------------------------- As of 10 December 1995, all BIOSCI/bionet full newsgroups are accessible through the World Wide Web (WWW) at URL http://www.bio.net. One can read and reply publicly or privately to both recent postings and archived messages through one's Web browser if it is configured properly to send e-mail. Each newsgroup is equipped with its own WAIS index. The main BIOSCI home page also has access to the BIO-JOURNALS Table of Contents database WAIS index and the BIOSCI user address database described in another item further below. 2) What to do about "spams," i.e., junk mail, ads, etc. ------------------------------------------------------- BIOSCI is a set of parallel USENET newsgroups (the "bionet" groups), mailing lists, and a hypermail archive at URL http://www.bio.net/. The same postings are distributed on all media (except for a small number of mailing-list-only groups at net.bio.net). Unfortunately it is becoming a despicable practice on the Internet (by a few people out to make a fast buck) to do automated mass postings to thousands of newsgroups and mailing lists. These attempts to grab free advertising are refered to as "spams" in the usual, somewhat boneheaded, net terminology. USENET is more susceptible to this practice, and many spams originate on the USENET groups and then are passed on to the mailing lists. However, spammers also get lists of mailing addresses and hit these too, so neither medium is immune. What should you do personally if you get junk mail? --------------------------------------------------- Just delete it and move on without reading it further. Filing a protest is becoming increasingly useless because spammers are often disguising the addresses where the messages are sent from. Unless you really understand Internet mail systems, your attempt at protest by sending replies to the message will often end up being sent to the address of an innocent person that the spammer is victimizing. What can BIOSCI/bionet do to protect its newsgroups? ---------------------------------------------------- The only solution currently available is to moderate the newsgroup. If this newsgroup is already moderated, then you are in good shape. Moderation protects the USENET distribution from about 95% of the spams that are being sent to date and protects the mailing lists completely. Moderation means, however, that someone has to take the time to review each message before it goes out. We have set up software here that simply allows the moderator to forward to an address at net.bio.net messages that (s)he wishes to have distributed. This takes no more time than that needed to read the message and pass it on, say about 1 min. per message. Most newsgroups currently have a discussion leader who is responsible for their newsgroup. The discussions leaders and their e-mail addresses are listed in the BIOSCI Information Sheet which is available on the Web at http://www.bio.net/. If a newsgroup is being hit with too many junk postings, please contact the discussion leader for that group and see if there is interest in moderating the group. Please do not assume that by simply posting a complaint to the newsgroup itself, anyone on the BIOSCI staff will act on your complaint. With close to 100 newsgroups to run, the BIOSCI staff has to rely on the discussion leaders of each newsgroup to report problems directly to us at biosci-help@net.bio.net. We will moderate any of our newsgroups if the discussion leader tells us that the readership of the group wishes to do so and if a moderator is willing to do the work. For most BIOSCI/bionet groups, this entails only a few minutes of work each day. Moderating a newsgroup will resolve probably 95% of the junk postings on the USENET distribution. Unfortunately there are easy ways for determined spammers to override the moderation mechanism on USENET, but we can protect our e-mail subscribers from unwanted postings if the newsgroup is moderated. You can also access our newsgroups over the WWW at URL http://www.bio.net. While this Web interface will not stop spammers from trying to post to the groups, this will give you yet another way, besides using USENET news, to keep the junk out of your personal mail files. For those of you with local USENET news systems, the Web interface will also give you faster access to new newsgroups and recent postings. 3) Examples of subscribing and unsubscribing to the mailing lists. ------------------------------------------------------------------ PLEASE NOTE: The BIOSCI management does NOT act on subscription/unsubscription requests that are posted improperly to the newsgroups and mailing lists. People who do this only bother everyone on the lists to no avail. Please be sure to follow the proper procedures below. Gory details are in the BIOSCI Information sheets on the Web at http://www.bio.net. Below we give an example utilizing the METHODS-AND-REAGENTS list at both of our two BIOSCI sites: Users in the Americas and Pacific Rim countries who use the BIOSCI ------------------------------------------------------------------ node at computer net.bio.net: ---------------------------- A) Determine the "listname" which is the <=8 character mail address ^^^^^^^^^^^^^ for the group. These can be found in the BIOSCI Info. Sheet. For the METHODS-AND-REAGENTS group the mailing address is methods@net.bio.net. The listname is the portion of the address to the left of the @ sign, i.e., "methods". The listname is used with the "subscribe" and "unsubscribe" commands illustrated below. B) Mail all commands in the body of a mail message addressed to biosci-server@net.bio.net. Do NOT send commands to the newsgroup posting addresses! Leave the Subject: line blank, any text on it will be ignored. C) In the body of your message put one or more of the following commands with an "end" command on the last line, e.g., subscribe methods unsubscribe methods end Do NOT put your e-mail address or other text on these lines. The server only allows you to cancel your subscription if the address on your mail header matches the address on our mailing list. Please ask for help at biosci-help@net.bio.net if your address has changed, e.g., if you know you are on the list but the server tells you that you are not a member. Users in Europe, Africa, and Central Asia who use the BIOSCI node at -------------------------------------------------------------------- computer daresbury.ac.uk (also known as dl.ac.uk): ------------------------------------------------- To subscribe and unsubscribe to/from the BIOSCI lists, you need to specify the full USENET newsgroup name with "bionet-news." prepended. The USENET newsgroup names are listed in the BIOSCI Information sheet on the Web at http://www.bio.net/. For the METHODS-AND-REAGENTS list the USENET newsgroup name is bionet.molbio.methds-reagnts, thus the appropriate commands are sub bionet-news.bionet.molbio.methds-reagnts unsub bionet-news.bionet.molbio.methds-reagnts These commands are included in a message addressed to mxt@dl.ac.uk, NOT to the newsgroup mailing addresses. As usual, include the text in the body of the message as text on the Subject: line is ignored. To unsubscribe from all the lists at the UK node, use unsub bionet-news Please note that if the address in the list is different than the one in your mail message header, you will not be able to unsubscribe by this method. If you have problems, please mail biosci@daresbury.ac.uk. 4) The BIOSCI user address and research interest directory. ----------------------------------------------------------- Please take this opportunity to add your name, address, and research interest information to the BIOSCI User Address Database if you have not already done so. You can fill out the address form directly through our Web page at URL http://www.bio.net/adrform.html. The address database is reindexed nightly for WWW access (the URL is http://www.bio.net/). If you are not directly on the Internet but can reach it by e-mail, please use our waismail server to access the user directory. waismail use is described above. You can also request a user address form by e-mail from biosci-help@net.bio.net. Please check your database entry from time-to-time to see if your address information is still up-to-date. Because of our limited personnel resources, we ask that you resubmit a *complete* form to revise your entry; we only replace complete entries and do not have resources to edit old forms. Sincerely, Dave Kristofferson BIOSCI/bionet Manager biosci-help@net.bio.net