Volume 39; Issue 10

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Nucleic Acids Research
Volume 39; Issue 10

Nucleic Acids Research

Volume 39; Issue 10

1

Zn2+ selectively stabilizes FdU-substituted DNA through a unique major groove binding motif

Ghosh, S., Salsbury, F. R., Horita, D. A., Gmeiner, W. H.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 7.00 MB

english, 2011

2

Homolog-specific PCR primer design for profiling splice variants

Srivastava, G. P., Hanumappa, M., Kushwaha, G., Nguyen, H. T., Xu, D.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 11.92 MB

english, 2011

3

WDHD1 modulates the post-transcriptional step of the centromeric silencing pathway

Hsieh, C.-L., Lin, C.-L., Liu, H., Chang, Y.-J., Shih, C.-J., Zhong, C. Z., Lee, S.-C., Tan, B. C.-M.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 7.79 MB

english, 2011

4

TEFM (c17orf42) is necessary for transcription of human mtDNA

Minczuk, M., He, J., Duch, A. M., Ettema, T. J., Chlebowski, A., Dzionek, K., Nijtmans, L. G. J., Huynen, M. A., Holt, I. J.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 6.74 MB

english, 2011

5

NSrp70 is a novel nuclear speckle-related protein that modulates alternative pre-mRNA splicing in vivo

Kim, Y.-D., Lee, J.-Y., Oh, K.-M., Araki, M., Araki, K., Yamamura, K.-i., Jun, C.-D.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 10.87 MB

english, 2011

6

Explaining the varied glycosidic conformational, G-tract length and sequence preferences for anti-parallel G-quadruplexes

Cang, X., Sponer, J., Cheatham, T. E.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 6.95 MB

english, 2011

7

Identification of evolutionarily conserved non-AUG-initiated N-terminal extensions in human coding sequences

Ivanov, I. P., Firth, A. E., Michel, A. M., Atkins, J. F., Baranov, P. V.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 1.39 MB

english, 2011

8

Detecting common copy number variants in high-throughput sequencing data by using JointSLM algorithm

Magi, A., Benelli, M., Yoon, S., Roviello, F., Torricelli, F.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 551 KB

english, 2011

9

SyMAP v3.4: a turnkey synteny system with application to plant genomes

Soderlund, C., Bomhoff, M., Nelson, W. M.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 11.09 MB

english, 2011

10

The histone H3K36 demethylase Rph1/KDM4 regulates the expression of the photoreactivation gene PHR1

Liang, C.-Y., Hsu, P.-H., Chou, D.-F., Pan, C.-Y., Wang, L.-C., Huang, W.-C., Tsai, M.-D., Lo, W.-S.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 1.33 MB

english, 2011

11

Functional specialization of Piwi proteins in Paramecium tetraurelia from post-transcriptional gene silencing to genome remodelling

Bouhouche, K., Gout, J.-F., Kapusta, A., Betermier, M., Meyer, E.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 17.40 MB

english, 2011

12

The MobM relaxase domain of plasmid pMV158: thermal stability and activity upon Mn2+ and specific DNA binding

Lorenzo-Diaz, F., Dostal, L., Coll, M., Schildbach, J. F., Menendez, M., Espinosa, M.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 1.22 MB

english, 2011

13

Subscriptions

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 49 KB

english, 2011

14

ModeRNA: a tool for comparative modeling of RNA 3D structure

Rother, M., Rother, K., Puton, T., Bujnicki, J. M.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 11.52 MB

english, 2011

15

Nucleic Acids Research

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 58 KB

english, 2011

16

Structure of p300 bound to MEF2 on DNA reveals a mechanism of enhanceosome assembly

He, J., Ye, J., Cai, Y., Riquelme, C., Liu, J. O., Liu, X., Han, A., Chen, L.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 7.56 MB

english, 2011

17

Controlled interplay between trigger loop and Gre factor in the RNA polymerase active centre

Roghanian, M., Yuzenkova, Y., Zenkin, N.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 5.12 MB

english, 2011

18

Real-time detection of cruciform extrusion by single-molecule DNA nanomanipulation

Ramreddy, T., Sachidanandam, R., Strick, T. R.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 10.74 MB

english, 2011

19

Structural and biochemical studies of human lysine methyltransferase Smyd3 reveal the important functional roles of its post-SET and TPR domains and the regulation of its activity by DNA binding

Xu, S., Wu, J., Sun, B., Zhong, C., Ding, J.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 9.83 MB

english, 2011

20

Not1 mediates recruitment of the deadenylase Caf1 to mRNAs targeted for degradation by tristetraprolin

Sandler, H., Kreth, J., Timmers, H. T. M., Stoecklin, G.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 7.08 MB

english, 2011

21

PDGF induced microRNA alterations in cancer cells

Shao, M., Rossi, S., Chelladurai, B., Shimizu, M., Ntukogu, O., Ivan, M., Calin, G. A., Matei, D.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 7.08 MB

english, 2011

22

The RNA annealing mechanism of the HIV-1 Tat peptide: conversion of the RNA into an annealing-competent conformation

Doetsch, M., Furtig, B., Gstrein, T., Stampfl, S., Schroeder, R.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 5.58 MB

english, 2011

23

TreeKO: a duplication-aware algorithm for the comparison of phylogenetic trees

Marcet-Houben, M., Gabaldon, T.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 3.46 MB

english, 2011

24

Crystal structure of a DNA containing the planar, phenoxazine-derived bi-functional spectroscopic probe C

Edwards, T. E., Cekan, P., Reginsson, G. W., Shelke, S. A., Ferre-D'Amare, A. R., Schiemann, O., Sigurdsson, S. T.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 5.44 MB

english, 2011

25

Prevention of cross-talk in conserved regulatory systems: identification of specificity determinants in RNA-binding anti-termination proteins of the BglG family

