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Volume 41; Issue 3

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Nucleic Acids Research
Volume 41; Issue 3

Nucleic Acids Research

Volume 41; Issue 3

1

USP7S-dependent inactivation of Mule regulates DNA damage signalling and repair

Khoronenkova, S. V., Dianov, G. L.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 1.74 MB

english, 2013

2

Solution conformations of early intermediates in Mos1 transposition

Cuypers, M. G., Trubitsyna, M., Callow, P., Forsyth, V. T., Richardson, J. M.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 7.02 MB

english, 2013

3

Novel function of the unique N-terminal region of RUNX1c in B cell growth regulation

Brady, G., Elgueta Karstegl, C., Farrell, P. J.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 3.05 MB

english, 2013

4

Effect of capsid confinement on the chromatin organization of the SV40 minichromosome

Saper, G., Kler, S., Asor, R., Oppenheim, A., Raviv, U., Harries, D.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 4.30 MB

english, 2013

5

A novel mechanism of eukaryotic translation initiation that is neither m7G-cap-, nor IRES-dependent

Terenin, I. M., Andreev, D. E., Dmitriev, S. E., Shatsky, I. N.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 1.48 MB

english, 2013

6

Transcription blockage by homopurine DNA sequences: role of sequence composition and single-strand breaks

Belotserkovskii, B. P., Neil, A. J., Saleh, S. S., Shin, J. H. S., Mirkin, S. M., Hanawalt, P. C.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 4.18 MB

english, 2013

7

AT-rich sequence elements promote nascent transcript cleavage leading to RNA polymerase II termination

White, E., Kamieniarz-Gdula, K., Dye, M. J., Proudfoot, N. J.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 2.37 MB

english, 2013

8

The comprehensive epigenome map of piRNA clusters

Kawaoka, S., Hara, K., Shoji, K., Kobayashi, M., Shimada, T., Sugano, S., Tomari, Y., Suzuki, Y., Katsuma, S.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 2.08 MB

english, 2013

9

HIV-1 frameshift efficiency is primarily determined by the stability of base pairs positioned at the mRNA entrance channel of the ribosome

Mouzakis, K. D., Lang, A. L., Vander Meulen, K. A., Easterday, P. D., Butcher, S. E.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 4.81 MB

english, 2013

10

Volatility in mRNA secondary structure as a design principle for antisense

Johnson, E., Srivastava, R.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 3.03 MB

english, 2013

11

Competing roles of DNA end resection and non-homologous end joining functions in the repair of replication-born double-strand breaks by sister-chromatid recombination

Munoz-Galvan, S., Lopez-Saavedra, A., Jackson, S. P., Huertas, P., Cortes-Ledesma, F., Aguilera, A.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 6.15 MB

english, 2013

12

Elucidating combinatorial histone modifications and crosstalks by coupling histone-modifying enzyme with biotin ligase activity

Lau, P. N. I., Cheung, P.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 4.53 MB

english, 2013

13

DNA polymerase minor groove interactions modulate mutagenic bypass of a templating 8-oxoguanine lesion

Freudenthal, B. D., Beard, W. A., Wilson, S. H.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 7.36 MB

english, 2013

14

Yeast polypeptide exit tunnel ribosomal proteins L17, L35 and L37 are necessary to recruit late-assembling factors required for 27SB pre-rRNA processing

Gamalinda, M., Jakovljevic, J., Babiano, R., Talkish, J., de la Cruz, J., Woolford, J. L.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 16.80 MB

english, 2013

15

Systematic screens of proteins binding to synthetic microRNA precursors

Towbin, H., Wenter, P., Guennewig, B., Imig, J., Zagalak, J. A., Gerber, A. P., Hall, J.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 2.09 MB

english, 2013

16

PreCisIon: PREdiction of CIS-regulatory elements improved by gene's positION

Elati, M., Nicolle, R., Junier, I., Fernandez, D., Fekih, R., Font, J., Kepes, F.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 3.31 MB

english, 2013

17

A cis-element with mixed G-quadruplex structure of NPGPx promoter is essential for nucleolin-mediated transactivation on non-targeting siRNA stress

Wei, P.-C., Wang, Z.-F., Lo, W.-T., Su, M.-I., Shew, J.-Y., Chang, T.-C., Lee, W.-H.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 1.48 MB

english, 2013

18

TEAK: Topology Enrichment Analysis frameworK for detecting activated biological subpathways

Judeh, T., Johnson, C., Kumar, A., Zhu, D.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 4.80 MB

english, 2013

19

Nucleic Acids Research: VOLUME 41 ISSUE 3 2013

Journal:

