Nucleic Acids Research, 1995, Vol. 23, No. 24 4992-4999
© 1995
Articles |
A new DNA sequence assembly program
MRC Laboratory of Molecular Biology Hills Road, Cambridge CB2 2QH, UK
*To whom correspondence should be addressed
Received September 29, 1995. Accepted November 15, 1995.
We describe the Genome Assembly Program (GAP), a new program for DNA sequence assembly. The program is suitable for large and small projects, a variety of strategies and can handle data from a range of sequencing instruments. It retains the useful components of our previous work, but includes many novel Ideas and methods. Many of these methods have been made possible by the program's completely new, and highly interactive, graphical user interface. The program provides many visual clues to the current state of a sequencing project and allows users to interact In intuitive and graphical ways with their data. The program has tools to display and manipulate the various types of data that help to solve and check difficult assemblies, particularly those in repetitive genomes. We have introduced the following new displays: the Contig Selector, the Contlg Comparator, the Template Display, the Restriction Enzyme Map and the Stop Codon Map. We have also made it possible to have any number of Contig Editors and Contig Joining Editors running simultaneously even on the same contig. The program also includes a new ‘Directed Assembly’ algorithm and routines for automatically detecting unfinished segments of sequence, to which it suggests experimental solutions.
CiteULike 
Connotea 
Del.icio.us What's this?
This article has been cited by other articles:
|
|
 |
|
  M. Jokela-Maatta, A. Vartio, L. Paulin, and K. Donner Individual variation in rod absorbance spectra correlated with opsin gene polymorphism in sand goby (Pomatoschistus minutus) J. Exp. Biol., November 1, 2009; 212(21): 3415 - 3421. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 H. M. Manske and D. P. Kwiatkowski LookSeq: A browser-based viewer for deep sequencing data Genome Res., November 1, 2009; 19(11): 2125 - 2132. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. S. Sutherland, A. M. Cumming, M. Bowman, P. H. B. Bolton-Maggs, D. J. Bowen, P. W. Collins, C. R. M. Hay, A. M. Will, and S. Keeney A novel deletion mutation is recurrent in von Willebrand disease types 1 and 3 Blood, July 30, 2009; 114(5): 1091 - 1098. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 H. Peterson, H. Laivuori, E. Kerkela, H. Jiao, L. Hiltunen, S. Heino, I. Tiala, S. Knuutila, V. Rasi, J. Kere, et al. ROCK2 allelic variants are not associated with pre-eclampsia susceptibility in the Finnish population Mol. Hum. Reprod., July 1, 2009; 15(7): 443 - 449. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 A. C. Potgieter, N. A. Page, J. Liebenberg, I. M. Wright, O. Landt, and A. A. van Dijk Improved strategies for sequence-independent amplification and sequencing of viral double-stranded RNA genomes J. Gen. Virol., June 1, 2009; 90(6): 1423 - 1432. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 C. Simon, J. Herath, S. Rockstroh, and R. Daniel Rapid Identification of Genes Encoding DNA Polymerases by Function-Based Screening of Metagenomic Libraries Derived from Glacial Ice Appl. Envir. Microbiol., May 1, 2009; 75(9): 2964 - 2968. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 N. J. Croucher, D. Walker, P. Romero, N. Lennard, G. K. Paterson, N. C. Bason, A. M. Mitchell, M. A. Quail, P. W. Andrew, J. Parkhill, et al. Role of Conjugative Elements in the Evolution of the Multidrug-Resistant Pandemic Clone Streptococcus pneumoniaeSpain23F ST81 J. Bacteriol., March 1, 2009; 191(5): 1480 - 1489. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 R. Alcazar, A. V. Garcia, J. E. Parker, and M. Reymond Incremental steps toward incompatibility revealed by Arabidopsis epistatic interactions modulating salicylic acid pathway activation PNAS, January 6, 2009; 106(1): 334 - 339. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Y.-R. Chen, C.-Y. Wu, S.-T. Lee, Y.-J. Wu, C.-F. Lo, M.-F. Tsai, and C.-H. Wang Genomic and host range studies of Maruca vitrata nucleopolyhedrovirus J. Gen. Virol., September 1, 2008; 89(9): 2315 - 2330. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
