Search Publications

For the most up to date information on articles, books, conference papers and other research outputs, please check the Gene Regulations and Expression page on the University of Dundee Discovery Research Portal.

Below is a list of Featured Publications from 2015 to present. For a full list of all publications from 2008 onward please visit our page on the School of Life Sciences website.

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  • 2017
  • 2016
  • 2015

Madeira, F., Tinti, M., Murugesan, G., Berrett, E., Stafford, M., Toth, R., Cole, C., MacKintosh, C. and Barton, G. J

14-3-3-Pred: Improved methods to predict 14-3-3-binding phosphopeptides.

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PMID: 25735772 Abstract

Di Santo, R., Bandau, S. and Stark, M. J. R.

A conserved and essential basic region mediates tRNA binding to the Elp1 subunit of the Saccharomyces cerevisiaeElongator complex

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Mol Microbiol. 2014;92(6):1227-42. doi: 10.1111/mmi.12624

PMID: 24750273 Abstract

Makrantoni V, Ciesiolka A, Lawless C, Fernius J, Marston A, Lydall D, Stark MJR.

A Functional Link Between Bir1 and the Saccharomyces cerevisiae Ctf19 Kinetochore Complex Revealed Through Quantitative Fitness Analysis

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PMID: 28754723 Abstract

Maculins, T., Carter, N., Dorval, T., Hudson, K., Nissink, J. W., Hay, R. T. and Alwan, H.

A Generic Platform for Cellular Screening Against Ubiquitin Ligases

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PMID: 26743172 Abstract

Gorski, J.J., Pathak, S., Panov, K., Kasciukovic, T., Panova, T., Russell, J. and Zomerdijk, J.C.B.M. (2007).

A novel TBP-associated factor of SL1 functions in RNA polymerase I transcription.

EMBO J. 26, 1560-1568

Tatham, M. H., Cole, C., Scullion, P., Wilkie, R., Westwood, N. J., Stark, L. A. and Hay, R. T

A Proteomic Approach to Analyze the Aspirin-mediated Lysine Acetylome. Molecular & cellular proteomics

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PMID: 27913581 Abstract

Ly T, Ahmad Y, Shlien A, Soroka D, Mills A, Emanuele MJ, Stratton MR, Lamond AI

A proteomic chronology of gene expression through the cell cycle in human myeloid leukemia cells

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eLife. 2014;3:e01630. doi: 10.7554/eLife.0163

PMID: 24596151 Abstract

Aguilar-Martinez, E., Chen, X., Webber, A., Mould, A. P., Seifert, A., Hay, R. T. and Sharrocks, A. D

A screen for multi-SUMO binding proteins reveals a multi-SIM binding mechanism for reruitment of ZMYM2 to chromatin

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PMID: 26283374 Abstract

Pelisch, F., Tammsalu, T., Wang, B., Jaffray, E. G., Gartner, A. and Hay, R. T

A SUMO-Dependent Protein Network Regulates Chromosome Congression during Oocyte Meiosis. Molecular cell

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PMID: 27939944 Abstract

Raich, L., Borodkin, V., Fang, W., Castro-Lopez, J., van Aalten, D. M., Hurtado-Guerrero, R. and Rovira, C

A Trapped Covalent Intermediate of a Glycoside Hydrolase on the Pathway to Transglycosylation. Insights from Experiments and Quantum Mechanics/Molecular Mechanics Simulations.

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PMID: 26859322 Abstract

Ward, J., Cole, C., Febrer, M. and Barton, G.

Almost Significant: simplifying quality control of high-throughput sequencing data

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PMID: 27559158 Abstract

Masuzzo, P., Martens, L., Cell Migration Workshop, P., Ampe, C., Anderson, K. I., Barry, J., De Wever, O., Debeir, O., Decaestecker, C., Dolznig, H., Friedl, P., Gaggioli, C., Geiger, B., Goldberg, I. G., Horn, E., Horwitz, R., Kam, Z., Le Devedec, S. E., Vignjevic, D. M., Moore, J., Olivo-Marin, J. C., Sahai, E., Sansone, S. A., Sanz-Moreno, V., Stromblad, S., Swedlow, J., Textor, J., Van Troys, M. and Zantl, R

An open data ecosystem for cell migration research.