Nucleic Acids Research

Année:

2013

Fichier:

PDF, 797 KB

2013

20

Regulation of error-prone translesion synthesis by Spartan/C1orf124

Kim, M. S., Machida, Y., Vashisht, A. A., Wohlschlegel, J. A., Pang, Y.-P., Machida, Y. J.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 6.18 MB

english, 2013

21

Absence of a universal element for tRNAHis identity in Acanthamoeba castellanii

Rao, B. S., Mohammad, F., Gray, M. W., Jackman, J. E.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 2.30 MB

english, 2013

22

Crucial role of the C-terminal domain of Mycobacterium tuberculosis leucyl-tRNA synthetase in aminoacylation and editing

Hu, Q.-H., Huang, Q., Wang, E.-D.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 3.63 MB

english, 2013

23

EMdeCODE: a novel algorithm capable of reading words of epigenetic code to predict enhancers and retroviral integration sites and to identify H3R2me1 as a distinctive mark of coding versus non-coding genes

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 6.67 MB

english, 2013

24

In vitro biosynthesis of a universal t6A tRNA modification in Archaea and Eukarya

Perrochia, L., Crozat, E., Hecker, A., Zhang, W., Bareille, J., Collinet, B., van Tilbeurgh, H., Forterre, P., Basta, T.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 4.08 MB

english, 2013

25

Transcription factor and chromatin features predict genes associated with eQTLs

Wang, D., Rendon, A., Wernisch, L.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 4.06 MB

english, 2013

26

Sequential activation of genetic programs in mouse mammary epithelium during pregnancy depends on STAT5A/B concentration

Yamaji, D., Kang, K., Robinson, G. W., Hennighausen, L.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 11.22 MB

english, 2013

27

Guanine base stacking in G-quadruplex nucleic acids

Lech, C. J., Heddi, B., Phan, A. T.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 5.71 MB

english, 2013

28

Magnetic tweezers measurements of the nanomechanical stability of DNA against denaturation at various conditions of pH and ionic strength

Tempestini, A., Cassina, V., Brogioli, D., Ziano, R., Erba, S., Giovannoni, R., Cerrito, M. G., Salerno, D., Mantegazza, F.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 678 KB

english, 2013

29

Trinucleotide repeat deletion via a unique hairpin bypass by DNA polymerase and alternate flap cleavage by flap endonuclease 1

Xu, M., Gabison, J., Liu, Y.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 4.90 MB

english, 2013

30

One size does not fit all: On how Markov model order dictates performance of genomic sequence analyses

Narlikar, L., Mehta, N., Galande, S., Arjunwadkar, M.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 255 KB

english, 2013

31

Vaccinia and influenza A viruses select rather than adjust tRNAs to optimize translation

Pavon-Eternod, M., David, A., Dittmar, K., Berglund, P., Pan, T., Bennink, J. R., Yewdell, J. W.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 3.43 MB

english, 2013

32

Decoupling nucleosome recognition from DNA binding dramatically alters the properties of the Chd1 chromatin remodeler

Patel, A., Chakravarthy, S., Morrone, S., Nodelman, I. M., McKnight, J. N., Bowman, G. D.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 3.05 MB

english, 2013

33

miRNA target enrichment analysis reveals directly active miRNAs in health and disease

Steinfeld, I., Navon, R., Ach, R., Yakhini, Z.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 7.47 MB

english, 2013

34

A population model for genotyping indels from next-generation sequence data

Shao, H., Bellos, E., Yin, H., Liu, X., Zou, J., Li, Y., Wang, J., Coin, L. J. M.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 2.33 MB

english, 2013

35

Improved nucleic acid descriptors for siRNA efficacy prediction

Sciabola, S., Cao, Q., Orozco, M., Faustino, I., Stanton, R. V.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 4.22 MB

english, 2013

36

Selective association between nucleosomes with identical DNA sequences

Nishikawa, J.-i., Ohyama, T.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 12.27 MB

english, 2013

37

Human LIGIV is synthetically lethal with the loss of Rad54B-dependent recombination and is required for certain chromosome fusion events induced by telomere dysfunction

Oh, S., Wang, Y., Zimbric, J., Hendrickson, E. A.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 3.66 MB

english, 2013

38

Structures of the Escherichia coli transcription activator and regulator of diauxie, XylR: an AraC DNA-binding family member with a LacI/GalR ligand-binding domain

Ni, L., Tonthat, N. K., Chinnam, N., Schumacher, M. A.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 11.08 MB

english, 2013

39

A small molecule directly inhibits the p53 transactivation domain from binding to replication protein A

