Gene Regulation and Expression

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2014

Proteomic and 3D structure analyses highlight the C/D box snoRNP assembly mechanism and its control

Bizarro, J., Charron, C., Boulon, S., Westman, B., Pradet-Balade, B., Vandermoere, F., Chagot, M-E., Hallais, M., Ahmad, Y., Leonhardt, H., Lamond, A., Manival, X., Branlant, C., Charpentier, B., Verheggen, C. & Bertrand, E., 24 Nov 2014, In : Journal of Cell Biology. 207, 4, p. 463-480 18 p.

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31 Citations (Scopus)
234 Downloads (Pure)

Proteomic Selection of Immunodiagnostic Antigens for Trypanosoma congolense

Fleming, J. R., Sastry, L., Crozier, T. W. M., Napier, G. B., Sullivan, L. & Ferguson, M. A. J., 2014, In : PLoS Neglected Tropical Diseases. 8, 6, e2936.

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Open Access
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6 Citations (Scopus)
339 Downloads (Pure)

Regulatory and functional connection of microphthalmia-associated transcription factor and anti-metastatic pigment epithelium derived factor in melanoma

Fernández-Barral, A., Orgaz, J. L., Baquero, P., Ali, Z., Moreno, A., Tiana, M., Gómez, V., Riveiro-Falkenbach, E., Cañadas, C., Zazo, S., Bertolotto, C., Davidson, I., Rodríguez-Peralto, J. L., Palmero, I., Rojo, F., Jensen, L. D., Del Peso, L. & Jiménez, B., 2014, In : Neoplasia. 16, 6, p. 529-542 14 p.

Research output: Contribution to journalArticle

Open Access
18 Citations (Scopus)

siRNA screening to identify ubiquitin and ubiquitin-like system regulators of biological pathways in cultured mammalian cells

Bett, J. S., Ibrahim, A. F. M., Garg, A. K., Rocha, S. & Hay, R. T., 24 May 2014, In : JoVE: Journal of Visualized Experiments. 87, 10 p., e51572.

Research output: Contribution to journalArticle

1 Citation (Scopus)

Sp100 isoform-specific regulation of human adenovirus 5 gene expression

Berscheminski, J., Wimmer, P., Brun, J., Ip, W. H., Groitl, P., Horlacher, T., Jaffray, E., Hay, R. T., Dobner, T. & Schreiner, S., Jun 2014, In : Journal of Virology. 88, 11, p. 6076-6092 17 p.

Research output: Contribution to journalArticle

Open Access
24 Citations (Scopus)

Stochasticity in the symmetric division of plant cells: when the exceptions are the rule

Besson, S. & Dumais, J., 9 Oct 2014, In : Frontiers in Plant Science. 5, October, p. 538

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11 Citations (Scopus)
102 Downloads (Pure)

Structural insight into SUMO chain recognition and manipulation by the ubiquitin ligase RNF4

Xu, Y., Plechanovová, A., Simpson, P., Marchant, J., Leidecker, O., Kraatz, S., Hay, R. T. & Matthews, S. J., 27 Jun 2014, In : Nature Communications. 5, 12 p., 4217.

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14 Citations (Scopus)
190 Downloads (Pure)

SUMO chain-induced dimerization activates RNF4

Rojas-Fernandez, A., Plechanovová, A., Hattersley, N., Jaffray, E., Tatham, M. H. & Hay, R. T., 20 Mar 2014, In : Molecular Cell. 53, 6, p. 880-92 13 p.

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Open Access
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43 Citations (Scopus)
124 Downloads (Pure)

Sumoylation controls host anti-bacterial response to the gut invasive pathogen Shigella flexneri

Fritah, S., Lhocine, N., Golebiowski, F., Mounier, J., Andrieux, A., Jouvion, G., Hay, R. T., Sansonetti, P. & Dejean, A., Sep 2014, In : EMBO Reports. 15, 9, p. 965-972 8 p.

Research output: Contribution to journalArticle

Open Access
19 Citations (Scopus)

Tetramerization-defects of p53 result in aberrant ubiquitylation and transcriptional activity

Lang, V., Pallara, C., Zabala, A., Lobato-Gil, S., Lopitz-Otsoa, F., Farrás, R., Hjerpe, R., Torres-Ramos, M., Zabaleta, L., Blattner, C., Hay, R. T., Barrio, R., Carracedo, A., Fernandez-Recio, J., Rodríguez, M. S. & Aillet, F., 2014, In : Molecular Oncology. 8, 5, p. 1026-1042 17 p.