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PMID: 25484346 Abstract

Sloan, E., Tatham, M. H., Groslambert, M., Glass, M., Orr, A., Hay, R. T. and Everett, R. D

Analysis of the SUM02 proteome during HSV-1 infection.

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PMID: 26200910 Abstract

Gonzalez, A. E., Munoz, V. C., Cavieres, V. A., Bustamante, H. A., Cornejo, V. H., Januario, Y. C., Gonzalez, I., Hetz, C., daSilva, L. L., Rojas-Fernandez, A., Hay, R. T., Mardones, G. A. and Burgos, P. V.

Autophagosomes cooperate in the degradation of intracellular C-terminal fragments of the amyloid precursor protein via the MVB/lysosomal pathway

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PMID: 28254759 Abstract

Esmaeeli-Nieh, S., Fenckova, M., Porter, I. M., Motazacker, M. M., Nijhof, B., Castells-Nobau, A., Asztalos, Z., Weißmann, R., Behjati, F., Tzschach, A., Felbor, U., Scherthan, H., Sayfati, S. M., Ropers, H. H., Kahrizi, K., Najmabadi, H., Swedlow, J. R., Schenck, A. and Kuss, A. W

BOD1 Is Required for Cognitive Function in Humans and Drosophila

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PMID: 27166630 Abstract

Fernandez-Alonso, R., Davidson, L., Hukelmann, J., Zengerle, M., Prescott, A. R., Lamond, A. I., Ciulli, A., Sapkota, G. P. and Findlay, G. M

Brd4-Brd2 isoform switching coordinates pluripotent exit and Smad2-dependent lineage specification

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PMID: 28588073 Abstract

Meier B, Cooke SL, Weiss J, Bailly AP, Alexandrov LB, Marshall J, Raine K, Maddison M, Anderson E, Stratton MR, Gartner A*, Campbell PJ.

C. elegans whole genome sequencing reveals mutational signatures related to carcinogens and DNA repair deficiency.

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Genome research. 2014. doi: 10.1101/gr.175547.114. [Epub ahead of print] *Co-corresponding author

PMID: 4199376 Abstract

Aregger, M., Kaskar, A., Varshney, D., Fernandez-Sanchez, M. E., Inesta-Vaquera, F. A., Weidlich, S. and Cowling, V. H

CDK1-Cyclin B1 Activates RNMT, Coordinating mRNA Cap Methylation with G1 Phase Transcription

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PMID: 26942677 Abstract

Gillespie, P.J., Neusiedler, J., Creavin, K. and Blow, J.J

Cell cycle synchronization in Xenpous egg extracts.

PMID: 26254920 Abstract

Bremm, A., Moniz, S., Mader, J., Rocha, S., and Komander, D.

Cezanne (OTUD7B) regulates HIF-1alpha homeostasis in a proteasome-independent manner

EMBO Rep.15, 1268-1277.

Moniz, S., Bandarra, D., Biddlestone, J., Campbell, K. J., Komander, D., Bremm, A. and Rocha, S

Cezanne regulates E2F1-dependent HIF-2alpha expression

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PMID: 26148512 Abstract

Kirkwood, K.J., Ahmad, Y., Larance, M. and Lamond, A.I.

Characterization of native protein complexes and protein isoform variation using size-fractionation-based quantitative proteomics

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Mol Cell Proteomics. 2013;12(12):3851-73. doi: 10.1074/mcp.M113.032367

PMID: 24043423 Abstract

Alabert C and Groth A

Chromatin replication and epigenome maintenance

Nature Review Mol Cell Biol.13, 153-167.

