Gene Regulation and Expression

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2008

MacroH2A allows ATP-dependent chromatin remodeling by SWI/SNF and ACF complexes but specifically reduces recruitment of SWI/SNF

Chang, E. Y., Ferreira, H., Somers, J., Nusinow, D. A., Owen-Hughes, T. & Narlikar, G. J., 23 Dec 2008, In : Biochemistry. 47, 51, p. 13726-13732 7 p.

Research output: Contribution to journalArticle

37 Citations (Scopus)

Medea SUMOylation restricts the signaling range of the Dpp morphogen in the Drosophila embryo

Miles, W. O., Jaffray, E., Campbell, S. G., Takeda, S., Bayston, L. J., Basu, S. P., Li, M., Raftery, L. A., Ashe, M. P., Hay, R. T. & Ashe, H. L., 15 Sep 2008, In : Genes & Development. 22, 18, p. 2578-2590 13 p.

Research output: Contribution to journalArticle

32 Citations (Scopus)

Minimum information specification for in situ hybridization and immunohistochemistry experiments (MISFISHIE)

Deutsch, E. W., Ball, C. A., Berman, J. J., Bova, G. S., Brazma, A., Bumgarner, R. E., Campbell, D., Causton, H. C., Christiansen, J. H., Daian, F., Dauga, D., Davidson, D. R., Gimenez, G., Goo, Y. A., Grimmond, S., Henrich, T., Herrmann, B. G., Johnson, M. H., Korb, M., Mills, J. C. & 20 others, Oudes, A. J., Parkinson, H. E., Pascal, L. E., Pollet, N., Quackenbush, J., Ramialison, M., Ringwald, M., Salgado, D., Sansone, S-A., Sherlock, G., Stoeckert, C. J., Swedlow, J., Taylor, R. C., Walashek, L., Warford, A., Wilkinson, D. G., Zhou, Y., Zon, L. I., Liu, A. Y. & True, L. D., Mar 2008, In : Nature Biotechnology. 26, 3, p. 305-312 8 p.

Research output: Contribution to journalArticle

85 Citations (Scopus)

NF-kappa B is a critical regulator of the survival of rodent and human hepatic myofibroblasts

Watson, M. R., Wallace, K., Gieling, R. G., Manas, D. M., Jaffray, E., Hay, R. T., Mann, D. A. & Oakley, F., Apr 2008, In : Journal of Hepatology. 48, 4, p. 589-597 9 p.

Research output: Contribution to journalArticle

48 Citations (Scopus)

Novel substrates and functions for the ubiquitin-like molecule NEDD8

Xirodimas, D. P., Oct 2008, In : Biochemical Society Transactions. 36, 5, p. 802-806 5 p.

Research output: Contribution to journalArticle

121 Citations (Scopus)

Phosphorylation-dependent binding of 14-3-3 terminates signalling by the Gab2 docking protein

Brummer, T., Larance, M., Herrera Abreu, M. T., Lyons, R. J., Timpson, P., Emmerich, C. H., Fleuren, E. D. G., Lehrbach, G. M., Schramek, D., Guilhaus, M., James, D. E. & Daly, R. J., 3 Sep 2008, In : EMBO Journal. 27, 17, p. 2305-2316 12 p.

Research output: Contribution to journalArticle

43 Citations (Scopus)

PTIP/Swift is required for efficient PCNA ubiquitination in response to DNA damage

Goehler, T., Munoz, I. M., Rouse, J. & Blow, J. J., 2008, In : DNA Repair. 7, 5, p. 775-787 13 p.

Research output: Contribution to journalArticle

30 Citations (Scopus)

Quantitative analysis of multi-protein interactions using FRET: application to the SUMO pathway

Martin, S. F., Tatham, M. H., Hay, R. T. & Samuel, I. D. W., Apr 2008, In : Protein Science. 17, 4, p. 777-784 8 p.

Research output: Contribution to journalArticle

37 Citations (Scopus)

Rapid induction of pluripotency genes after exposure of human somatic cells to mouse ES cell extracts

Bru, T., Clarke, C., McGrew, M. J., Sang, H. M., Wilmut, I. & Blow, J. J., 15 Aug 2008, In : Experimental Cell Research. 314, 14, p. 2634-2642 9 p.