Research output: Contribution to journalArticle

Open Access
10 Citations (Scopus)

Tetraspanin (TSP-17) Protects Dopaminergic Neurons against 6-OHDA-Induced Neurodegeneration in C. elegans

Masoudi, N., Ibanez-Cruceyra, P., Offenburger, S-L., Holmes, A. & Gartner, A., 4 Dec 2014, In : PLoS Genetics. 10, 12, 15 p., e1004767.

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Open Access
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15 Citations (Scopus)
137 Downloads (Pure)

The contribution of dormant origins to genome stability: from cell biology to human genetics

Alver, R. C., Chadha, G. S. & Blow, J. J., Jul 2014, In : DNA Repair. 19, p. 182-189 8 p.

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Open Access
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50 Citations (Scopus)
202 Downloads (Pure)

The double loop mattress suture

Biddlestone, J., Samuel, M., Creagh, T. & Ahmad, T., 2014, In : Wound Repair and Regeneration. 22, 3, p. 415-423 9 p.

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Open Access
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5 Citations (Scopus)
160 Downloads (Pure)

The essential roles of cytidine diphosphate-diacylglycerol synthase in bloodstream form Trypanosoma brucei

Lilley, A. C., Major, L., Young, S., Stark, M. J. R. & Smith, T. K., May 2014, In : Molecular Microbiology. 92, 3, p. 453-470 18 p.

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Open Access
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9 Citations (Scopus)
172 Downloads (Pure)

The histone chaperones Vps75 and Nap1 form ring-like, tetrameric structures in solution

Bowman, A., Hammond, C. M., Stirling, A., Ward, R., Shang, W., El-Mkami, H., Robinson, D. A., Svergun, D. I., Norman, D. G. & Owen-Hughes, T., 2014, In : Nucleic Acids Research. 42, 9, p. 6038-6051 13 p.

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Open Access
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25 Citations (Scopus)
194 Downloads (Pure)

The prevalence and origin of exoprotease-producing cells in the Bacillus subtilis biofilm

Marlow, V. L., Cianfanelli, F. R., Porter, M., Cairns, L. S., Dale, J. K. & Stanley-Wall, N. R., Jan 2014, In : Microbiology. 160, 1, p. 56-66 11 p.

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Open Access
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18 Citations (Scopus)
151 Downloads (Pure)

The spatial effect of protein deuteration on nitroxide spin-label relaxation: implications for EPR distance measurement

El Mkami, H., Ward, R., Bowman, A., Owen-Hughes, T. & Norman, D. G., Nov 2014, In : Journal of Magnetic Resonance . 248, p. 36-41 6 p.

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Open Access
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9 Citations (Scopus)
153 Downloads (Pure)

Xenopus Cdc7 executes its essential function early in S phase and is counteracted by checkpoint-regulated protein phosphatase 1

Poh, W. T., Chadha, G. S., Gillespie, P. J., Kaldis, P. & Blow, J. J., 8 Jan 2014, In : Open Biology. 4, January, 130138.

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Open Access
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20 Citations (Scopus)
121 Downloads (Pure)
2013

A comparison of in vitro nucleosome positioning mapped with chicken, frog and a variety of yeast core histones

Allan, J., Fraser, R. M., Owen-Hughes, T., Docherty, K. & Singh, V., 15 Nov 2013, In : Journal of Molecular Biology. 425, 22, p. 4206-4222 17 p.

Research output: Contribution to journalArticle

3 Citations (Scopus)

Analysis of human protein replacement stable cell lines established using snoMEN-PR vector

Ono, M., Yamada, K., Endo, A., Avolio, F. & Lamond, A. I., 25 Apr 2013, In : PLoS ONE. 8, 4, 12 p., e62305.

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Open Access
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6 Citations (Scopus)
99 Downloads (Pure)

A role for paralog-specific sumoylation in histone deacetylase 1 stability

Citro, S., Jaffray, E., Hay, R. T., Seiser, C. & Chiocca, S., 2013, In : Journal of Molecular Cell Biology. 5, 6, p. 416-427 12 p.

