Volume 42; Issue 10

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Nucleic Acids Research
Volume 42; Issue 10

Nucleic Acids Research

Volume 42; Issue 10

1

Characterization of the RNA recognition mode of hnRNP G extends its role in SMN2 splicing regulation

Moursy, A., Allain, F. H.- T., Clery, A.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.54 MB

english, 2014

2

The forkhead transcription factor FOXK2 acts as a chromatin targeting factor for the BAP1-containing histone deubiquitinase complex

Ji, Z., Mohammed, H., Webber, A., Ridsdale, J., Han, N., Carroll, J. S., Sharrocks, A. D.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.21 MB

english, 2014

3

DNA-protein -interactions in nature: abundance, structure, composition and strength of contacts between aromatic amino acids and DNA nucleobases or deoxyribose sugar

Wilson, K. A., Kellie, J. L., Wetmore, S. D.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.90 MB

english, 2014

4

Classification and evolution of type II CRISPR-Cas systems

Chylinski, K., Makarova, K. S., Charpentier, E., Koonin, E. V.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.00 MB

english, 2014

5

Cas6 specificity and CRISPR RNA loading in a complex CRISPR-Cas system

Sokolowski, R. D., Graham, S., White, M. F.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 5.01 MB

english, 2014

6

Suicidal cross-linking of PARP-1 to AP site intermediates in cells undergoing base excision repair

Prasad, R., Horton, J. K., Chastain, P. D., Gassman, N. R., Freudenthal, B. D., Hou, E. W., Wilson, S. H.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.31 MB

english, 2014

7

Lomofungin and dilomofungin: inhibitors of MBNL1-CUG RNA binding with distinct cellular effects

Hoskins, J. W., Ofori, L. O., Chen, C. Z., Kumar, A., Sobczak, K., Nakamori, M., Southall, N., Patnaik, S., Marugan, J. J., Zheng, W., Austin, C. P., Disney, M. D., Miller, B. L., Thornton, C. A.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.06 MB

english, 2014

8

A piggyBac-based reporter system for scalable in vitro and in vivo analysis of 3' untranslated region-mediated gene regulation

Chaudhury, A., Kongchan, N., Gengler, J. P., Mohanty, V., Christiansen, A. E., Fachini, J. M., Martin, J. F., Neilson, J. R.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 4.98 MB

english, 2014

9

RalR (a DNase) and RalA (a small RNA) form a type I toxin-antitoxin system in Escherichia coli

Guo, Y., Quiroga, C., Chen, Q., McAnulty, M. J., Benedik, M. J., Wood, T. K., Wang, X.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.58 MB

english, 2014

10

KDM4C (GASC1) lysine demethylase is associated with mitotic chromatin and regulates chromosome segregation during mitosis

Kupershmit, I., Khoury-Haddad, H., Awwad, S. W., Guttmann-Raviv, N., Ayoub, N.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 8.39 MB

english, 2014

11

Amides are excellent mimics of phosphate internucleoside linkages and are well tolerated in short interfering RNAs

Mutisya, D., Selvam, C., Lunstad, B. D., Pallan, P. S., Haas, A., Leake, D., Egli, M., Rozners, E.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.73 MB

english, 2014

12

Synthesis of an oligonucleotide-derivatized amphipol and its use to trap and immobilize membrane proteins

Le Bon, C., Della Pia, E. A., Giusti, F., Lloret, N., Zoonens, M., Martinez, K. L., Popot, J.-L.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.85 MB

english, 2014

13

Multiplexed direct genomic selection (MDiGS): a pooled BAC capture approach for highly accurate CNV and SNP/INDEL detection

Alvarado, D. M., Yang, P., Druley, T. E., Lovett, M., Gurnett, C. A.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 645 KB

english, 2014

14

Identification and characterization of RNA guanine-quadruplex binding proteins

Hacht, A. v., Seifert, O., Menger, M., Schutze, T., Arora, A., Konthur, Z., Neubauer, P., Wagner, A., Weise, C., Kurreck, J.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 979 KB

english, 2014

15

Requirement for Parp-1 and DNA ligases 1 or 3 but not of Xrcc1 in chromosomal translocation formation by backup end joining