Research output: Contribution to journalArticle

63 Citations (Scopus)

Regulation of cyclin D1 RNA stability by SNIP1

Bracken, C. P., Wall, S. J., Barré, B., Panov, K. I., Ajuh, P. M. & Perkins, N. D., 15 Sep 2008, In : Cancer Research. 68, 18, p. 7621-8 8 p.

Research output: Contribution to journalArticle

62 Citations (Scopus)

Regulation of hypoxia-inducible factor-1 alpha by NF-kappa B

van Uden, P., Kenneth, N. S. & Rocha, S., 15 Jun 2008, In : Biochemical Journal. 412, 3, p. 477-484 8 p.

Research output: Contribution to journalArticle

406 Citations (Scopus)

Regulation of the RelA (p65) transactivation domain

O'Shea, J. M. & Perkins, N. D., Aug 2008, In : Biochemical Society Transactions. 36, Pt 4, p. 603-8 6 p.

Research output: Contribution to journalArticle

48 Citations (Scopus)

Reversible Accumulation of PEGylated Single-Walled Carbon Nanotubes in the Mammalian Nucleus

Cheng, J., Fernando, K. A. S., Veca, L. M., Sun, Y-P., Lamond, A. I., Lam, Y. W. & Cheng, S. H., Oct 2008, In : ACS Nano. 2, 10, p. 2085-2094 10 p.

Research output: Contribution to journalArticle

128 Citations (Scopus)

Ribosomal proteins are targets for the NEDD8 pathway

Xirodimas, D. P., Sundqvist, A., Nakamura, A., Shen, L., Botting, C. & Hay, R. T., Mar 2008, In : EMBO Reports. 9, 3, p. 280-286 7 p.

Research output: Contribution to journalArticle

115 Citations (Scopus)

RNF4 is a poly-SUMO-specific E3 ubiquitin ligase required for arsenic-induced PML degradation

Tatham, M. H., Geoffroy, M-C., Shen, L., Plechanovova, A., Hattersley, N., Jaffray, E. G., Palvimo, J. J. & Hay, R. T., May 2008, In : Nature Cell Biology. 10, 5, p. 538-546 9 p.

Research output: Contribution to journalArticle

564 Citations (Scopus)

Single-stranded DNA-binding protein hSSB1 is critical for genomic stability

Richard, D. J., Bolderson, E., Cubeddu, L., Wadsworth, R. I. M., Savage, K., Sharma, G. G., Nicolette, M. L., Tsvetanov, S., McIlwraith, M. J., Pandita, R. K., Takeda, S., Hay, R. T., Gautier, J., West, S. C., Paull, T. T., Pandita, T. K., White, M. F. & Khanna, K. K., 29 May 2008, In : Nature. 453, 7195, p. 677-U13 6 p.

Research output: Contribution to journalArticle

161 Citations (Scopus)

Spatial mapping of splicing factor complexes involved in exon and intron definition

Ellis, J. D., Llères, D., Denegri, M., Lamond, A. & Cáceres, J., 1 Jun 2008, In : Chemtracts. 21, 6, p. 243-244 2 p.

Research output: Contribution to journalArticle

Spatial mapping of splicing factor complexes involved in exon and intron definition

Ellis, J. D., Lleres, D., Denegri, M., Lamond, A. I. & Caceres, J. F., 16 Jun 2008, In : Journal of Cell Biology. 181, 6, p. 921-934 14 p.

Research output: Contribution to journalArticle

Open Access
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37 Citations (Scopus)
318 Downloads (Pure)

Splicing factors facilitate RNAi-directed silencing in fission yeast

Bayne, E. H., Portoso, M., Kagansky, A., Kos-Braun, I. C., Urano, T., Ekwall, K., Alves, F., Rappsilber, J. & Allshire, R. C., 24 Oct 2008, In : Science. 322, 5901, p. 602-606 5 p.