Agostinho A, Meier B, Sonneville R, Jagut M, Woglar A, Blow J, Jantsch V, Gartner A.

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

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PLoS Genet. 2013;9(7):e1003591. doi: 10.1371/journal.pgen.1003591. PubMed PMID: 23901331; PubMed Central

PMID: 3715425 Abstract

Agostinho A, Meier B, Sonneville R, Jagut M, Woglar A, Blow J, Jantsch V, Gartner A.

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

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Molecular Cell (accepted for publication)

Shlien, A., Campbell, B. B., de Borja, R., Alexandrov, L. B., Merico, D., Wedge, D., Van Loo, P., Tarpey, P. S., Coupland, P., Behjati, S., Pollett, A., Lipman, T., Heidari, A., Deshmukh, S., Avitzur, N., Meier, B., Gerstung, M., Hong, Y., Merino, D. M., Ramakrishna, M., Remke, M., Arnold, R., Panigrahi, G. B., Thakkar, N. P., Hodel, K. P., Henninger, E. E., Goksenin, A. Y., Bakry, D., Charames, G. S., Druker, H., Lerner-Ellis, J., Mistry, M., Dvir, R., Grant, R., Elhasid, R., Farah, R., Taylor, G. P., Nathan, P. C., Alexander, S., Ben-Shachar, S., Ling, S. C., Gallinger, S., Constantini, S., Dirks, P., Huang, A., Scherer, S. W., Grundy, R. G., Durno, C., Aronson, M., Gartner, A., Meyn, M. S., Taylor, M. D., Pursell, Z. F., Pearson, C. E., Malkin, D., Futreal, P. A., Stratton, M. R., Bouffet, E., Hawkins, C., Campbell, P. J., Tabori, U. and Biallelic Mismatch Repair Deficiency, C

Combined hereditary and somatic mutations of replication error repair genes result in rapid onset of ultra hypermutated cancers.

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PMID: 25642631 Abstract

Kilpinen, H., Goncalves, A., Leha, A., Afzal, V., Alasoo, K., Ashford, S., Bala, S., Bensaddek, D., Casale, F. P., Culley, O. J., Danecek, P., Faulconbridge, A., Harrison, P. W., Kathuria, A., McCarthy, D., McCarthy, S. A., Meleckyte, R., Memari, Y., Moens, N., Soares, F., Mann, A., Streeter, I., Agu, C. A., Alderton, A., Nelson, R., Harper, S., Patel, M., White, A., Patel, S. R., Clarke, L., Halai, R., Kirton, C. M., Kolb-Kokocinski, A., Beales, P., Birney, E., Danovi, D., Lamond, A. I., Ouwehand, W. H., Vallier, L., Watt, F. M., Durbin, R., Stegle, O. and Gaffney, D. J

Common genetic variation drives molecular heterogeneity in human iPSCs

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PMID: 28489815 Abstract

Offenburger, S. L., Bensaddek, D., Murillo, A. B., Lamond, A. I. and Gartner, A

Comparative genetic, proteomic and phosphoproteomic analysis of C. elegans embryos with a focus on ham-1/STOX and pig-1/MELK in dopaminergic neuron development

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PMID: 28659600 Abstract

Renshaw MJ, Ward JJ, Kanemaki M, Natsume K, Nedelec FJ & Tanaka TU

Condensins promote chromosome recoiling during early anaphase to complete sister chromatid separation

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Developmental Cell 19, (2) 232-24

PMID: 20708586 Abstract

Liu, Y., Freeman, A. D., Declais, A. C., Wilson, T. J., Gartner, A. and Lilley, D. M

Crystal structure of a eukaryotic GEN1 resolving enzyme bound to DNA

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PMID: 26686639 Abstract

Sonneville, R., Moreno, S. P., Knebel, A., Johnson, C., Hastie, C. J., Gartner, A., Gambus, A. and Labib, K

CUL-2LRR-1 and UBXN-3 drive replisome disassembly during DNA replication termination and mitosis. Nature cell biology

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PMID: 28368371 Abstract

Alabert C, Bianco JN, Pasero P

Differential regulation of homologous recombination at DNA breaks and replication forks by the Mrc1 branch of the S-phase checkpoint.