Research output: Contribution to journalArticle

26 Citations (Scopus)

Bod1 regulates protein phosphatase 2A at mitotic kinetochores

Porter, I., Schleicher, K., Porter, M. & Swedlow, J., 25 Oct 2013, In : Nature Communications. 4, 2677.

Research output: Contribution to journalArticle

42 Citations (Scopus)

BslA is a self-assembling bacterial hydrophobin that coats the Bacillus subtilis biofilm

Hobley, L., Ostrowski, A., Rao, F. V., Bromley, K. M., Porter, M., Prescott, A. R., Macphee, C. E., van Aalten, D. M. F. & Stanley-Wall, N. R., 13 Aug 2013, In : Proceedings of the National Academy of Sciences of the United States of America. 110, 33, p. 13600-13605 6 p.

Research output: Contribution to journalArticle

121 Citations (Scopus)

CENP-A confers a reduction in height on octameric nucleosomes

Miell, M. D. D., Barysz, H. M., Rappsilber, J., Allshire, R. C., Fuller, C. J., Straight, A. F., Guse, A., Downes, A. & Owen-Hughes, T., 2013, In : Nature Structural & Molecular Biology.

Research output: Contribution to journalArticle

37 Citations (Scopus)

Characterization of Native Protein Complexes and Protein Isoform Variation Using Size-fractionation-based Quantitative Proteomics

Kirkwood, K. J., Ahmad, Y., Larance, M. & Lamond, A. I., 1 Dec 2013, In : Molecular & Cellular Proteomics. 12, 12, p. 3851-3873 23 p.

Research output: Contribution to journalArticle

70 Citations (Scopus)

Cleaning up the masses: Exclusion lists to reduce contamination with HPLC-MS/MS

Hodge, K., Ten Have, S., Hutton, L. & Lamond, A. I., 2 Aug 2013, In : Journal of Proteomics. 88, p. 92-103 12 p.

Research output: Contribution to journalArticle

38 Citations (Scopus)

Clinical proteomics stretch goals: EuPA 2012 roundtable report

O'Neil, S. E., Palviainen, M. J., Ten Have, S., Filiou, M., Gonzalez, A., Hodge, K., Surinova, S., Penque, D. & Baker, M. S., 2 Aug 2013, In : Journal of Proteomics. 88, p. 37-40 4 p.

Research output: Contribution to journalArticle

2 Citations (Scopus)

Combinatorial regulation of meiotic holliday junction resolution in C. elegans by HIM-6 (BLM) helicase, SLX-4, and the SLX-1, MUS-81 and XPF-1 nucleases

Agostinho, A., Meier, B., Sonneville, R., Jagut, M., Woglar, A., Blow, J., Jantsch, V. & Gartner, A., 18 Jul 2013, In : PLoS Genetics. 9, 7, e1003591.

Research output: Contribution to journalArticle

53 Citations (Scopus)

Correlative imaging of fluorescent proteins in resin-embedded plant material

Bell, K., Mitchell, S., Paultre, D., Posch, M. & Oparka, K., Apr 2013, In : Plant Physiology. 161, 4, p. 1595-1603 9 p.

Research output: Contribution to journalArticle

41 Citations (Scopus)

Decoding the SUMO signal

Hay, R. T., Apr 2013, In : Biochemical Society Transactions. 41, 2, p. 463-473 11 p.

Research output: Contribution to journalArticle

69 Citations (Scopus)

Deficiency of terminal ADP-ribose protein glycohydrolase TARG1/C6orf130 in neurodegenerative disease

Sharifi, R., Morra, R., Appel, C. D., Tallis, M., Chioza, B., Jankevicius, G., Simpson, M. A., Matic, I., Ozkan, E., Golia, B., Schellenberg, M. J., Weston, R., Williams, J. G., Rossi, M. N., Galehdari, H., Krahn, J., Wan, A., Trembath, R. C., Crosby, A. H., Ahel, D. & 5 others, Hay, R., Ladurner, A. G., Timinszky, G., Williams, R. S. & Ahel, I., 2 May 2013, In : EMBO Journal. 32, 9, p. 1225-1237 13 p.

Research output: Contribution to journalArticle

152 Citations (Scopus)

Deregulated origin licensing leads to chromosomal breaks by rereplication of a gapped DNA template

Neelsen, K. J., Zanini, I. M. Y., Mijic, S., Herrador, R., Zellweger, R., Chaudhuri, A. R., Creavin, K., Blow, J. J. & Lopes, M., 1 Dec 2013, In : Genes and Development. 27, 23, p. 2537-2542 6 p.