E. Durmaz, M. J. Miller, M. A. Azcarate-Peril, S. P. Toon, and T. R. Klaenhammer Genome Sequence and Characteristics of Lrm1, a Prophage from Industrial Lactobacillus rhamnosus Strain M1 Appl. Envir. Microbiol., August 1, 2008; 74(15): 4601 - 4609. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. C. Oosthuizen, E. Zweygarth, N. E. Collins, M. Troskie, and B. L. Penzhorn Identification of a Novel Babesia sp. from a Sable Antelope (Hippotragus niger Harris, 1838) J. Clin. Microbiol., July 1, 2008; 46(7): 2247 - 2251. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 N. C. Collins, N. J. Shirley, M. Saeed, M. Pallotta, and J. P. Gustafson An ALMT1 Gene Cluster Controlling Aluminum Tolerance at the Alt4 Locus of Rye (Secale cereale L.) Genetics, May 1, 2008; 179(1): 669 - 682. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. D. Bentley, C. Corton, S. E. Brown, A. Barron, L. Clark, J. Doggett, B. Harris, D. Ormond, M. A. Quail, G. May, et al. Genome of the Actinomycete Plant Pathogen Clavibacter michiganensis subsp. sepedonicus Suggests Recent Niche Adaptation J. Bacteriol., March 15, 2008; 190(6): 2150 - 2160. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 J.-H. Choi, S. Kim, H. Tang, J. Andrews, D. G. Gilbert, and J. K. Colbourne A machine-learning approach to combined evidence validation of genome assemblies Bioinformatics, March 15, 2008; 24(6): 744 - 750. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. E. Lane, K. van den Heuvel, C. Kozera, B. A. Curtis, B. J. Parsons, S. Bowman, and J. M. Archibald Nucleomorph genome of Hemiselmis andersenii reveals complete intron loss and compaction as a driver of protein structure and function PNAS, December 11, 2007; 104(50): 19908 - 19913. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
R. J. Newton, S. E. Jones, M. R. Helmus, and K. D. McMahon Phylogenetic Ecology of the Freshwater Actinobacteria acI Lineage Appl. Envir. Microbiol., November 15, 2007; 73(22): 7169 - 7176. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 H. Yukawa, C. A. Omumasaba, H. Nonaka, P. Kos, N. Okai, N. Suzuki, M. Suda, Y. Tsuge, J. Watanabe, Y. Ikeda, et al. Comparative analysis of the Corynebacterium glutamicum group and complete genome sequence of strain R Microbiology, April 1, 2007; 153(4): 1042 - 1058. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. R. Davies, D. J. McMillan, G. H. Van Domselaar, M. K. Jones, and K. S. Sriprakash Phage 3396 from a Streptococcus dysgalactiae subsp. equisimilis Pathovar May Have Its Origins in Streptococcus pyogenes J. Bacteriol., April 1, 2007; 189(7): 2646 - 2652. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
