HUM-MOLGEN archive: LITE: NAR 24:07 and 24:08

========================================== Nucleic Acids Research - ISSN 0305 1048 Volume 24:07 1 April 1996 ========================================== Executive Editors:- R. T. Walker, Birmingham, UK R. J. Roberts, Beverly, MA, USA K. Calame, New York, NY, USA I. C. Eperon, Leicester, UK M. J. Gait, Cambridge, UK H. J. Gross, Wurzburg, Germany R. I. Gumport, Urbana, IL, USA R. B. Hallick, Tucson, AZ, USA S. Linn, Berkeley, CA, USA R. T. Simpson, University Park, PA, USA ========================================== CONTENTS ========================================== NOTE: Abstracts of all these papers are available at the NAR Online Web site at: http://www.oup.co.uk/nar/ If you are a subscriber to the print version of NAR, you can also access the full text of these articles online. For more details of this service, please see the notes at the foot of this posting, under the heading 'NAR Online - mini-FAQ'. ======================================== A helicase assay based on the displacement of fluorescent, nucleic acid-binding ligands Angela K. Eggleston , Nazir A. Rahim and Stephen C. Kowalczykowski Pages 1179-1186 The use of non-uniform deuterium labelling ['NMR-window'] to study the NMR structure of a 21mer RNA hairpin A. Foeldesi , S.-I. Yamakage , F. P. R. Nilsson , T. V. Maltseva and J. Chattopadhyaya Pages 1187-1194 Analysis of eukaryotic mRNA structures directing cotranslational incorporation of selenocysteine Heike Kollmus , Leopold Flohe and John E.G. McCarthy Pages 1195-1202 The PARP promoter of Trypanosoma brucei is developmentally regulated in a chromosomal context Susanne Biebinger, Susanne Rettenmaier, John Flaspohler, Claudia Hartmann, Javier Pena-Diazw, L. Elizabeth Wirtz, Hans-Rudolf Hotz, J.David Barry and Christine Clayton Pages 1202-1211 Sequences attaching loops of nuclear and mitochondrial DNA to underlying structures in human cells: the role of transcription units Dean A. Jackson , Jon Bartlett and Peter R. Cook Pages 1212-1220 A nucleolar RNA helicase recognized by autoimmune antibodies from a patient with watermelon stomach disease Benigno C. Valdez , Dale Henning , Rose K. Busch , Karen Woods , Hernan Flores-Rozas , Jerard Hurwitz , Laszlo Perlaky and Harris Busch Pages 1220-1224 Cytosolic yeast tRNA His is covalently modified when imported into mitochondria of Trypanosoma brucei Andre Schneider Pages 1225-1229 Triplex formation at physiological pH by 5-Me-dC-N 4 - (spermine) [X] oligodeoxynucleotides: non protonation of N3 in X of X*G:C triad and effect of base mismatch/ionic strength on triplex stabilities Dinesh A. Barawkar , Kallanthottathil G. Rajeev , Vaijayanti A. Kumar and Krishna N. Ganesh Pages 1229-1237 Drosophila immunity: a comparative analysis of the Rel proteins dorsal and Dif in the induction of the genes encoding diptericin and cecropin Isabelle Gross , Philippe Georgel , Christine Kappler , Jean-Marc Reichhart and Jules A. Hoffmann Pages 1238-1245 Identification and analysis of the rnc gene for RNase III in Rhodobacter capsulatus Reinhard Rauhut , Andreas Jaeger , Christian Conrad and Gabriele Klug Pages 1246-1251 Comparative analysis of ribonuclease P RNA structure in Archaea Elizabeth S. Haas , David W. Armbruster , Beverly M. Vucson , Charles J. Daniels and James W. Brown Pages 1252-1260 In vitro generation of a circular exon from a linear pre-mRNA transcript Catherine Schindewolf , Susanne Braun and Horst Domdey Pages 1260-1266 Characterization of a UV endonuclease gene from the fisson yeast Schizosaccharomyces pombe and its bacterial homolog Masashi Takao, Rie Yonemasu1, Kazuo Yamamoto and Akira Yasui Pages 1267-1271 Synthesis, structure and thermodynamic properties of 8-methylguanine-containing oligonucleotides: Z-DNA under physiological salt conditions Hiroshi Sugiyama , Kiyohiko Kawai , Atsushi Matsunaga , Kenzo Fujimoto , Isao Saito , Howard Robinson and Andrew H.