Research output: Contribution to journalArticle

47 Citations (Scopus)

DNA-binding regulates site-specific ubiquitination of IRF-1

Landré, V., Pion, E., Narayan, V., Xirodimas, D. P. & Ball, K. L., 1 Feb 2013, In : Biochemical Journal. 449, 3, p. 707-717 11 p.

Research output: Contribution to journalArticle

13 Citations (Scopus)

Esperanto for histones: CENP-A, not CenH3, is the centromeric histone H3 variant

Earnshaw, W. C., Allshire, R. C., Black, B. E., Bloom, K., Salmon, E. D., Brinkley, B. R., Brown, W., Cheeseman, I. M., Choo, K. H. A., Copenhaver, G. P., DeLuca, J. G., Luger, K., Desai, A., Oegema, K., Cleveland, D. W., Diekmann, S., Erhardt, S., Fitzgerald-Hayes, M., Foltz, D., Fukagawa, T. & 37 others, Gassmann, R., Maiato, H., Gerlich, D. W., Glover, D. M., Gorbsky, G. J., Harrison, S. C., Heun, P., Hirota, T., Jansen, L. E. T., Karpen, G., Kops, G. J. P. L., Lampson, M. A., Lens, S. M., Losada, A., Maddox, P. S., Margolis, R. L., Masumoto, H., McAinsh, A. D., Mellone, B. G., O'Neill, R. J., Meraldi, P., Musacchio, A., Scott, K. C., Sullivan, B. A., Straight, A. F., Stukenberg, P. T., Sullivan, K. F., Sunkel, C. E., Swedlow, J. R., Walczak, C. E., Warburton, P. E., Westermann, S., Willard, H. F., Wordeman, L., Yanagida, M., Yen, T. J. & Yoda, K., 2013, In : Chromosome Research. 21, 2, p. 101-106 6 p.

Research output: Contribution to journalArticle

Open Access
27 Citations (Scopus)

FMN2 is a novel regulator of the cyclin-dependent kinase inhibitor p21

Yamada, K., Ono, M., Bensaddek, D., Lamond, A. I. & Rocha, S., 1 Aug 2013, In : Cell cycle (Georgetown, Tex.). 12, 15, p. 2348-2354 7 p.

Research output: Contribution to journalArticle

7 Citations (Scopus)

Global subcellular characterization of protein degradation using quantitative proteomics

Larance, M., Ahmad, Y., Kirkwood, K. J., Ly, T. & Lamond, A. I., Mar 2013, In : Molecular & Cellular Proteomics. 12, 3, p. 638-650 13 p.

Research output: Contribution to journalArticle

72 Citations (Scopus)

HIF-independent role of prolyl hydroxylases in the cellular response to amino acids

Durán, R. V., Mackenzie, E. D., Boulahbel, H., Frezza, C., Heiserich, L., Tardito, S., Bussolati, O., Rocha, S., Hall, M. N. & Gottlieb, E., 19 Sep 2013, In : Oncogene. 32, 38, p. 4549-4556 8 p.

Research output: Contribution to journalArticle

58 Citations (Scopus)

Identification and functional characterization of FMN2: a regulator of the cyclin-dependent kinase Inhibitor p21

Yamada, K., Ono, M., Perkins, N. D., Rocha, S. & Lamond, A. I., Mar 2013, In : Molecular Cell. 49, 5, p. 922-933 12 p.

Research output: Contribution to journalArticle

31 Citations (Scopus)

Insights into Diphthamide, key Diphtheria Toxin effector

Abdel-Fattah, W., Scheidt, V., Uthman, S., Stark, M. J. R. & Schaffrath, R., 3 May 2013, In : Toxins. 5, 5, p. 958-968 11 p.

Research output: Contribution to journalArticle

16 Citations (Scopus)

Kinetochores coordinate pericentromeric cohesion and early DNA replication by Cdc7-Dbf4 kinase recruitment

Natsume, T., Müller, C. A., Katou, Y., Retkute, R., Gierlinski, M., Araki, H., Blow, J. J., Shirahige, K., Nieduszynski, C. A. & Tanaka, T. U., 6 Jun 2013, In : Molecular Cell. 50, 5, p. 661-674 14 p.