K.-H. Ling, M.-A. Rajandream, P. Rivailler, A. Ivens, S.-J. Yap, A. M.B.N. Madeira, K. Mungall, K. Billington, W.-Y. Yee, A. T. Bankier, et al. Sequencing and analysis of chromosome 1 of Eimeria tenella reveals a unique segmental organization Genome Res., March 1, 2007; 17(3): 311 - 319. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 H. Sletvold, P. J. Johnsen, G. S. Simonsen, B. Aasnaes, A. Sundsfjord, and K. M. Nielsen Comparative DNA Analysis of Two vanA Plasmids from Enterococcus faecium Strains Isolated from Poultry and a Poultry Farmer in Norway Antimicrob. Agents Chemother., February 1, 2007; 51(2): 736 - 739. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Y. Sun, H. Hong, M. Samborskyy, T. Mironenko, P. F. Leadlay, and S. F. Haydock Organization of the biosynthetic gene cluster in Streptomyces sp. DSM 4137 for the novel neuroprotectant polyketide meridamycin Microbiology, December 1, 2006; 152(12): 3507 - 3515. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. Callejas, V. Leech, C. Reitter, and S. Melville Hemizygous subtelomeres of an African trypanosome chromosome may account for over 75% of chromosome length Genome Res., September 1, 2006; 16(9): 1109 - 1118. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 G. Manenti, F. Galbiati, A. Pettinicchio, M. Spinola, S. Piconese, V. P. Leoni, B. Conti, F. Ravagnani, M. Incarbone, U. Pastorino, et al. A V141L polymorphism of the human LRMP gene is associated with survival of lung cancer patients Carcinogenesis, July 1, 2006; 27(7): 1386 - 1390. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 A. Hinney, T. Bettecken, P. Tarnow, H. Brumm, K. Reichwald, P. Lichtner, A. Scherag, T. T. Nguyen, P. Schlumberger, W. Rief, et al. Prevalence, Spectrum, and Functional Characterization of Melanocortin-4 Receptor Gene Mutations in a Representative Population-Based Sample and Obese Adults from Germany J. Clin. Endocrinol. Metab., May 1, 2006; 91(5): 1761 - 1769. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 S. A. Peters, J. C. van Haarst, T. P. Jesse, D. Woltinge, K. Jansen, T. Hesselink, M. J. van Staveren, M. H.C. Abma-Henkens, and R. M. Klein-Lankhorst TOPAAS, a Tomato and Potato Assembly Assistance System for Selection and Finishing of Bacterial Artificial Chromosomes Plant Physiology, March 1, 2006; 140(3): 805 - 817. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. Breton, G. Burger, D. T. Stewart, and P. U. Blier Comparative Analysis of Gender-Associated Complete Mitochondrial Genomes in Marine Mussels (Mytilus spp.) Genetics, February 1, 2006; 172(2): 1107 - 1119. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 T. Hodgson, P. Britton, and D. Cavanagh Neither the RNA nor the Proteins of Open Reading Frames 3a and 3b of the Coronavirus Infectious Bronchitis Virus Are Essential for Replication J. Virol., January 1, 2006; 80(1): 296 - 305. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
R. J. Siezen, B. Renckens, I. van Swam, S. Peters, R. van Kranenburg, M. Kleerebezem, and W. M. de Vos Complete Sequences of Four Plasmids of Lactococcus lactis subsp. cremoris SK11 Reveal Extensive Adaptation to the Dairy Environment Appl. Envir. Microbiol., December 1, 2005; 71(12): 8371 - 8382. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
F. Rubio-Moscardo, D. Blesa, C. Mestre, R. Siebert, T. Balasas, A. Benito, A. Rosenwald, J. Climent, J. I. Martinez, M. Schilhabel, et al. Characterization of 8p21.3 chromosomal deletions in B-cell lymphoma: TRAIL-R1 and TRAIL-R2 as candidate dosage-dependent tumor suppressor genes Blood, November 1, 2005; 106(9): 3214 - 3222. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. F. Haydock, A. N. Appleyard, T. Mironenko, J. Lester, N. Scott, and P. F. Leadlay Organization of the biosynthetic gene cluster for the macrolide concanamycin A in Streptomyces neyagawaensis ATCC 27449 Microbiology, October 1, 2005; 151(10): 3161 - 3169. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. Romualdi, R. Siddiqui, G. Glockner, R. Lehmann, and J. Suhnel GenColors: accelerated comparative analysis and annotation of prokaryotic genomes at various stages of completeness Bioinformatics, September 15, 2005; 21(18): 3669 - 3671. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