EMBO J. 28, 1131-41.

Benatti, P., Belluti, S., Miotto, B., Neusiedler, J., Dolfini, D., Drac, M., Basile, V., Schwob, E., Mantovani, R., Blow, J. J. and Imbriano, C

Direct non transcriptional role of NF-Y in DNA replication

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PMID: 26732297 Abstract

Sherstnev, A., Duc, C., Cole, C., Zacharaki, V., Hornyik, C., Ozsolak, F., Milos, P.M., Barton G.J., and Simpson, G.G.

Direct sequencing of Arabidopsis thaliana RNA reveals patterns of cleavage and polyadenylation.

Nat Struct Mol Biol, 2012. 19(8): p. 845-52.

Sherstnev, A., Duc, C., Cole, C., Zacharaki, V., Hornyik, C., Ozsolak, F., Milos, P. M., Barton, G. J**.and Simpson, G. G.

Direct sequencing of Arabidopsis thaliana RNA reveals patterns of cleavage and polyadenylation.

Nature Structural & Molecular Biology 19: 845-852.

Kobayashi, N., Suzuki, Y., Schoenfeld, L. W., Muller, C. A., Nieduszynski, C., Wolfe, K. H. and Tanaka, T. U

Discovery of an unconventional centromere in budding yeast redefines evolution of point centromeres

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PMID: 26166782 Abstract

Sun, Y., George, J. and Rocha, S

Dose-dependent effects of allopurinol on human foreskin fibroblast cells and human umbilical vein endothelial cells under hypoxia

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PMID: 25830774 Abstract

Mariappa, D., Zheng, X., Schimpl, M., Raimi, O., Ferenbach, A.T., Mueller, H.A.J. and van Aalten ,D.M.F

Dual functionality of O-GlcNAc transferase is required for Drosophila development

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PMID: 26674417 Abstract

Ackermann, L., Schell, M., Pokrzywa, W., Kevei, E., Gartner, A. and Schumacher, B

E4 ligase-specific ubiquitination hubs coordinate DNA double-strand-break repair and apoptosis

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PMID: 27669035 Abstract

Makrantoni, V. and Stark, M. J. R.

Efficient chromosome bi-orientation and the tension checkpoint in Saccharomyces cerevisiae both require Bir1

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Molecular and Cellular Biology. 29, (16) 4552-4562

PMID: 19528231 Abstract

Ono, M., Yamada, K., Bensaddek, D., Afzal, V., Biddlestone, J., Ortmann, B., Mudie, S., Boivin, V., Scott, M. S., Rocha, S. and Lamond, A. I

Enhanced snoMEN Vectors Facilitate Establishment of GFP-HIF-1alpha Protein Replacement Human Cell Lines

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PMID: 27128805 Abstract

Fennessy, R. T. and Owen-Hughes, T

Establishment of a promoter-based chromatin architecture on recently replicated DNA can accommodate variable inter-nucleosome spacing

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PMID: 27106059 Abstract

Bensaddek, D., Nicolas, A. and Lamond, A. I

Evaluating the use of HILIC in large-scale, multi dimensional proeromics: Horses for courses?

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PMID: 26869852 Abstract

Schurch, N.J., Schofield, P., Gierlinski, M., Cole, C., Sherstnev, A., Singh, V., Wrobel, N., Gharbi, K., Simpson, G.G., Owen-Huges, T., Blaxter, M. and Barton, G.J

Evaluation of tools for differential gene expression analysis by RNA-seq on a 48 biological replicate experiment.

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. and Zomerdijk, J.C.B.M. (2009)

FACT facilitates chromatin transcription by RNA polymerases I and III.

EMBO J.28, 854-865.