Soni, A., Siemann, M., Grabos, M., Murmann, T., Pantelias, G. E., Iliakis, G.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.36 MB

english, 2014

16

Direct optical mapping of transcription factor binding sites on field-stretched -DNA in nanofluidic devices

Sriram, K. K., Yeh, J.-W., Lin, Y.-L., Chang, Y.-R., Chou, C.-F.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 706 KB

english, 2014

17

Nucleic Acids Research: Editorial Board

Journal:

Nucleic Acids Research

Year:

2014

File:

PDF, 423 KB

2014

18

Mechanism of oxidant-induced mistranslation by threonyl-tRNA synthetase

Wu, J., Fan, Y., Ling, J.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.32 MB

english, 2014

19

The ETS family member GABP modulates androgen receptor signalling and mediates an aggressive phenotype in prostate cancer

Sharma, N. L., Massie, C. E., Butter, F., Mann, M., Bon, H., Ramos-Montoya, A., Menon, S., Stark, R., Lamb, A. D., Scott, H. E., Warren, A. Y., Neal, D. E., Mills, I. G.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.65 MB

english, 2014

20

Human single-stranded DNA binding protein 1 (hSSB1/NABP2) is required for the stability and repair of stalled replication forks

Bolderson, E., Petermann, E., Croft, L., Suraweera, A., Pandita, R. K., Pandita, T. K., Helleday, T., Khanna, K. K., Richard, D. J.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 2.34 MB

english, 2014

21

The Mus81-Mms4 structure-selective endonuclease requires nicked DNA junctions to undergo conformational changes and bend its DNA substrates for cleavage

Mukherjee, S., Wright, W. D., Ehmsen, K. T., Heyer, W.-D.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.23 MB

english, 2014

22

Modulation of HBV replication by microRNA-15b through targeting hepatocyte nuclear factor 1

Dai, X., Zhang, W., Zhang, H., Sun, S., Yu, H., Guo, Y., Kou, Z., Zhao, G., Du, L., Jiang, S., Zhang, J., Li, J., Zhou, Y.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.01 MB

english, 2014

23

Optimal guideRNAs for re-directing deaminase activity of hADAR1 and hADAR2 in trans

Schneider, M. F., Wettengel, J., Hoffmann, P. C., Stafforst, T.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.67 MB

english, 2014

24

HIV-1 Rev protein specifies the viral RNA export pathway by suppressing TAP/NXF1 recruitment

Taniguchi, I., Mabuchi, N., Ohno, M.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.37 MB

english, 2014

25

Engineered zinc-finger transcription factors activate OCT4 (POU5F1), SOX2, KLF4, c-MYC (MYC) and miR302/367

Ji, Q., Fischer, A. L., Brown, C. R., Eastlund, E. R., Dvash, T., Zhong, B., Gerber, M. A., Lyons, I., Knight, S. W., Kreader, C. A.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 690 KB

english, 2014

26

Subscriptions

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 37 KB

english, 2014

27

Sumoylation of the Rad1 nuclease promotes DNA repair and regulates its DNA association

Sarangi, P., Bartosova, Z., Altmannova, V., Holland, C., Chavdarova, M., Lee, S. E., Krejci, L., Zhao, X.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.01 MB

english, 2014

28

A novel tRNA variable number tandem repeat at human chromosome 1q23.3 is implicated as a boundary element based on conservation of a CTCF motif in mouse

Darrow, E. M., Chadwick, B. P.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.31 MB

english, 2014

29

Crystal structure of a 4-thiouridine synthetase-RNA complex reveals specificity of tRNA U8 modification

Neumann, P., Lakomek, K., Naumann, P.-T., Erwin, W. M., Lauhon, C. T., Ficner, R.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 3.35 MB

english, 2014

30

A fine-scale dissection of the DNA double-strand break repair machinery and its implications for breast cancer therapy