R. Casais, M. Davies, D. Cavanagh, and P. Britton Gene 5 of the Avian Coronavirus Infectious Bronchitis Virus Is Not Essential for Replication J. Virol., July 1, 2005; 79(13): 8065 - 8078. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 A.-K. Wermter, K. Reichwald, T. Buch, F. Geller, C. Platzer, K. Huse, C. Hess, H. Remschmidt, T. Gudermann, G. Preibisch, et al. Mutation analysis of the MCHR1 gene in human obesity Eur. J. Endocrinol., June 1, 2005; 152(6): 851 - 862. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 N. Schauble, K. Reichwald, W. Grassl, H. Bechstein, H.-C. Muller, A. Scherag, F. Geller, M. Utting, W. Siegfried, H. Goldschmidt, et al. Human Galanin (GAL) and Galanin 1 Receptor (GALR1) Variations Are Not Involved in Fat Intake and Early Onset Obesity J. Nutr., June 1, 2005; 135(6): 1387 - 1392. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
E. Isidore, B. Scherrer, B. Chalhoub, C. Feuillet, and B. Keller Ancient haplotypes resulting from extensive molecular rearrangements in the wheat A genome have been maintained in species of three different ploidy levels Genome Res., April 1, 2005; 15(4): 526 - 536. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 B. Scherrer, E. Isidore, P. Klein, J.-s. Kim, A. Bellec, B. Chalhoub, B. Keller, and C. Feuillet Large Intraspecific Haplotype Variability at the Rph7 Locus Results from Rapid and Recent Divergence in the Barley Genome PLANT CELL, February 1, 2005; 17(2): 361 - 374. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
N. E. Collins, J. Liebenberg, E. P. de Villiers, K. A. Brayton, E. Louw, A. Pretorius, F. E. Faber, H. van Heerden, A. Josemans, M. van Kleef, et al. The genome of the heartwater agent Ehrlichia ruminantium contains multiple tandem repeats of actively variable copy number PNAS, January 18, 2005; 102(3): 838 - 843. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. Inui, Y. Tsuge, N. Suzuki, A. A. Vertes, and H. Yukawa Isolation and Characterization of a Native Composite Transposon, Tn14751, Carrying 17.4 Kilobases of Corynebacterium glutamicum Chromosomal DNA Appl. Envir. Microbiol., January 1, 2005; 71(1): 407 - 416. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. G. Sambrook, A. Bashirova, S. Palmer, S. Sims, J. Trowsdale, L. Abi-Rached, P. Parham, M. Carrington, and S. Beck Single haplotype analysis demonstrates rapid evolution of the killer immunoglobulin-like receptor (KIR) loci in primates Genome Res., January 1, 2005; 15(1): 25 - 35. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. J. Hubbard, D. V. Grafham, K. J. Beattie, I. M. Overton, S. R. McLaren, M. D.R. Croning, P. E. Boardman, J. K. Bonfield, J. Burnside, R. M. Davies, et al. Transcriptome analysis for the chicken based on 19,626 finished cDNA sequences and 485,337 expressed sequence tags Genome Res., January 1, 2005; 15(1): 174 - 183. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
G. Rhodes, J. Parkhill, C. Bird, K. Ambrose, M. C. Jones, G. Huys, J. Swings, and R. W. Pickup Complete Nucleotide Sequence of the Conjugative Tetracycline Resistance Plasmid pFBAOT6, a Member of a Group of IncU Plasmids with Global Ubiquity Appl. Envir. Microbiol., December 1, 2004; 70(12): 7497 - 7510. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 G. Glockner, R. Lehmann, A. Romualdi, S. Pradella, U. Schulte-Spechtel, M. Schilhabel, B. Wilske, J. Suhnel, and M. Platzer Comparative analysis of the Borrelia garinii genome Nucleic Acids Res., November 16, 2004; 32(20): 6038 - 6046. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. A. Sacco, K. Howes, L. P. Smith, and V. K. Nair Assessing the Roles of Endogenous Retrovirus EAV-HP in Avian Leukosis Virus Subgroup J Emergence and Tolerance J. Virol., October 1, 2004; 78(19): 10525 - 10535. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. A. Stewart, R. Horton, R. J.N. Allcock, J. L. Ashurst, A. M. Atrazhev, P. Coggill, I. Dunham, S. Forbes, K. Halls, J. M.M. Howson, et al. Complete MHC Haplotype Sequencing for Common Disease Gene Mapping Genome Res., June 1, 2004; 14(6): 1176 - 1187. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