-J. Wang Pages 1272-1279 Incomplete factorial and response surface methods in experimental design: yield optimization of tRNA Trp from in vitro T7 RNA polymerase transcription Yuhui Yin and Charles W. Carter, Jr Pages 1279-1287 The width of the minor groove affects the binding of the bisquaternary heterocycle SN-6999 to duplex DNA Jan M. Rydzewski , Werner Leupin and Walter Chazin Pages 1287-1294 The telobox, a Myb-related telomeric DNA binding motif found in proteins from yeast, plants and human Thomas Bilaud , Catherine Elaine Koering , Emmanuelle Binet-Brasselet , Katia Ancelin , Alessandra Pollice , Susan M. Gasser and Eric Gilson Pages 1294-1303 DNA damage and DNA sequence retrieval from ancient tissues Matthias Hoess , Pawel Jaruga , Tomasz H. Zastawny , Miral Dizdaroglu and Svante Paabo Pages 1304-1307 Differential discrimination of DNA polymerases for variants of the non-standard nucleobase pair between xanthosine and 2,4- diaminopyrimidine, two components of an expanded genetic alphabet Michael J. Lutz , Heike A. Held , Michael Hottiger , Ulrich Huebscher and Steven A. Benner Pages 1308-1313 Core sequences and a cleavage site wobble pair required for HDV antigenomic ribozyme self-cleavage Anne T. Perrotta and Michael D. Been Pages 1314-1321 The yeast UME6 gene is required for both negative and positive transcriptional regulation of phospholipid biosynthetic gene expression John C. Jackson and John M. Lopes Pages 1322-1329 Construction of a chromosome specific library of human MARs and mapping of matrix attachment regions on human chromosome 19 Lev G. Nikolaev , Tsogtkhishig Tsevegiyn , Sergey B. Akopov , Linda K. Ashworth and Eugene D. Sverdlov Pages 1330-1336 An RNA fragment consisting of the P7 and P9.0 stems and the 3' - terminal guanosine of the Tetrahymena group I intron Satoru Watanabe , Gota Kawai , Yutaka Muto , Kimitsuna Watanabe , Tan Inoue and Shigeyuki Yokoyama Pages 1337-1344 Elk-1 can recruit SRF to form a ternary complex upon the serum response element Branko V. Latinkic , Marija Zeremski and Lester F. Lau Pages 1345-1351 Folding of the HDV antigenomic ribozyme pseudoknot structure deduced from long-range photocrosslinks Catherine Bravo , Franck Lescure , Philippe Laugaa , Jean-Louis Fourrey and Alain Favre Pages 1351-1360 Positive elements in the laminin [gamma] gene synergize to activate high level transcription during cellular differentiation Hur Song Chang , Norma B. Kim w and Stephen L. Phillips Pages 1360-1368 Fully edited and partially edited nad9 transcripts differ in size and both are associated with polysomes in potato mitochondria Bingwei Lu and Maureen R. Hanson Pages 1369-1374 Particle-mediated delivery of recombinant expression vectors to rabbit skin induces high-titered polyclonal antisera (and circumvents purification of a protein immunogen) Pazhani Sundaram , Wei Xiao and Janet L. Brandsma Pages 1375-1377 Rapid site-directed mutagenesis by a method that selects for full length mutated DNA Cheng C. Wang , Lawrence P. Fernando and Philip S. Low Pages 1378-1379 Kinetics of transcription in a minute column Tomoko Kubori and Nobuo Shimamoto Pages 1380-1382 A novel method of identifying living transfected cardiac myocyte Bruce T. Liang Pages 1382-1384 Rapid selection and classification of positive clones generated by mRNA differential display Regina Voegeli-Lange , Niels Buerckert , Thomas Boller and Andres Wiemken Pages 1385-1386 ========================================== Nucleic Acids Research is published 25 times a year by Oxford University Press. The papers listed above appear in the 1 April 1996 issue. If you would like further details about Nucleic Acids Research, including instructions for authors or details of subscription rates, please contact:- Richard Gedye Oxford University Press Walton Street Oxford OX2 6DP United Kingdom Tel: +44 1865 267785 Fax: +44 1865 267782 E-mail: gedyer@oup.co.uk Copyright in the table of contents listed above is held by Oxford University Press, but you are welcome to circulate it further, provided that Oxford University Press is credited as publisher and copyright holder. =============================================== NAR ONLINE - MINI-FAQ WHAT SPECIAL FEATURES DOES NAR ONLINE OFFER? * You can obtain articles online in advance of hard copy. * You can browse current and forthcoming issues, as well as a three year back file * You can search all the issues, by author and keyword (in title, abstract, or full text) * You can choose the format in which you want your articles delivered:- HTML for quick and easy screen reading, as well as easy printability PDF for quick screen browsing and superb printing quality Postscript for superb printing quality without the need to view the article first Printerleaf if you want to use the same software as NAR on CD-ROM * You can go directly from references to their Medline Abstracts * You can go directly to genetic sequencing databases referred to in articles * You can receive advance notice by e-mail of papers to be published. HOW DO I ACCESS NAR ONLINE? Simply go to http://www.oup.co.uk/nar/ For 1996, you can access the complete text of NAR Online if:- 1. You have your own personal print subscription Just visit the NAR Online web site to register. You'll need to have your subscriber number ready (it's printed on your subscription address label that comes with each issue). 2. Your institution has a library subscription Ask your librarian for the library's subscription number, then register yourself at the NAR Online web site. Remember to use your own name when you register (not that of the library) and to create your own personal password. Then we can send you advance table of contents information by e-mail and also let you know immediately of any changes or enhancements to the online access system. WHAT IF NEITHER I NOR MY LIBRARY HAVE A CURRENT SUBSCRIPTION? In 1996, you can still visit NAR Online and browse or search the titles and abstracts as a visitor. But you won't be able to access the full text of articles. I'M THINKING OF SUBSCRIBING - CAN I SEE A SAMPLE ONLINE ISSUE FIRST? Yes. You'll find when you come to our site as a visitor that you can access the full text of Volume 23, Issue 24 (the last issue of 1995) ------------------------------------- We hope you find this information helpful. All questions, comments and suggestions, etc. on NAR Online's quality, speed, ease of use, facilities, and options will continue to be greatly welcomed. We've already done a lot to enhance NAR Online as a result of the feedback so far, and we look forward to continuing to do so. Best wishes, =========================== Richard Gedye Oxford University Press Walton Street Oxford OX2 6DP England Tel: +44 1865 267785 (direct) Fax: +44 1865 267835 E-mail: gedyer@oup.co.uk World Wide Web site: http://www.oup.co.uk/ =========================== ========================================== Nucleic Acids Research - ISSN 0305 1048 Volume 24:08 15 April 1996 ========================================== Executive Editors:- R. T. Walker, Birmingham, UK R. J. Roberts, Beverly, MA, USA K. Calame, New York, NY, USA I. C. Eperon, Leicester, UK M. J. Gait, Cambridge, UK H. J. Gross, Wurzburg, Germany R. I. Gumport, Urbana, IL, USA R. B. Hallick, Tucson, AZ, USA S. Linn, Berkeley, CA, USA R. T. Simpson, University Park, PA, USA ========================================== CONTENTS ========================================== NOTE: Abstracts of all these papers are available at the NAR Online Web site at: http://www.oup.co.uk/nar/ If you are a subscriber to the print version of NAR, you can also access the full text of these articles online. For more details of this service, please see the notes at the foot of this posting, under the heading 'NAR Online - mini-FAQ'. ========================================== Repair of products of oxidative DNA base damage in human cells Pawel Jaruga and Miral Dizdaroglu Pages 1389-1394 Palingol: a declarative programming language to describe nucleic acids' secondary structures and to scan sequence databases Bernard Billoud , Milutin Kontic and Alain Viari Pages 1395-1404 Regulation of Cre recombinase activity by the synthetic steroid RU 486 Christoph Kellendonk , Francois Tronche , A.