Hubner, S., Declerck, N., Diethmaier, C., Le Coq, D., Aymerich, S., Stulke, J.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 2.31 MB

english, 2011

26

The intracellular sRNA transcriptome of Listeria monocytogenes during growth in macrophages

Mraheil, M. A., Billion, A., Mohamed, W., Mukherjee, K., Kuenne, C., Pischimarov, J., Krawitz, C., Retey, J., Hartsch, T., Chakraborty, T., Hain, T.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 982 KB

english, 2011

27

Hmo1 directs pre-initiation complex assembly to an appropriate site on its target gene promoters by masking a nucleosome-free region

Kasahara, K., Ohyama, Y., Kokubo, T.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 8.92 MB

english, 2011

28

Two forms of ribosomal protein L2 of Escherichia coli that inhibit DnaA in DNA replication

Chodavarapu, S., Felczak, M. M., Kaguni, J. M.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 1.42 MB

english, 2011

29

Genome-wide quantitative assessment of variation in DNA methylation patterns

Xie, H., Wang, M., de Andrade, A., Bonaldo, M. d. F., Galat, V., Arndt, K., Rajaram, V., Goldman, S., Tomita, T., Soares, M. B.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 1.41 MB

english, 2011

30

Evolution of linear chromosomes and multipartite genomes in yeast mitochondria

Valach, M., Farkas, Z., Fricova, D., Kovac, J., Brejova, B., Vinar, T., Pfeiffer, I., Kucsera, J., Tomaska, L., Lang, B. F., Nosek, J.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 15.00 MB

english, 2011

31

Nucleic Acids Research: VOLUME 39 ISSUE 10 2011

Journal:

Nucleic Acids Research

Year:

2011

File:

PDF, 396 KB

2011

32

Induced topological changes in DNA complexes: influence of DNA sequences and small molecule structures

Hunt, R. A., Munde, M., Kumar, A., Ismail, M. A., Farahat, A. A., Arafa, R. K., Say, M., Batista-Parra, A., Tevis, D., Boykin, D. W., Wilson, W. D.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 8.05 MB

english, 2011

33

Use of RecA fusion proteins to induce genomic modifications in zebrafish

Liao, H.-K., Essner, J. J.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 7.03 MB

english, 2011

34

Escherichia coli YafP protein modulates DNA damaging property of the nitroaromatic compounds

Gutierrez, A., Elez, M., Clermont, O., Denamur, E., Matic, I.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 2.98 MB

english, 2011

35

Cyclodipeptide synthases, a family of class-I aminoacyl-tRNA synthetase-like enzymes involved in non-ribosomal peptide synthesis

Sauguet, L., Moutiez, M., Li, Y., Belin, P., Seguin, J., Le Du, M.-H., Thai, R., Masson, C., Fonvielle, M., Pernodet, J.-L., Charbonnier, J.-B., Gondry, M.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 8.73 MB

english, 2011

36

Effects of HMGN variants on the cellular transcription profile

Rochman, M., Taher, L., Kurahashi, T., Cherukuri, S., Uversky, V. N., Landsman, D., Ovcharenko, I., Bustin, M.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 7.26 MB

english, 2011

37

AG-dependent 3'-splice sites are predisposed to aberrant splicing due to a mutation at the first nucleotide of an exon

Fu, Y., Masuda, A., Ito, M., Shinmi, J., Ohno, K.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 2.16 MB

english, 2011

38

Yeast H2A.Z, FACT complex and RSC regulate transcription of tRNA gene through differential dynamics of flanking nucleosomes

Mahapatra, S., Dewari, P. S., Bhardwaj, A., Bhargava, P.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 5.60 MB

english, 2011

39

Combinatorial chromatin modification patterns in the human genome revealed by subspace clustering

Ucar, D., Hu, Q., Tan, K.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 1.01 MB

english, 2011

40

A novel mechanism for target gene-specific SWI/SNF recruitment via the Snf2p N-terminus

Weider, M., Schroder, A., Klebl, F., Sauer, N.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 3.99 MB

english, 2011

41

NMR structure of the A730 loop of the Neurospora VS ribozyme: insights into the formation of the active site

Desjardins, G., Bonneau, E., Girard, N., Boisbouvier, J., Legault, P.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 4.67 MB

english, 2011

42

Characterization of photophysical and base-mimicking properties of a novel fluorescent adenine analogue in DNA

Dierckx, A., Diner, P., El-Sagheer, A. H., Kumar, J. D., Brown, T., Grotli, M., Wilhelmsson, L. M.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 1.58 MB

english, 2011

43

Comprehensive computational design of mCreI homing endonuclease cleavage specificity for genome engineering

Ulge, U. Y., Baker, D. A., Monnat, R. J.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 4.53 MB

english, 2011

44

Adenovirus vector-mediated assay system for hepatitis C virus replication

Yoshida, T., Kondoh, M., Ojima, M., Mizuguchi, H., Yamagishi, Y., Sakamoto, N., Yagi, K.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 2.03 MB

english, 2011

45

Differential RNA-binding activity of the hnRNP G protein correlated with the sex genotype in the amphibian oocyte

Kanhoush, R., Praseuth, D., Perrin, C., Chardard, D., Vinh, J., Penrad-Mobayed, M.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 9.94 MB

english, 2011

46

Multiplex cDNA quantification method that facilitates the standardization of gene expression data

Gotoh, O., Murakami, Y., Suyama, A.

Journal:

Nucleic Acids Research

Year:

2011

Language:

english

File:

PDF, 694 KB

english, 2011