Glanzer, J. G., Carnes, K. A., Soto, P., Liu, S., Parkhurst, L. J., Oakley, G. G.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 2.16 MB

english, 2013

40

Competition between the GlnR and PhoP regulators for the glnA and amtB promoters in Streptomyces coelicolor

Sola-Landa, A., Rodriguez-Garcia, A., Amin, R., Wohlleben, W., Martin, J. F.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 18.40 MB

english, 2013

41

Categorical spectral analysis of periodicity in human and viral genomes

Howe, E. D., Song, J. S.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 970 KB

english, 2013

42

Genes involved in host-parasite interactions can be revealed by their correlated expression

Reid, A. J., Berriman, M.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 2.17 MB

english, 2013

43

Ubiquitin mediates the physical and functional interaction between human DNA polymerases and

McIntyre, J., Vidal, A. E., McLenigan, M. P., Bomar, M. G., Curti, E., McDonald, J. P., Plosky, B. S., Ohashi, E., Woodgate, R.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 8.93 MB

english, 2013

44

Bacteriophage SPP1 DNA replication strategies promote viral and disable host replication in vitro

Seco, E. M., Zinder, J. C., Manhart, C. M., Lo Piano, A., McHenry, C. S., Ayora, S.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 910 KB

english, 2013

45

The twilight zone of cis element alignments

Sebastian, A., Contreras-Moreira, B.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 7.12 MB

english, 2013

46

Identification of RNA targets for the nuclear multidomain cyclophilin atCyp59 and their effect on PPIase activity

Bannikova, O., Zywicki, M., Marquez, Y., Skrahina, T., Kalyna, M., Barta, A.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 2.17 MB

english, 2013

47

Sleeping Beauty transposon-based system for cellular reprogramming and targeted gene insertion in induced pluripotent stem cells

Grabundzija, I., Wang, J., Sebe, A., Erdei, Z., Kajdi, R., Devaraj, A., Steinemann, D., Szuhai, K., Stein, U., Cantz, T., Schambach, A., Baum, C., Izsvak, Z., Sarkadi, B., Ivics, Z.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 20.70 MB

english, 2013

48

2,3,7,8-Tetrachlorodibenzo-p-dioxin poly(ADP-ribose) polymerase (TiPARP, ARTD14) is a mono-ADP-ribosyltransferase and repressor of aryl hydrocarbon receptor transactivation

MacPherson, L., Tamblyn, L., Rajendra, S., Bralha, F., McPherson, J. P., Matthews, J.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 6.49 MB

english, 2013

49

Differential strand separation at critical temperature: A minimally disruptive enrichment method for low-abundance unknown DNA mutations

Guha, M., Castellanos-Rizaldos, E., Liu, P., Mamon, H., Makrigiorgos, G. M.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 11.24 MB

english, 2013

50

Quantification of stochastic noise of splicing and polyadenylation in Entamoeba histolytica

Hon, C.-C., Weber, C., Sismeiro, O., Proux, C., Koutero, M., Deloger, M., Das, S., Agrahari, M., Dillies, M.-A., Jagla, B., Coppee, J.-Y., Bhattacharya, A., Guillen, N.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 860 KB

english, 2013

51

Nucleic Acids Research - Editorial Board

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 58 KB

english, 2013

52

High-throughput sequence analysis reveals structural diversity and improved potency among RNA inhibitors of HIV reverse transcriptase

Ditzler, M. A., Lange, M. J., Bose, D., Bottoms, C. A., Virkler, K. F., Sawyer, A. W., Whatley, A. S., Spollen, W., Givan, S. A., Burke, D. H.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 5.68 MB

english, 2013

53

Suppression of artifacts and barcode bias in high-throughput transcriptome analyses utilizing template switching

Tang, D. T. P., Plessy, C., Salimullah, M., Suzuki, A. M., Calligaris, R., Gustincich, S., Carninci, P.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 6.03 MB

english, 2013

54

The expression platform and the aptamer: cooperativity between Mg2+ and ligand in the SAM-I riboswitch

Hennelly, S. P., Novikova, I. V., Sanbonmatsu, K. Y.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 6.29 MB

english, 2013

55

Highly similar structural frames link the template tunnel and NTP entry tunnel to the exterior surface in RNA-dependent RNA polymerases

Lang, D. M., Zemla, A. T., Zhou, C. L. E.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 126 KB

english, 2013

56

Candidate RNA structures for domain 3 of the foot-and-mouth-disease virus internal ribosome entry site

Jung, S., Schlick, T.

Journal:

Nucleic Acids Research

Année:

2013

Langue:

english

Fichier:

PDF, 21.97 MB

english, 2013