Research output: Contribution to journalArticle

90 Citations (Scopus)

Structure and function of ribosomal RNA gene chromatin

Birch, J. L. & Zomerdijk, J. C. B. M., Aug 2008, In : Biochemical Society Transactions. 36, p. 619-624 6 p.

Research output: Contribution to journalArticle

42 Citations (Scopus)
46 Citations (Scopus)

Surface plasmon resonance imaging for real-time, label-free analysis of protein interactions with carbohydrate microarrays

Karamanska, R., Clarke, J., Blixt, O., MacRae, J. I., Zhang, J. Q., Crocker, P. R., Laurent, N., Wright, A., Flitsch, S. L., Russell, D. A. & Field, R. A., Jan 2008, In : Glycoconjugate Journal. 25, 1, p. 69-74 6 p.

Research output: Contribution to journalArticle

84 Citations (Scopus)

Targeting a nucleolar SUMO protease for degradation: a mechanism by which ARF induces SUMO conjugation

Xirodimas, D. P. & Lane, D. P., 1 Nov 2008, In : Cell Cycle. 7, 21, p. 3287-3288 2 p.

Research output: Contribution to journalArticle

4 Citations (Scopus)

Temporal profiling of the chromatin proteome reveals system-wide responses to replication inhibition

Khoudoli, G. A., Gillespie, P. J., Stewart, G., Andersen, J. S., Swedlow, J. R. & Blow, J. J., 3 Jun 2008, In : Current Biology. 18, 11, p. 838-843 6 p.

Research output: Contribution to journalArticle

26 Citations (Scopus)

The Caenorhabditis elegans AMP-activated protein kinase AAK-2 is phosphorylated by LKB1 and is required for resistance to oxidative stress and for normal motility and foraging behavior

Lee, H., Cho, J. S., Lambacher, N., Lee, J., Lee, S-J., Lee, T. H., Gartner, A. & Koo, H-S., 30 May 2008, In : Journal of Biological Chemistry. 283, 22, p. 14988-14993 6 p.

Research output: Contribution to journalArticle

52 Citations (Scopus)

The GLUT4 code

Larance, M., Ramm, G. & James, D. E., 1 Feb 2008, In : Molecular Endocrinology. 22, 2, p. 226-233 8 p.

Research output: Contribution to journalArticle

64 Citations (Scopus)

The human intermediate filament database: Comprehensive information on a gene family involved in many human diseases

Szeverenyi, I., Cassidy, A. J., Chung, C. W., Lee, B. T. K., Common, J. E. A., Ogg, S. C., Chen, H., Sim, S. Y., Goh, W. L. R., Ng, K. W., Simpson, J. A., Chee, L. L., Eng, G. H., Li, B., Lunny, D. P., Chuon, D., Venkatesh, A., Khoo, K. H., McLean, W. H. I., Lim, Y. P. & 1 others, Lane, E. B., Mar 2008, In : Human Mutation. 29, 3, p. 351-360 10 p.

Research output: Contribution to journalArticle

218 Citations (Scopus)

The ubiquitin-proteasome system is a key component of the SUMO-2/3 cycle

Schimmel, J., Larsen, K. M., Matic, I., van Hagen, M., Cox, J., Mann, M., Andersen, J. S. & Vertegaal, A. C. O., 1 Nov 2008, In : Molecular & Cellular Proteomics. 7, 11, p. 2107-2122 16 p.

Research output: Contribution to journalArticle

118 Citations (Scopus)

Three-dimensional electron microscopy analysis of ndc10-1 mutant reveals an aberrant organization of the mitotic spindle and spindle pole body defects in Saccharomyces cerevisiae

Romao, M., Tanaka, K., Sibarita, J-B., Ly-Hartig, N. T. B., Tanaka, T. U. & Antony, C., Jul 2008, In : Journal of Structural Biology. 163, 1, p. 18-28 11 p.

Research output: Contribution to journalArticle

8 Citations (Scopus)

Transcriptional profiling in C-elegans suggests DNA damage dependent apoptosis as an ancient function of the p53 family

Greiss, S., Schumacher, B., Grandien, K., Rothblatt, J. & Gartner, A., 15 Jul 2008, In : BMC Genomics. 9, p. - 10 p., 334.

