Volume 35; Issue 1

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Nucleic Acids Research
Volume 35; Issue 1

Nucleic Acids Research

Volume 35; Issue 1

1

Recharacterization of ancient DNA miscoding lesions: insights in the era of sequencing-by-synthesis

Gilbert, M. T. P., Binladen, J., Miller, W., Wiuf, C., Willerslev, E., Poinar, H., Carlson, J. E., Leebens-Mack, J. H., Schuster, S. C.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 219 KB

english, 2006

2

Structural basis for activation of the therapeutic L-nucleoside analogs 3TC and troxacitabine by human deoxycytidine kinase

Sabini, E., Hazra, S., Konrad, M., Burley, S. K., Lavie, A.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 3.97 MB

english, 2006

3

Different levels of alternative splicing among eukaryotes

Kim, E., Magen, A., Ast, G.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 1.40 MB

english, 2006

4

Toxin-antitoxin regulation: bimodal interaction of YefM-YoeB with paired DNA palindromes exerts transcriptional autorepression

Kedzierska, B., Lian, L.-Y., Hayes, F.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 2.23 MB

english, 2006

5

p53 and p73 display common and distinct requirements for sequence specific binding to DNA

Lokshin, M., Li, Y., Gaiddon, C., Prives, C.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 4.35 MB

english, 2006

6

LEDGF/p75 interacts with divergent lentiviral integrases and modulates their enzymatic activity in vitro

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 2.46 MB

english, 2006

7

The chemical stability of abasic RNA compared to abasic DNA

Kupfer, P. A., Leumann, C. J.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 1.04 MB

english, 2006

8

An efficient method for multi-locus molecular haplotyping

Konfortov, B. A., Bankier, A. T., Dear, P. H.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 218 KB

english, 2006

9

Exploring membrane-associated NAC transcription factors in Arabidopsis: implications for membrane biology in genome regulation

Kim, S.-Y., Kim, S.-G., Kim, Y.-S., Seo, P. J., Bae, M., Yoon, H.-K., Park, C.-M.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 8.49 MB

english, 2006

10

Control of carry-over contamination for PCR-based DNA methylation quantification using bisulfite treated DNA

Tetzner, R., Dietrich, D., Distler, J.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 432 KB

english, 2006

11

Switching base preferences of mismatch cleavage in endonuclease V: an improved method for scanning point mutations

Gao, H., Huang, J., Barany, F., Cao, W.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 2.17 MB

english, 2006

12

Transcription factor distribution in Escherichia coli: studies with FNR protein

Grainger, D. C., Aiba, H., Hurd, D., Browning, D. F., Busby, S. J. W.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 2.11 MB

english, 2006

13

Expanding the repertoire of DNA polymerase substrates: template-instructed incorporation of non-nucleoside triphosphate analogues by DNA polymerases and

Crespan, E., Alexandrova, L., Khandazhinskaya, A., Jasko, M., Kukhanova, M., Villani, G., Hubscher, U., Spadari, S., Maga, G.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 1.30 MB

english, 2006

14

Purine analog substitution of the HIV-1 polypurine tract primer defines regions controlling initiation of plus-strand DNA synthesis

Rausch, J. W., Le Grice, S. F. J.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 4.69 MB

english, 2006

15

Nonlinear differential equation model for quantification of transcriptional regulation applied to microarray data of Saccharomyces cerevisiae

Vu, T. T., Vohradsky, J.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 263 KB

english, 2006

16

Structure of a nucleotide-bound Clp1-Pcf11 polyadenylation factor

Noble, C. G., Beuth, B., Taylor, I. A.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 7.47 MB

english, 2006

17

Duplex strand joining reactions catalyzed by vaccinia virus DNA polymerase

Hamilton, M. D., Nuara, A. A., Gammon, D. B., Buller, R. M., Evans, D. H.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 2.65 MB

english, 2006

18

Operon prediction using both genome-specific and general genomic information

Dam, P., Olman, V., Harris, K., Su, Z., Xu, Y.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 273 KB

english, 2006

19

Fragile X related protein 1 isoforms differentially modulate the affinity of fragile X mental retardation protein for G-quartet RNA structure

Bechara, E., Davidovic, L., Melko, M., Bensaid, M., Tremblay, S., Grosgeorge, J., Khandjian, E. W., Lalli, E., Bardoni, B.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 2.73 MB

english, 2006

20

Use of modified U1 snRNAs to inhibit HIV-1 replication

Sajic, R., Lee, K., Asai, K., Sakac, D., Branch, D. R., Upton, C., Cochrane, A.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 1.42 MB

english, 2006

21

An evaluation of contemporary hidden Markov model genefinders with a predicted exon taxonomy

Knapp, K., Chen, Y.-P. P.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 500 KB

english, 2006

22

Chimeric DNA methyltransferases target DNA methylation to specific DNA sequences and repress expression of target genes