Yamada, K., Ono, M., Bensaddek, D., Lamond, A.I. and Rocha, S.

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

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Cell Cycle. 2013;12(15):2348-54. doi: 10.4161/cc.25511

PMID: 23839046 Abstract

Larance, M., Kirkwood, K. J., Tinti, M., Brenes Murillo, A., Ferguson, M. A. and Lamond, A. I

Global Membrane Protein Interactome Analysis using In vivo Crosslinking and Mass Spectrometry-based Protein Correlation Profiling

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PMID: 27114452 Abstract

Domingues, P., Golebiowski, F., Tatham, M. H., Lopes, A. M., Taggart, A., Hay, R. T. and Hale, B. G

Global Reprogramming of Host SUMOylation during Influenza Virus Infection

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PMID: 26549460 Abstract

Swamy, M., Pathak, S., Grzes, K. M., Damerow, S., Sinclair, L. V. and van Aalten, D. M.

Glucose and glutamine fuel protein O-GlcNAcylation to control T cell self-renewal and malignancy

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PMID: 27111141 Abstract

GWAS for executive function and processing speed suggests involvement of the CADM2 gene

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PMID: 25869804 Abstract

Bandarra, D., Biddlestone, J., Mudie, S., Muller, H. A. and Rocha, S

HIF-1α restricts NF-κB-dependent gene expression to control innate immunity signals

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PMID: 25510503 Abstract

Dickerson, D., Gierlinski, M., Singh, V., Kitamura, E., Ball, G., Tanaka, T. U. and Owen-Hughes, T

High resolution imaging reveals heterogeneity in chromatin states between cells that is not inherited through cell division

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PMID: 27609610 Abstract

Hauer, M. H., Seeber, A., Singh, V., Thierry, R., Sack, R., Amitai, A., Kryzhanovska, M., Eglinger, J., Holcman, D., Owen-Hughes, T. and Gasser, S. M

Histone degradation in response to DNA damage enhances chromatin dynamics and recombination rates

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PMID: 28067915 Abstract

Schurch, N. J., Schofield, P., Gierliński, M., Cole, C., Sherstnev, A., Singh, V., Wrobel, N., Gharbi, K., Simpson, G. G., Owen-Hughes, T., Blaxter, M. and Barton, G. J

How many biological replicates are needed in an RNA-seq experiment and which differential expression tool should you use?

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PMID: 27022035 Abstract

Young, D. F., Andrejeva, J., Li, X., Inesta-Vaquera, F., Dong, C., Cowling, V. H., Goodbourn, S. and Randall, R. E.

Human IFIT1 Inhibits mRNA Translation of Rubulaviruses but Not Other Members of the Paramyxoviridae Family.

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PMID: 27512068 Abstract

Hiraga, S. I., Ly, T., Garzon, J., Horejsi, Z., Ohkubo, Y. N., Endo, A., Obuse, C., Boulton, S. J., Lamond, A. I. and Donaldson, A. D

Human RIF1 and protein phosphatase 1 stimulate DNA replication origin licensing but suppress origin activation

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PMID: 28077461 Abstract

Shire, K., Wong, A. I., Tatham, M. H., Anderson, O. F., Ripsman, D., Gulstene, S., Moffat, J., Hay, R. T. and Frappier, L.

Identification of RNF168 as a PML nuclear body regulator

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PMID: 26675234 Abstract

Schurch, N.J., Cole, C., Sherstnev, A., Song, J., Duc, C., Storey, K.G., McLean, W.H., Brown, S.J., Simpson, G.G., and Barton, G.J.

Improved annotation of 3′ untranslated regions and complex loci by combination of strand-specific direct RNA sequencing, RNA-Seq and ESTs.

PLoS One, 2014. 9(4): p. e94270.