Research output: Contribution to journalArticle

43 Citations (Scopus)

Using dialogical argument as an interface to complex debates

Wells, S. & Reed, C., 1 Sep 2008, In : IEEE Potentials. 27, 5, p. 26-30 5 p.

Research output: Contribution to journalArticle

2009

ABC50 promotes translation initiation in mammalian cells

Paytubi, S., Wang, X., Lam, Y. W., Izquierdo, L., Hunter, M. J., Jan, E., Hundal, H. S. & Proud, C. G., 4 Sep 2009, In : Journal of Biological Chemistry. 284, 36, p. 24061-24073 13 p.

Research output: Contribution to journalArticle

57 Citations (Scopus)

ABF1-binding sites promote efficient global genome nucleotide excision repair

Yu, S., Smirnova, J. B., Friedberg, E. C., Stillman, B., Akiyama, M., Owen-Hughes, T., Waters, R. & Reed, S. H., 9 Jan 2009, In : Journal of Biological Chemistry. 284, 2, p. 966-973 8 p.

Research output: Contribution to journalArticle

16 Citations (Scopus)

A key role for Ctf4 in coupling the MCM2-7 helicase to DNA polymerase alpha within the eukaryotic replisome

Gambus, A., van Deursen, F., Polychronopoulos, D., Foltman, M., Jones, R. C., Edmondson, R. D., Calzada, A. & Labib, K., 7 Oct 2009, In : EMBO Journal. 28, 19, p. 2992-3004 13 p.

Research output: Contribution to journalArticle

171 Citations (Scopus)

A method for genetically installing site-specific acetylation in recombinant histories defines the effects of H3 K56 acetylation

Neumann, H., Hancock, S. M., Buning, R., Routh, A., Chapman, L., Somers, J., Owen-Hughes, T., van Noort, J., Rhodes, D. & Chin, J. W., 9 Oct 2009, In : Molecular Cell. 36, 1, p. 153-163 11 p.

Research output: Contribution to journalArticle

307 Citations (Scopus)

A model for DNA replication showing how dormant origins safeguard against replication fork failure

Blow, J. J. & Ge, X. Q., Apr 2009, In : EMBO Reports. 10, 4, p. 406-412 7 p.

Research output: Contribution to journalArticle

64 Citations (Scopus)

Analysis of small RNA in fission yeast; centromeric siRNAs are potentially generated through a structured RNA

Djupedal, I., Kos-Braun, I. C., Mosher, R. A., Soderholm, N., Simmer, F., Hardcastle, T. J., Fender, A., Heidrich, N., Kagansky, A., Bayne, E., Wagner, E. G. H., Baulcombe, D. C., Allshire, R. C. & Ekwall, K., 16 Dec 2009, In : EMBO Journal. 28, 24, p. 3832-3844 13 p.

Research output: Contribution to journalArticle

48 Citations (Scopus)

Blom7 alpha Is a Novel Heterogeneous Nuclear Ribonucleoprotein K Homology Domain Protein Involved in Pre-mRNA Splicing That Interacts with SNEVPrp19-Pso4

Grillari, J., Löscher, M., Denegri, M., Lee, K., Fortschegger, K., Eisenhaber, F., Ajuh, P., Lamond, A. I., Katinger, H. & Grillari-Voglauer, R., 16 Oct 2009, In : Journal of Biological Chemistry. 284, 42, p. 29193-29204 12 p.

Research output: Contribution to journalArticle

7 Citations (Scopus)

Building a scientific data grid with DIGS

Beckett, M. G., Allton, C. R., Davies, C. T. H., Davis, I., Flynn, J. M., Grant, E. J., Hamilton, R. S., Irving, A. C., Kenway, R. D., Ostrowski, R. H., Perry, J. T., Swedlow, J. R. & Trew, A., 28 Jun 2009, In : Philosophical Transactions of the Royal Society A - Mathematical Physical and Engineering Sciences. 367, 1897, p. 2471-2481 11 p.