Li, F., Papworth, M., Minczuk, M., Rohde, C., Zhang, Y., Ragozin, S., Jeltsch, A.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 1.73 MB

english, 2006

23

Genome-wide analysis of transcriptional dependence and probable target sites for Abf1 and Rap1 in Saccharomyces cerevisiae

Yarragudi, A., Parfrey, L. W., Morse, R. H.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 2.11 MB

english, 2006

24

Dispersion of the RmInt1 group II intron in the Sinorhizobium meliloti genome upon acquisition by conjugative transfer

Nisa-Martinez, R., Jimenez-Zurdo, J. I., Martinez-Abarca, F., Munoz-Adelantado, E., Toro, N.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 1.53 MB

english, 2006

25

The p16INK4a tumor suppressor controls p21WAF1 induction in response to ultraviolet light

Al-Mohanna, M. A., Al-Khalaf, H. H., Al-Yousef, N., Aboussekhra, A.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 2.85 MB

english, 2006

26

CoMoDis: composite motif discovery in mammalian genomes

Donaldson, I. J., Gottgens, B.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 142 KB

english, 2006

27

An improved method to identify BAC clones using pooled overgos

Madishetty, K., Condamine, P., Svensson, J. T., Rodriguez, E., Close, T. J.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 147 KB

english, 2006

28

Multiple primer extension by DNA polymerase on a novel plastic DNA array coated with a biocompatible polymer

Kinoshita, K., Fujimoto, K., Yakabe, T., Saito, S., Hamaguchi, Y., Kikuchi, T., Nonaka, K., Murata, S., Masuda, D., Takada, W., Funaoka, S., Arai, S., Nakanishi, H., Yokoyama, K., Fujiwara, K., Matsub

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 1.39 MB

english, 2006

29

Complex splicing control of the human Thrombopoietin gene by intronic G runs

Marcucci, R., Baralle, F. E., Romano, M.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 1.83 MB

english, 2006

30

Operon prediction in Pyrococcus furiosus

Tran, T. T., Dam, P., Su, Z., Poole, F. L., Adams, M. W. W., Zhou, G. T., Xu, Y.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 1.06 MB

english, 2006

31

Epitope mapping using combinatorial phage-display libraries: a graph-based algorithm

Mayrose, I., Shlomi, T., Rubinstein, N. D., Gershoni, J. M., Ruppin, E., Sharan, R., Pupko, T.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 999 KB

english, 2006

32

RecA can stimulate the relaxation activity of topoisomerase I: Molecular basis of topoisomerase-mediated genome-wide transcriptional responses in Escherichia coli

Reckinger, A. R., Jeong, K. S., Khodursky, A. B., Hiasa, H.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 2.24 MB

english, 2006

33

Insect small nuclear RNA gene promoters evolve rapidly yet retain conserved features involved in determining promoter activity and RNA polymerase specificity

Hernandez, G., Valafar, F., Stumph, W. E.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 8.17 MB

english, 2006

34

Identification of functional, endogenous programmed -1 ribosomal frameshift signals in the genome of Saccharomyces cerevisiae

Jacobs, J. L., Belew, A. T., Rakauskaite, R., Dinman, J. D.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 982 KB

english, 2006

35

Systematic variation in mRNA 3'-processing signals during mouse spermatogenesis

Liu, D., Brockman, J. M., Dass, B., Hutchins, L. N., Singh, P., McCarrey, J. R., MacDonald, C. C., Graber, J. H.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 3.44 MB

english, 2006

36

Global analysis of microRNA target gene expression reveals that miRNA targets are lower expressed in mature mouse and Drosophila tissues than in the embryos

Yu, Z., Jian, Z., Shen, S.-H., Purisima, E., Wang, E.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 1.40 MB

english, 2006

37

Functional interaction between the homeoprotein CDX1 and the transcriptional machinery containing the TATA-binding protein

Calon, A., Gross, I., Davidson, I., Kedinger, M., Duluc, I., Domon-Dell, C., Freund, J.-N.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 2.06 MB

english, 2006

38

A critical role for the loop region of the basic helix-loop-helix/leucine zipper protein Mlx in DNA binding and glucose-regulated transcription

Ma, L., Sham, Y. Y., Walters, K. J., Towle, H. C.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 3.42 MB

english, 2006

39

Unanticipated differences between - and -diaminobutyric acid-linked hairpin polyamide-alkylator conjugates

Tsai, S. M., Farkas, M. E., Chou, C. J., Gottesfeld, J. M., Dervan, P. B.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 2.16 MB

english, 2006

40

Gene loss rate: a probabilistic measure for the conservation of eukaryotic genes

Borenstein, E., Shlomi, T., Ruppin, E., Sharan, R.

Journal:

Nucleic Acids Research

Year:

2006

Language:

english

File:

PDF, 350 KB

english, 2006