Singh, R., Lawal, H. M., Schilde, C., Gloeckner, G., Barton, G. J., Schaap, P. and Cole, C

Improved Annotation with de novo Transcripome Assembly in Four Social Amoeba Species

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PMID: 28143409 Abstract

Falbo K*, Alabert C*, Katou Y§, Wu S, Han J, Wehr T, Xiao J, He X, Zhang Z, Shi Y, Shirahige K, Pasero P, Shen X

Involvement of a chromatin-remodelling complex in damage tolerance during DNA replication

Nat Struct Mol Biol.16, 1167-1172.

Teresa Pinto, A., Laranjeiro Pinto, M., Patricia Cardoso, A., Monteiro, C., Teixeira Pinto, M., Filipe Maia, A., Castro, P., Figueira, R., Monteiro, A., Marques, M., Mareel, M., Dos Santos, S. G., Seruca, R., Adolfo Barbosa, M., Rocha, S. and Jose Oliveira, M

Ionizing radiation modulates human macrophages towards a pro-inflammatory phenotype preserving their pro-invasive and pro-angiogenic capacities

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PMID: 26735768 Abstract

Gandhi, S. R., Gierlinski, M., Mino, A., Tanaka, K., Kitamura, E., Clayton, L. and Tanaka, T. U.

Kinetochore-dependent microtubule rescue ensures their efficient and sustained interactions in early mitosis

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Dev Cell, 21, 920-33

PMID: 22075150 Abstract

Kalantzaki, M., Kitamura, E., Zhang, T., Mino, A., Novak, B. and Tanaka, T. U

Kinetochore-microtubule error correction is driven by differentially regulated interaction modes

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PMID: 25751138 Abstract

Natsume T, Muller CA, Katou Y, Retkute R, Gierlinski M, Araki H, Blow JJ, Shirahige K, Nieduszynski CA, Tanaka TU

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

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Mol Cell. 2013;50(5):661-74. doi: 10.1016/j.molcel.2013.05.011

PMID: 23746350 Abstract

Kitamura E*, Tanaka K*, Komoto S*, Kitamura Y, Antony C & Tanaka TU

Kinetochores generate microtubules with distal plus ends: their roles and limited lifetime in mitosis

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Developmental Cell 18, (2) 248-259

PMID: 20159595 Abstract

Maure, J. F., Moser, S. C., Jaffray, E. G., A, F. A. and Hay, R. T

Loss of ubiquitin E2 Ube2w rescues hypersensitivity of Rnf4 mutant cells to DNA damage

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PMID: 27185577 Abstract

Narlikar GJ, Sundaramoorthy R, Owen-Hughes T

Mechanisms and functions of ATP-dependent chromatin-remodeling enzymes.

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Cell. 154, 490-503 doi. 10.1016/j.cell.2013.07.011

PMID: 23911317 Abstract

Yue, Z., Komoto, S., Gierlinski, M., Pasquali, D., Kitamura, E. and Tanaka, T. U.

Mechanisms mitigating problems with multiple kinetochores on one microtubule in early mitosis

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PMID: 28546446 Abstract

Bensaddek, D., Narayan, V., Nicolas, A., Murillo, A. B., Gartner, A., Kenyon, C. J. and Lamond, A. I

Micro‐proteomics with iterative data analysis: Proteome analysis in C. elegans at the single worm level

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PMID: 26552604 Abstract

Varshney, D., Petit, A. P., Bueren-Calabuig, J. A., Jansen, C., Fletcher, D. A., Peggie, M., Weidlich, S., Scullion, P., Pisliakov, A. V. and Cowling, V. H

Molecular basis of RNA guanine-7 methyltransferase (RNMT) activation by RAM

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PMID: 27422871 Abstract

Vasileva, V., Gierlinski, M., Yue, Z., O’Reilly, N., Kitamura, E. and Tanaka, T. U

Molecular mechanisms facilitating the initial kinetochore encounter with spindle microtubules

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PMID: 28446512 Abstract

Grasso, L., Suska, O., Davidson, L., Gonatopoulos-Pournatzis, T., Williamson, R., Wasmus, L., Wiedlich, S., Peggie, M., Stavridis, M. P. and Cowling, V. H

mRNA Cap Methylation in Pluripotency and Differentiation

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PMID: 27452456 Abstract

Harvald, E. B., Sprenger, R. R., Dall, K. B., Ejsing, C. S., Nielsen, R., Mandrup, S., Murillo, A. B., Larance, M., Gartner, A., Lamond, A. I. and Faergeman, N. J.