Research output: Contribution to journalArticle

1 Citation (Scopus)

Cell fate decisions are specified by the dynamic ERK interactome

von Kriegsheim, A., Baiocchi, D., Birtwistle, M., Sumpton, D., Bienvenut, W., Morrice, N., Yamada, K., Lamond, A., Kalna, G., Orton, R., Gilbert, D. & Kolch, W., Dec 2009, In : Nature Cell Biology. 11, 12, p. 1458-1464 7 p.

Research output: Contribution to journalArticle

191 Citations (Scopus)

Characterization of SENP7, a SUMO-2/3-specific isopeptidase

Shen, L. N., Geoffroy, M-C., Jaffray, E. G. & Hay, R. T., 15 Jul 2009, In : Biochemical Journal. 421, p. 223-230 8 p.

Research output: Contribution to journalArticle

67 Citations (Scopus)

Cooperative regulation of the interferon regulatory factor-1 tumor suppressor protein by core components of the molecular chaperone machinery

Narayan, V., Eckert, M., Zylicz, A., Zylicz, M. & Ball, K. L., 18 Sep 2009, In : Journal of Biological Chemistry. 284, 38, p. 25889-25899 11 p.

Research output: Contribution to journalArticle

16 Citations (Scopus)

Detection of protein SUMOylation in vivo

Tatham, M. H., Rodriguez, M. S., Xirodimas, D. P. & Hay, R. T., 2009, In : Nature Protocols. 4, 9, p. 1363-1371 9 p.

Research output: Contribution to journalArticle

104 Citations (Scopus)

Distinct subsets of Sit4 holophosphatases are required for inhibition of saccharomyces cerevisiae growth by rapamycin and zymocin

Jablonowski, D., Taeubert, J-E., Baer, C., Stark, M. J. R. & Schaffrath, R., Nov 2009, In : Eukaryotic Cell. 8, 11, p. 1637-1647 11 p.

Research output: Contribution to journalArticle

18 Citations (Scopus)

Dynamic localisation of Ran GTPase during the cell cycle

Hutchins, J. R. A., Moore, W. J. & Clarke, P. R., 18 Sep 2009, In : BMC Cell Biology. 10, p. - 10 p., 66.

Research output: Contribution to journalArticle

20 Citations (Scopus)

Dynamics of myosin, microtubules, and Kinesin-6 at the cortex during cytokinesis in Drosophila S2 cells

Vale, R. D., Spudich, J. A. & Griffis, E. R., 7 Sep 2009, In : Journal of Cell Biology. 186, 5, p. 727-738 12 p.

Research output: Contribution to journalArticle

Open Access
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47 Citations (Scopus)
196 Downloads (Pure)

Efficient chromosome biorientation and the tension checkpoint in saccharomyces cerevisiae both require Bir1

Makrantoni, V. & Stark, M. J. R., 15 Aug 2009, In : Molecular and Cellular Biology. 29, 16, p. 4552-4562 11 p.

Research output: Contribution to journalArticle

14 Citations (Scopus)

Elongator function depends on antagonistic regulation by casein kinase Hrr25 and protein phosphatase Sit4

Mehlgarten, C., Jablonowski, D., Breunig, K. D., Stark, M. J. R. & Schaffrath, R., Sep 2009, In : Molecular Microbiology. 73, 5, p. 869-881 13 p.

Research output: Contribution to journalArticle

37 Citations (Scopus)

FACT facilitates chromatin transcription by RNA polymerases I and III

Birch, J. L., Tan, B. C-M., Panov, K. I., Panova, T. B., Andersen, J. S., Owen-Hughes, T. A., Russell, J., Lee, S-C. & Zomerdijk, J. C. B. M., 8 Apr 2009, In : EMBO Journal. 28, 7, p. 854-865 12 p.

Research output: Contribution to journalArticle

65 Citations (Scopus)

Filtering of deep sequencing data reveals the existence of abundant Dicer-dependent small RNAs derived from tRNAs

Cole, C., Sobala, A., Lu, C., Thatcher, S. R., Bowman, A., Brown, J. W. S., Green, P. J., Barton, G. J. & Hutvagner, G., Dec 2009, In : RNA: a Publication of the RNA Society. 15, 12, p. 2147-2160 14 p.

Research output: Contribution to journalArticle

333 Citations (Scopus)