-Paula Monaghan , Pierre-Olivier Angrand , Francis Stewart and Guenther Schuetz Pages 1404-1411 DNA-protein interactions at the telomeric repeats of Schizosaccharomyces pombe Margaret Duffy and Alistair Chambers Pages 1412-1419 Effects of cell cycle dependent histone H1 phosphorylation on chromatin structure and chromatin replication Lothar Halmer and Claudia Gruss Pages 1420-1427 Afut 1, a retrotransposon-like element from Aspergillus fumigatus Cecile Neuveglise , Jacqueline Sarfati , Jean-Paul Latge and Sophie Paris Pages 1428-1435 Multiplex messenger assay: simultaneous, quantitative measurement of expression of many genes in the context of T cell activation Karine Bernard , Nathalie Auphan , Samuel Granjeaud , Genevieve Victorero , Anne-Marie Schmitt-Verhulst , Bertrand R. Jordan and Catherine Nguyen Pages 1435-1443 Genomic position effects lead to an inefficient reorganization of nucleosomes in the 5 '-regulatory region of the chicken lysozyme locus in transgenic mice Matthias C. Huber , Gudrun Krueger and Constanze Bonifer Pages 1443-1453 Mutations in target DNA elements of yeast HAP1 modulate its transcriptional activity without affecting DNA binding Nhuan Ha , Karen Hellauer and Bernard Turcotte Pages 1453-1460 The binding mode of drugs to the TAR RNA of HIV-1 studied by electric linear dichroism Christian Bailly , Pierre Colson , Claude Houssier and Francois Hamy Pages 1460-1465 Age-dependent silencing of globin transgenes in the mouse Graham Robertson , David Garrick , Mark Wilson , David I. K. Martin and Emma Whitelaw Pages 1465-1472 Structure of recombinant rat UBF by electron image analysis and homology modelling Keith J. Neil , Ross A. Ridsdale , Brenda Rutherford , Laura Taylor , Dawn E. Larson , Marija Glibetic , Lawrence I. Rothblum and George Harauz Pages 1472-1480 The [gamma] subfamily of DNA polymerases: cloning of a developmentally regulated cDNA encoding Xenopus laevis mitochondrial DNA polymerase [gamma] Fei Ye , Jose A. Carrodeguas and Daniel F. Bogenhagen Pages 1481-1488 2 ' - O -methyl-5-formylcytidine (f 5 Cm), a new modified nucleotide at the 'wobble' position of two cytoplasmic tRNAs Leu (NAA) from bovine liver Jean-Paul Pais de Barros , Gerard Keith , Chakib El Adlouni , Anne-Lise Glasser w , Gerard Mack , Guy Dirheimer and Jean Desgres Pages 1489-1497 The catalytic core of RNase P Christopher J. Green , Rafael Rivera-Leon and Barbara S. Vold Pages 1497-1503 Screening of differentially amplified cDNA products from RNA arbitrarily primed PCR fingerprints using single strand conformation polymorphism (SSCP) gels Francoise Mathieu-Daude , Rita Cheng , John Welsh and Michael McClelland Pages 1504-1508 Oligonucleotide N3 ' -> P5 ' phosphoramidates as antisense agents Sergei Gryaznov , Tomasz Skorski , Carla Cucco , Malgorzata Nieborowska-Skorska , Choi Ying Chiu , David Lloyd , Jer-Kang Chen , Maria Koziolkiewicz and Bruno Calabretta Pages 1508-1515 SAGA: sequence alignment by genetic algorithm Cedric Notredame and Desmond G. Higgins Pages 1515-1524 An element in the endogenous IgH locus stimulates gene targeting in hybridoma cells Alla Buzina and Marc J. Shulman Pages 1525-1531 Experimentally determined weight matrix definitions of the initiator and TBP binding site elements of promoters Richard J. Kraus , Elizabeth E. Murray , Steven R. Wiley w , Nancy M. Zink , Karla Loritz , Gregory W. Gelembiuk and Janet E. Mertz Pages 1531-1540 DNA repair deficiencies associated with mutations in genes encoding subunits of transcription initiation factor TFIIH in yeast Kevin S. Sweder , Rene Chun , Toshio Mori and Philip C. Hanawalt Pages 1540-1546 Identification of members of several homeobox genes in a planarian using a ligation-mediated polymerase chain reaction technique Guillaume Balavoine Pages 1547-1554 The structure of d(TpA)*, the major photoproduct of thymidylyl-(3 ' -5 ')-deoxyadenosine Xiaodong Zhao , Sourena Nadji , Jeffrey L.