B. Chevreux, T. Pfisterer, B. Drescher, A. J. Driesel, W. E.G. Muller, T. Wetter, and S. Suhai Using the miraEST Assembler for Reliable and Automated mRNA Transcript Assembly and SNP Detection in Sequenced ESTs Genome Res., June 1, 2004; 14(6): 1147 - 1159. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. M. Laidlaw and M. A. Skinner Comparison of the genome sequence of FP9, an attenuated, tissue culture-adapted European strain of Fowlpox virus, with those of virulent American and European viruses J. Gen. Virol., February 1, 2004; 85(2): 305 - 322. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 C. Amadou, R. M. Younger, S. Sims, L. H. Matthews, J. Rogers, A. Kumanovics, A. Ziegler, S. Beck, and K. Fischer Lindahl Co-duplication of olfactory receptor and MHC class I genes in the mouse major histocompatibility complex Hum. Mol. Genet., November 15, 2003; 12(22): 3025 - 3040. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
D. Pickard, J. Wain, S. Baker, A. Line, S. Chohan, M. Fookes, A. Barron, P. O Gaora, J. A. Chabalgoity, N. Thanky, et al. Composition, Acquisition, and Distribution of the Vi Exopolysaccharide-Encoding Salmonella enterica Pathogenicity Island SPI-7 J. Bacteriol., September 1, 2003; 185(17): 5055 - 5065. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. T. Bankier, H. F. Spriggs, B. Fartmann, B. A. Konfortov, M. Madera, C. Vogel, S. A. Teichmann, A. Ivens, and P. H. Dear Integrated Mapping, Chromosomal Sequencing and Sequence Analysis of Cryptosporidium parvum Genome Res., August 1, 2003; 13(8): 1787 - 1799. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
E. Padua, A. Jenkins, S. Brown, J. Bootman, M. T. Paixao, N. Almond, and N. Berry Natural variation of the nef gene in human immunodeficiency virus type 2 infections in Portugal J. Gen. Virol., May 1, 2003; 84(5): 1287 - 1299. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
P. Unneberg, A. Wennborg, and M. Larsson Transcript identification by analysis of short sequence tags--influence of tag length, restriction site and transcript database Nucleic Acids Res., April 15, 2003; 31(8): 2217 - 2226. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
G. L. Igloi and R. Brandsch Sequence of the 165-Kilobase Catabolic Plasmid pAO1 from Arthrobacter nicotinovorans and Identification of a pAO1-Dependent Nicotine Uptake System J. Bacteriol., March 15, 2003; 185(6): 1976 - 1986. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 J. Pan, B. Hinzmann, W. Yan, F. Wu, J. Morser, and Q. Wu Genomic Structures of the Human and Murine Corin Genes and Functional GATA Elements in Their Promoters J. Biol. Chem., October 4, 2002; 277(41): 38390 - 38398. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 S. Lenzner, S. Prietz, S. Feil, U. A. Nuber, H.-H. Ropers, and W. Berger Global Gene Expression Analysis in a Mouse Model for Norrie Disease: Late Involvement of Photoreceptor Cells Invest. Ophthalmol. Vis. Sci., September 1, 2002; 43(9): 2825 - 2833. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
K. Simin, A. Scuderi, J. Reamey, D. Dunn, R. Weiss, J. E. Metherall, and A. Letsou Profiling Patterned Transcripts in Drosophila Embryos Genome Res., July 1, 2002; 12(7): 1040 - 1047. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