Multi-omics Analyses of Starvation Responses Reveal a Central Role for Lipoprotein Metabolism in Acute Starvation Survival in C. elegans

PMID: 28734827 Abstract

Selvan, N., Williamson, R., Mariappa, D., Campbell, D.G., Gourlay, R., Ferenbach, A.T., Aristotelous, T., Hopkins-Navratilova, I., Trost, M and van Aalten, D.M.F.

Native enrichment of the Drosophila O-GlcNAc proteome reveals candidate conveyors of the supersex combs phenotype

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PMID: 28604694 Abstract

Trapannone, R., Mariappa, D., Ferenbach, A. T. and van Aalten, D. M

Nucleocytoplasmic human O-GlcNAc transferase is sufficient for O-GlcNAcylation of mitochondrial proteins

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PMID: 27048592 Abstract

M. Schimpl, X. Zheng, V.S. Borodkin, D.E. Blair, A.T. Ferenbach, A.W. Schuettelkopf, I. Navratilova, T. Aristotelous, O. Albarbarawi, D.A. Robinson, M.A. MacNaughtan and D.M.F. van Aalten,

O-GlcNAc transferase invokes nucleotide sugar pyrophosphate participation in catalysis

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Nature Chem.Biol. (2012), 8, 969-974.

PMID: 23103942 Abstract

S. Pathak, V.S. Borodkin, O. Albarbarawi, D.G. Campbell, A. Ibrahim and D.M.F. van Aalten

O-GlcNAcylation of TAB1 modulates TAK1-mediated cytokine release

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MBO J. (2012), 31, 1394-1404.

PMID: 22307082 Abstract

Leigh, R., Gault, D., Linkert, M., Burel, J-M., Moore, J., Besson, S. and Swedlow, J.R.

OME Files – An open source reference library for the OME-XML metadata model and the OME-TIFF file format

Moore, J., Linkert, M., Blackburn, C., Carroll, M., Ferguson, R.K., Flynn, H., Gilen, K., Leigh, R., Li, S.,, Lindner, D., Moore, W.J. Patterson, A.J. Pindelski, B., Ramalingham, B., Rozbicki, E., Tarkowska, A., Walczyko, P., Allan, C., Burel, J-M. and Swedlow, J

OMERO and Bio-Formats 5: flexible access to large bioimaging datasets at scale

Moser, S.C., Bensaddek, D., Ortmann, B., Mudie, S., Blow, J.J., Lamond, A.I., Swedlow, J.R., and Rocha, S.

PHD1 links cell cycle progression to oxygen sensing by hydroxylation of the centrossomal protein Cep192

Dev Cell.26, 381-392.

Abdel-Fattah, W., Jablonowski, D., Di Santo, R., Thuring, K. L., Scheidt, V., Hammermeister, A., Ten Have, S., Helm, M., Schaffrath, R. and Stark, M. J.

Phosphorylation of Elp1 by Hrr25 is required for Elongator-dependent tRNA modification in yeast

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PMID: 25569479 Abstract

Makrantoni, V., Corbishley, S. J.,Rachidi, N.,Morrice, N. A., Robinson, D. A. and Stark, M. J. R.

Phosphorylation of Sli15 by Ipl1 is important for proper CPC localization and chromosome stability in Saccharomyces cerevisiae

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PLoS One. 2014;9(2):e89399. doi: 10.1371/journal.pone.0089399

PMID: 24558497 Abstract

Wimmer,P., Berscheminski, J., Blanchette, P., Groitl, P., Branton, P.E. Hay, R.T. Dobner, T. and Schreiner, S.