Liu, C., Srihari, S., Cao, K.-A. L., Chenevix-Trench, G., Simpson, P. T., Ragan, M. A., Khanna, K. K.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.89 MB

english, 2014

31

RAG2 mutants alter DSB repair pathway choice in vivo and illuminate the nature of 'alternative NHEJ'

Gigi, V., Lewis, S., Shestova, O., Miju kovi , M., Deriano, L., Meng, W., Luning Prak, E. T., Roth, D. B.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.60 MB

english, 2014

32

Histone H3 K79 methylation states play distinct roles in UV-induced sister chromatid exchange and cell cycle checkpoint arrest in Saccharomyces cerevisiae

Rossodivita, A. A., Boudoures, A. L., Mecoli, J. P., Steenkiste, E. M., Karl, A. L., Vines, E. M., Cole, A. M., Ansbro, M. R., Thompson, J. S.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.24 MB

english, 2014

33

Entrapment of DNA in an intersubunit tunnel system of a single-stranded DNA-binding protein

Ghalei, H., Moeller, H. v., Eppers, D., Sohmen, D., Wilson, D. N., Loll, B., Wahl, M. C.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.98 MB

english, 2014

34

NuMA promotes homologous recombination repair by regulating the accumulation of the ISWI ATPase SNF2h at DNA breaks

Vidi, P.-A., Liu, J., Salles, D., Jayaraman, S., Dorfman, G., Gray, M., Abad, P., Moghe, P. V., Irudayaraj, J. M., Wiesmuller, L., Lelievre, S. A.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 2.52 MB

english, 2014

35

The histone variant H2A.Bbd is enriched at sites of DNA synthesis

Sansoni, V., Casas-Delucchi, C. S., Rajan, M., Schmidt, A., Bonisch, C., Thomae, A. W., Staege, M. S., Hake, S. B., Cardoso, M. C., Imhof, A.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 2.67 MB

english, 2014

36

Genome-wide characterization reveals complex interplay between TP53 and TP63 in response to genotoxic stress

McDade, S. S., Patel, D., Moran, M., Campbell, J., Fenwick, K., Kozarewa, I., Orr, N. J., Lord, C. J., Ashworth, A. A., McCance, D. J.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 2.06 MB

english, 2014

37

A novel approach to represent and compare RNA secondary structures

Mattei, E., Ausiello, G., Ferre, F., Helmer-Citterich, M.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.02 MB

english, 2014

38

The impact of transcriptional tuning on in vitro integrated rRNA transcription and ribosome construction

Fritz, B. R., Jewett, M. C.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 2.28 MB

english, 2014

39

A programmable method for massively parallel targeted sequencing

Hopmans, E. S., Natsoulis, G., Bell, J. M., Grimes, S. M., Sieh, W., Ji, H. P.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.22 MB

english, 2014

40

Rapid kinetics of iron responsive element (IRE) RNA/iron regulatory protein 1 and IRE-RNA/eIF4F complexes respond differently to metal ions

Khan, M. A., Ma, J., Walden, W. E., Merrick, W. C., Theil, E. C., Goss, D. J.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 938 KB

english, 2014

41

Evidence that TSC2 acts as a transcription factor and binds to and represses the promoter of Epiregulin

Pradhan, S. A., Rather, M. I., Tiwari, A., Bhat, V. K., Kumar, A.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.54 MB

english, 2014

42

Structural and biophysical characterization of Staphylococcus aureus SaMazF shows conservation of functional dynamics

Zorzini, V., Buts, L., Sleutel, M., Garcia-Pino, A., Talavera, A., Haesaerts, S., Greve, H. D., Cheung, A., van Nuland, N. A. J., Loris, R.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.81 MB

english, 2014

43

Impact of nuclear Piwi elimination on chromatin state in Drosophila melanogaster ovaries