Research output: Contribution to journalArticle

82 Citations (Scopus)

Locus-specific proteomics by TChP: targeted chromatin purification

Pourfarzad, F., Aghajanirefah, A., de Boer, E., Ten Have, S., Bryn van Dijk, T., Kheradmandkia, S., Stadhouders, R., Thongjuea, S., Soler, E., Gillemans, N., von Lindern, M., Demmers, J., Philipsen, S. & Grosveld, F., 15 Aug 2013, In : Cell Reports. 4, 3, p. 589-600 12 p.

Research output: Contribution to journalArticle

20 Citations (Scopus)

Mcm8 and Mcm9 form a dimeric complex in Xenopus laevis egg extract that is not essential for DNA replication initiation

Gambus, A. & Blow, J. J., 15 Apr 2013, In : Cell Cycle. 12, 8, p. 1225-1232 8 p.

Research output: Contribution to journalArticle

11 Citations (Scopus)

Mechanisms and functions of ATP-dependent chromatin-remodeling enzymes

Narlikar, G. J., Sundaramoorthy, R. & Owen-Hughes, T., 2013, In : Cell. 154, 3, p. 490-503 14 p.

Research output: Contribution to journalArticle

281 Citations (Scopus)

miR-132/212 knockout mice reveal roles for these miRNAs in regulating cortical synaptic transmission and plasticity

Remenyi, J., van den Bosch, M. W. M., Palygin, O., Mistry, R. B., McKenzie, C., Macdonald, A., Hutvagner, G., Arthur, J. S. C., Frenguelli, B. G. & Pankratov, Y., 26 Apr 2013, In : PLoS ONE. 8, 4, 14 p., e62509.

Research output: Contribution to journalArticle

89 Citations (Scopus)

Modification of Akt by SUMO conjugation regulates alternative splicing and cell cycle

Risso, G., Pelisch, F., Pozzi, B., Mammi, P., Blaustein, M., Colman-Lerner, A. & Srebrow, A., 2013, In : Cell Cycle. 12, 19, p. 3165-3174 10 p.

Research output: Contribution to journalArticle

11 Citations (Scopus)

Modulation of higher order chromatin conformation in mammalian cell nuclei can be mediated by polyamines and divalent cations

Visvanathan, A., Ahmed, K., Even-Faitelson, L., Lleres, D., Bazett-Jones, D. P. & Lamond, A. I., 2013, In : PLoS ONE. 8, 6, 16 p., e67689.

Research output: Contribution to journalArticle

34 Citations (Scopus)

PHD1 links cell-cycle progression to oxygen sensing through hydroxylation of the centrosomal protein Cep192

Moser, S. C., Bensaddek, D., Ortmann, B., Maure, J-F., Mudie, S., Blow, J. J., Lamond, A. I., Swedlow, J. R. & Rocha, S., 26 Aug 2013, In : Developmental Cell. 26, 4, p. 381-392 12 p.

Research output: Contribution to journalArticle

40 Citations (Scopus)

PICH: A DNA Translocase Specially Adapted for Processing Anaphase Bridge DNA

Biebricher, A., Hirano, S., Enzlin, J. H., Wiechens, N., Streicher, W. W., Huttner, D., Wang, L. H. C., Nigg, E. A., Owen-Hughes, T., Liu, Y., Peterman, E., Wuite, G. J. L. & Hickson, I. D., 12 Sep 2013, In : Molecular Cell. 51, 5, p. 691-701 11 p.

Research output: Contribution to journalArticle

50 Citations (Scopus)

Plant SILAC: stable-isotope labelling with amino acids of Arabidopsis seedlings for quantitative proteomics

Lewandowska, D., ten Have, S., Hodge, K., Tillemans, V., Lamond, A. I. & Brown, J. W. S., 20 Aug 2013, In : PLoS ONE. 8, 8, e72207.

Research output: Contribution to journalArticle

22 Citations (Scopus)

PROTEINCHALLENGE: Crowd sourcing in proteomics analysis and software development

Martin, S. F., Falkenberg, H., Dyrlund, T. F., Khoudoli, G. A., Mageean, C. J. & Linding, R., 2 Aug 2013, In : Journal of Proteomics. 88, p. 41-46 6 p.

Research output: Contribution to journalArticle

18 Citations (Scopus)