N. N. Zheng, C. Vella, P. J. Easterbrook, and R. S. Daniels Selection following isolation of human immunodeficiency virus type 1 in peripheral blood mononuclear cells and herpesvirus saimiri-transformed T cells is comparable J. Gen. Virol., June 1, 2002; 83(6): 1343 - 1352. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. Rada, J. M. Jarvis, and C. Milstein AID-GFP chimeric protein increases hypermutation of Ig genes with no evidence of nuclear localization PNAS, May 14, 2002; 99(10): 7003 - 7008. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
N. Gaitatzis, B. Silakowski, B. Kunze, G. Nordsiek, H. Blocker, G. Hofle, and R. Muller The Biosynthesis of the Aromatic Myxobacterial Electron Transport Inhibitor Stigmatellin Is Directed by a Novel Type of Modular Polyketide Synthase J. Biol. Chem., April 5, 2002; 277(15): 13082 - 13090. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. Gubser and G. L. Smith The sequence of camelpox virus shows it is most closely related to variola virus, the cause of smallpox J. Gen. Virol., April 1, 2002; 83(4): 855 - 872. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
D. Bodmer, M. Eleveld, E. Kater-Baats, I. Janssen, B. Janssen, M. Weterman, E. Schoenmakers, M. Nickerson, M. Linehan, B. Zbar, et al. Disruption of a novel MFS transporter gene, DIRC2, by a familial renal cell carcinoma-associated t(2;3)(q35;q21) Hum. Mol. Genet., March 1, 2002; 11(6): 641 - 649. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. Yoshihama, T. Uechi, S. Asakawa, K. Kawasaki, S. Kato, S. Higa, N. Maeda, S. Minoshima, T. Tanaka, N. Shimizu, et al. The Human Ribosomal Protein Genes: Sequencing and Comparative Analysis of 73 Genes Genome Res., March 1, 2002; 12(3): 379 - 390. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 C. Penttinen, J. Saharinen, K. Weikkolainen, M. Hyytiainen, and J. Keski-Oja Secretion of human latent TGF-{beta}-binding protein-3 (LTBP-3) is dependent on co-expression of TGF-{beta} J. Cell Sci., January 9, 2002; 115(17): 3457 - 3468. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
R. Casais, V. Thiel, S. G. Siddell, D. Cavanagh, and P. Britton Reverse Genetics System for the Avian Coronavirus Infectious Bronchitis Virus J. Virol., December 15, 2001; 75(24): 12359 - 12369. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. R. Ehrenstein, C. Rada, A.-M. Jones, C. Milstein, and M. S. Neuberger Switch junction sequences in PMS2-deficient mice reveal a microhomology-mediated mechanism of Ig class switch recombination PNAS, November 15, 2001; (2001) 241525998. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. V. Tullius, G. Harth, and M. A. Horwitz High Extracellular Levels of Mycobacterium tuberculosis Glutamine Synthetase and Superoxide Dismutase in Actively Growing Cultures Are Due to High Expression and Extracellular Stability Rather than to a Protein-Specific Export Mechanism Infect. Immun., October 1, 2001; 69(10): 6348 - 6363. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
D. Baitsch, C. Sandu, R. Brandsch, and G. L. Igloi Gene Cluster on pAO1 of Arthrobacter nicotinovorans Involved in Degradation of the Plant Alkaloid Nicotine: Cloning, Purification, and Characterization of 2,6-Dihydroxypyridine 3-Hydroxylase J. Bacteriol., September 15, 2001; 183(18): 5262 - 5267. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
P. J. Fernandes, J. A. C. Powell, and J. A. C. Archer Construction of Rhodococcus random mutagenesis libraries using Tn5 transposition complexes Microbiology, September 1, 2001; 147(9): 2529 - 2536. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
P. A. Pevzner, H. Tang, and M. S. Waterman An Eulerian path approach to DNA fragment assembly PNAS, August 14, 2001; 98(17): 9748 - 9753. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