PML isoforms IV and V contribute to adenovirus-mediated oncogenic transformation by functionally inhibiting the tumor-suppressor

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PMID: 25772236 Abstract

Kapuria, V., Rohrig, U. F., Bhuiyan, T., Borodkin, V. S., van Aalten, D. M., Zoete, V. and Herr, W

Proteolysis of HCF-1 by Ser/Thr glycosylation-incompetent O-GlcNAc transferase:UDP-GlcNAc complexes

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Proteotoxic stress reprograms the chromatin landscape of SUMO modification.

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Reversal of DDK-Mediated MCM Phosphorylation by Rif1-PP1 Regulates Replication Initiation and Replisome Stability Independently of ATR/Chk1

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Structural reorganization of the chromatin remodeling enzyme Chd1 upon engagement with nucleosomes

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SUMO chain-induced dimerization activates RNF4

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TAF1B is a TFIIB-like component of the basal transcription machinery for RNA Polymerase I.

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Targeted knock-down of miR21 primary transcripts using snoMEN vectors induces apoptosis in human cancer cell lines.

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Targeting of SUMO substrates to a Cdc48-Ufd1-Npl4 segregase and STUbL pathway in fission yeast

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The active site of O-GlcNAc transferase imposes constraints on substrate sequence

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The amidation step of diphthamidebiosynthesis in yeast requires DPH6, a gene identified through mining the DPH1-DPH5interaction network

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The Caenorhabtidis elegans homolog of Gen1/Yen1 resolvases links DNA damage signaling to DNA double-strand break repair.

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The Chromatin Assembly Factor Complex 1 (CAF1) and 5-Azacytidine (5-AzaC) Affect Cell Motility in Src-transformed Human Epithelial Cells

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The Chromatin Remodelling Enzymes SNF2H and SNF2L Position Nucleosomes adjacent to CTCF and Other Transcription Factors

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The cytotoxic T cell proteome and its shaping by mammalian target of rapamycin.

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The Helicase Aquarius/EMB-4 Is Required to Overcome Intronic Barriers to Allow Nuclear RNAi Pathways to Heritably Silence Transcription

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The histone chaperone Vps75 forms multiple oligomeric assemblies capable of mediating exchange between histone H3–H4 tetramers and Asf1–H3–H4 complexes

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The Image Data Resource: A Scalable Platform for Biological Image Data Access, Integration, and Dissemination

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The Ndc80 loop region facilitates formation of kinetochore attachment to the dynamic microtubule plus end

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The NEDD8 inhibitor MLN4924 increases the size of the nucleous and activates p53 through the ribolsomal-Mdm2 pathway.

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The SMC-5/6 Complex and the HIM-6 (BLM) helicase synergistically promote meiotic recombination intermediate processing and chromosome maturation during Caenorhabditis elegans meiosis.

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The spen family protein, FPA, controls alternative cleavage and polyadenylation of RNA.

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Tools to Study SUMO Conjugation in Caenorhabditis elegans

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Ubiquitin C-terminal hydrolases cleave isopeptide and peptide-linked ubiquitin from structured proteins but do not edit ubiquitin homopolymers.

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Ubiquitin Receptor Protein UBASH3B Drives Aurora B Recruitment to Mitotic Microtubules

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Ufd1-Npl4 Recruit Cdc48 for Disassembly of Ubiquitylated CMG Helicase at the End of Chromosome Replication

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Unreplicated DNA remaining from unperturbed S phases passes through mitosis for resolution in daughter cells

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Urmylation and tRNA thiolation functions of ubiquitin-like Uba4Urm1 systems are conserved from yeast to man

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Use of a yeast tRNase killer toxin to diagnose Kti12 motifs required for tRNA modification by Elongator

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

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Xenopus Mcm10 is a CDK-substrate required for replication fork stability

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