Klenov, M. S., Lavrov, S. A., Korbut, A. P., Stolyarenko, A. D., Yakushev, E. Y., Reuter, M., Pillai, R. S., Gvozdev, V. A.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.45 MB

english, 2014

44

Auxiliary tRNAs: large-scale analysis of tRNA genes reveals patterns of tRNA repertoire dynamics

Wald, N., Margalit, H.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 2.77 MB

english, 2014

45

Genome-wide RNA-binding analysis of the trypanosome U1 snRNP proteins U1C and U1-70K reveals cis/trans-spliceosomal network

Preusser, C., Rossbach, O., Hung, L.-H., Li, D., Bindereif, A.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 678 KB

english, 2014

46

5-Fluorouracil affects assembly of stress granules based on RNA incorporation

Kaehler, C., Isensee, J., Hucho, T., Lehrach, H., Krobitsch, S.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 8.90 MB

english, 2014

47

The crystal structure of the Split End protein SHARP adds a new layer of complexity to proteins containing RNA recognition motifs

Arieti, F., Gabus, C., Tambalo, M., Huet, T., Round, A., Thore, S.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.94 MB

english, 2014

48

Structural basis for binding the TREX2 complex to nuclear pores, GAL1 localisation and mRNA export

Jani, D., Valkov, E., Stewart, M.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.37 MB

english, 2014

49

Eukaryotic and archaeal TBP and TFB/TF(II)B follow different promoter DNA bending pathways

Gietl, A., Holzmeister, P., Blombach, F., Schulz, S., von Voithenberg, L. V., Lamb, D. C., Werner, F., Tinnefeld, P., Grohmann, D.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.43 MB

english, 2014

50

Imogene: identification of motifs and cis-regulatory modules underlying gene co-regulation

Rouault, H., Santolini, M., Schweisguth, F., Hakim, V.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 879 KB

english, 2014

51

Progressive engineering of a homing endonuclease genome editing reagent for the murine X-linked immunodeficiency locus

Wang, Y., Khan, I. F., Boissel, S., Jarjour, J., Pangallo, J., Thyme, S., Baker, D., Scharenberg, A. M., Rawlings, D. J.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 2.69 MB

english, 2014

52

Intrinsic stability and oligomerization dynamics of DNA processivity clamps

Binder, J. K., Douma, L. G., Ranjit, S., Kanno, D. M., Chakraborty, M., Bloom, L. B., Levitus, M.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 886 KB

english, 2014

53

The Dnmt2 RNA methyltransferase homolog of Geobacter sulfurreducens specifically methylates tRNA-Glu

Shanmugam, R., Aklujkar, M., Schafer, M., Reinhardt, R., Nickel, O., Reuter, G., Lovley, D. R., Ehrenhofer-Murray, A., Nellen, W., Ankri, S., Helm, M., Jurkowski, T. P., Jeltsch, A.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.26 MB

english, 2014

54

Telomere length kinetics assay (TELKA) sorts the telomere length maintenance (tlm) mutants into functional groups

Rubinstein, L., Ungar, L., Harari, Y., Babin, V., Ben-Aroya, S., Merenyi, G., Marjavaara, L., Chabes, A., Kupiec, M.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 3.86 MB

english, 2014

55

High-efficiency genome editing via 2A-coupled co-expression of fluorescent proteins and zinc finger nucleases or CRISPR/Cas9 nickase pairs

Duda, K., Lonowski, L. A., Kofoed-Nielsen, M., Ibarra, A., Delay, C. M., Kang, Q., Yang, Z., Pruett-Miller, S. M., Bennett, E. P., Wandall, H. H., Davis, G. D., Hansen, S. H., Frodin, M.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.85 MB

english, 2014

56

CDK2-dependent phosphorylation of Suv39H1 is involved in control of heterochromatin replication during cell cycle progression

Park, S. H., Yu, S. E., Chai, Y. G., Jang, Y. K.

Journal:

Nucleic Acids Research

Year:

2014

Language:

english

File:

PDF, 1.07 MB

english, 2014

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