P. V. Benos, M. K. Gatt, L. Murphy, D. Harris, B. Barrell, C. Ferraz, S. Vidal, C. Brun, J. Demaille, E. Cadieu, et al. From First Base: The Sequence of the Tip of the X Chromosome of Drosophila melanogaster, a Comparison of Two Sequencing Strategies Genome Res., May 1, 2001; 11(5): 710 - 730. [Abstract] [Full Text]
|
|
|
|
|
|
N. C. Collins, T. Lahaye, C. Peterhänsel, A. Freialdenhoven, M. Corbitt, and P. Schulze-Lefert Sequence Haplotypes Revealed by Sequence-Tagged Site Fine Mapping of the Ror1 Gene in the Centromeric Region of Barley Chromosome 1H Plant Physiology, March 1, 2001; 125(3): 1236 - 1247. [Abstract] [Full Text]
|
|
|
|
|
|
M. A. Sacco, K. Howes, and K. Venugopal Intact EAV-HP Endogenous Retrovirus in Sonnerat's Jungle Fowl J. Virol., February 15, 2001; 75(4): 2029 - 2032. [Abstract] [Full Text]
|
|
|
|
|
|
R. J. Daniels, J. F. Peden, C. Lloyd, S. W. Horsley, K. Clark, C. Tufarelli, L. Kearney, V. J. Buckle, N. A. Doggett, J. Flint, et al. Sequence, structure and pathology of the fully annotated terminal 2 Mb of the short arm of human chromosome 16 Hum. Mol. Genet., February 1, 2001; 10(4): 339 - 352. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
B. Janssens, S. Goossens, K. Staes, B. Gilbert, J. van Hengel, C. Colpaert, E. Bruyneel, M. Mareel, and F. van Roy {alpha}T-Catenin: a novel tissue-specific {beta}-catenin-binding protein mediating strong cell-cell adhesion J. Cell Sci., January 9, 2001; 114(17): 3177 - 3188. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. Evans, D. Cavanagh, and P. Britton Utilizing fowlpox virus recombinants to generate defective RNAs of the coronavirus infectious bronchitis virus J. Gen. Virol., December 1, 2000; 81(12): 2855 - 2865. [Abstract] [Full Text]
|
|
|
|
 |
|
 D. D. Pollock, J. A. Eisen, N. A. Doggett, and M. P. Cummings A Case for Evolutionary Genomics and the Comprehensive Examination of Sequence Biodiversity Mol. Biol. Evol., December 1, 2000; 17(12): 1776 - 1788. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. A. Whistler, V. O. Stockwell, and J. E. Loper Lon Protease Influences Antibiotic Production and UV Tolerance of Pseudomonas fluorescens Pf-5 Appl. Envir. Microbiol., July 1, 2000; 66(7): 2718 - 2725. [Abstract] [Full Text]
|
|
|
|
|
|
A.-M. Mallon, M. Platzer, R. Bate, G. Gloeckner, M.R.M. Botcherby, G. Nordsiek, M.A. Strivens, P. Kioschis, A. Dangel, D. Cunningham, et al. Comparative Genome Sequence Analysis of the Bpa/Str Region in Mouse and Man Genome Res., June 1, 2000; 10(6): 758 - 775. [Abstract] [Full Text]
|
|
|
|
|
|
A. M. Nedelcu, R. W. Lee, C. Lemieux, M. W. Gray, and G. Burger The Complete Mitochondrial DNA Sequence of Scenedesmus obliquus Reflects an Intermediate Stage in the Evolution of the Green Algal Mitochondrial Genome Genome Res., June 1, 2000; 10(6): 819 - 831. [Abstract] [Full Text]
|
|
|
|
|
|
P. A. Lyons, N. Armitage, F. Argentina, P. Denny, N. J. Hill, C. J. Lord, M. B. Wilusz, L. B. Peterson, L. S. Wicker, and J. A. Todd Congenic Mapping of the Type 1 Diabetes Locus, Idd3, to a 780-kb Region of Mouse Chromosome 3: Identification of a Candidate Segment of Ancestral DNA by Haplotype Mapping Genome Res., April 1, 2000; 10(4): 446 - 453. [Abstract] [Full Text]
|
|
|
|
|
|
B. Silakowski, H. U. Schairer, H. Ehret, B. Kunze, S. Weinig, G. Nordsiek, P. Brandt, H. Blocker, G. Hofle, S. Beyer, et al. New Lessons for Combinatorial Biosynthesis from Myxobacteria. THE MYXOTHIAZOL BIOSYNTHETIC GENE CLUSTER OF Stigmatella aurantiaca DW4/3-1 J. Biol. Chem., December 24, 1999; 274(52): 37391 - 37399. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