-F. Kao and John-Stephen Taylor Pages 1554-1560 Mutation spectra of TA*, the major photoproduct of thymidylyl- (3 ' -5')-deoxyadenosine, in Escherichia coli under SOS conditions Xiaodong Zhao and John-Stephen Taylor Pages 1561-1566 An NMR study of [d(CGCGAATTCGCG)] 2 containing an interstrand cross-link derived from a distamycin-pyrrole conjugate Patricia A. Fagan , H. Peter Spielmann , Snorri Th. Sigurdsson, w , Stacia M. Rink , Paul B. Hopkins and David E. Wemmer Pages 1566-1573 Reduced extension temperatures required for PCR amplification of extremely A+T-rich DNA Xin-zhuan Su , Yimin Wu , C. David Sifri and Thomas E. Wellems Pages 1574-1575 A rapid and efficient method for concentration of small volumes of retroviral supernatant Diane L. Miller , Peter J. Meikle and Donald S. Anson Pages 1576-1577 Taq DNA polymerase blockage at pyrimidine dimers Ralf-Erik Wellinger and Fritz Thoma Pages 1578-1579 Ready to use agarose encapsulated PCR reagents Robert A. Setterquist and G. Kenneth Smith Pages 1580-1581 Improved method for selecting RNA-binding activities in vivo Derrick E. Fouts and Daniel W. Celander Pages 1582-1584 High resolution restriction mapping of YACs using chromosome fragmentation Graham P. Cook and Ian M. Tomlinson Pages 1585-1587 A rapid method of DNA isolation using laundry detergent A. Bahl and M. Pfenninger Pages 1587-1588 ========================================== Nucleic Acids Research is published 25 times a year by Oxford University Press. The papers listed above appear in the 15 April 1996 issue. If you would like further details about Nucleic Acids Research, including instructions for authors or details of subscription rates, please contact:- Richard Gedye Oxford University Press Walton Street Oxford OX2 6DP United Kingdom Tel: +44 1865 267785 Fax: +44 1865 267782 E-mail: gedyer@oup.co.uk Copyright in the table of contents listed above is held by Oxford University Press, but you are welcome to circulate it further, provided that Oxford University Press is credited as publisher and copyright holder. =============================================== NAR ONLINE - MINI-FAQ WHAT SPECIAL FEATURES DOES NAR ONLINE OFFER? * You can obtain articles online in advance of hard copy. * You can browse current and forthcoming issues, as well as a three year back file * You can search all the issues, by author and keyword (in title, abstract, or full text) * You can choose the format in which you want your articles delivered:- HTML for quick and easy screen reading, as well as easy printability PDF for quick screen browsing and superb printing quality Postscript for superb printing quality without the need to view the article first Printerleaf if you want to use the same software as NAR on CD-ROM * You can go directly from references to their Medline Abstracts * You can go directly to genetic sequencing databases referred to in articles * You can receive advance notice by e-mail of papers to be published. HOW DO I ACCESS NAR ONLINE? Simply go to http://www.oup.co.uk/nar/ For 1996, you can access the complete text of NAR Online if:- 1. You have your own personal print subscription Just visit the NAR Online web site to register. You'll need to have your subscriber number ready (it's printed on your subscription address label that comes with each issue). 2. Your institution has a library subscription Ask your librarian for the library's subscription number, then register yourself at the NAR Online web site. Remember to use your own name when you register (not that of the library) and to create your own personal password. Then we can send you advance table of contents information by e-mail and also let you know immediately of any changes or enhancements to the online access system. WHAT IF NEITHER I NOR MY LIBRARY HAVE A CURRENT SUBSCRIPTION? In 1996, you can still visit NAR Online and browse or search the titles and abstracts as a visitor. But you won't be able to access the full text of articles. I'M THINKING OF SUBSCRIBING - CAN I SEE A SAMPLE ONLINE ISSUE FIRST? Yes. You'll find when you come to our site as a visitor that you can access the full text of Volume 23, Issue 24 (the last issue of 1995) ------------------------------------- We hope you find this information helpful. All questions, comments and suggestions, etc. on NAR Online's quality, speed, ease of use, facilities, and options will continue to be greatly welcomed. We've already done a lot to enhance NAR Online as a result of the feedback so far, and we look forward to continuing to do so. Best wishes, =========================== Richard Gedye Oxford University Press Walton Street Oxford OX2 6DP England Tel: +44 1865 267785 (direct) Fax: +44 1865 267835 E-mail: gedyer@oup.co.uk World Wide Web site: http://www.oup.co.uk/ ===========================