L. Frangeul, K. E. Nelson, C. Buchrieser, A. Danchin, P. Glaser, and F. Kunst Cloning and assembly strategies in microbial genome projects Microbiology, October 1, 1999; 145(10): 2625 - 2634. [Full Text] [PDF]
|
|
|
|
|
|
A Alcami, A Khanna, N. Paul, and G. Smith Vaccinia virus strains Lister, USSR and Evans express soluble and cell- surface tumour necrosis factor receptors J. Gen. Virol., April 1, 1999; 80(4): 949 - 959. [Abstract]
|
|
|
|
|
|
S. Haapa, S. Suomalainen, S. Eerikäinen, M. Airaksinen, L. Paulin, and H. Savilahti An Efficient DNA Sequencing Strategy Based on the Bacteriophage Mu in Vitro DNA Transposition Reaction Genome Res., March 1, 1999; 9(3): 308 - 315. [Abstract] [Full Text]
|
|
|
|
|
|
S Bonne, J van Hengel, F Nollet, P Kools, and F van Roy Plakophilin-3, a novel armadillo-like protein present in nuclei and desmosomes of epithelial cells J. Cell Sci., January 7, 1999; 112(14): 2265 - 2276. [Abstract] [PDF]
|
|
|
|
 |
|
 The C. elegans Sequencing Consortium Genome Sequence of the Nematode C. elegans: A Platform for Investigating Biology Science, December 11, 1998; 282(5396): 2012 - 2018. [Abstract] [Full Text]
|
|
|
|
|
|
T. S. Centre and T. W. U. G. S. Center Toward a Complete Human Genome Sequence Genome Res., November 1, 1998; 8(11): 1097 - 1108. [Abstract] [Full Text]
|
|
|
|
|
|
F. Sterky, S. Regan, J. Karlsson, M. Hertzberg, A. Rohde, A. Holmberg, B. Amini, R. Bhalerao, M. Larsson, R. Villarroel, et al. Gene discovery in the wood-forming tissues of poplar: Analysis of 5,692 expressed sequence tags PNAS, October 27, 1998; 95(22): 13330 - 13335. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. C. Wendl, S. Dear, D. Hodgson, and L. Hillier Automated Sequence Preprocessing in a Large-Scale Sequencing Environment Genome Res., September 1, 1998; 8(9): 975 - 984. [Abstract] [Full Text]
|
|
|
|
|
|
P. Taillon-Miller, Z. Gu, Q. Li, L. Hillier, and P.-Y. Kwok Overlapping Genomic Sequences: A Treasure Trove of Single-Nucleotide Polymorphisms Genome Res., July 1, 1998; 8(7): 748 - 754. [Abstract] [Full Text]
|
|
|
|
|
|
D. Gordon, C. Abajian, and P. Green Consed: A Graphical Tool for Sequence Finishing Genome Res., March 1, 1998; 8(3): 195 - 202. [Abstract] [Full Text]
|
|
|
|
|
|
S. Dear, R. Durbin, L. Hillier, G. Marth, J. Thierry-Mieg, and R. Mott Sequence Assembly with CAFTOOLS Genome Res., March 1, 1998; 8(3): 260 - 267. [Abstract] [Full Text]
|
|
|
|
|
|
F. Francis, T. M. Strom, S. Hennig, A. Boddrich, B. Lorenz, O. Brandau, K. L. Mohnike, M. Cagnoli, C. Steffens, S. Klages, et al. Genomic Organization of the Human PEX Gene Mutated in X-Linked Dominant Hypophosphatemic Rickets Genome Res., June 1, 1997; 7(6): 573 - 585. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
D Tremousaygue, C Bardet, P Dabos, F Regad, F Pelese, R Nazer, E Gander, and B Lescure Genome DNA sequencing around the EF-1 alpha multigene locus of Arabidopsis thaliana indicates a high gene density and a shuffling of noncoding regions. Genome Res., March 1, 1997; 7(3): 198 - 209. [Abstract] [PDF]
|
|
|
|
|
|
K Kawasaki, S Minoshima, E Nakato, K Shibuya, A Shintani, J L Schmeits, J Wang, and N Shimizu One-megabase sequence analysis of the human immunoglobulin lambda gene locus. Genome Res., March 1, 1997; 7(3): 250 - 261. [Abstract] [PDF]
|
|
|
|
|
|
M. R. Ehrenstein, C. Rada, A.-M. Jones, C. Milstein, and M. S. Neuberger Switch junction sequences in PMS2-deficient mice reveal a microhomology-mediated mechanism of Ig class switch recombination PNAS, December 4, 2001; 98(25): 14553 - 14558. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
W. J. Kent and D. Haussler Assembly of the Working Draft of the Human Genome with GigAssembler Genome Res., September 1, 2001; 11(9): 1541 - 1548. [Abstract] [Full Text] [PDF]
|
|