University of Dundee

Gene Regulation and Expression 2018

Alabert C, Jasencakova Z, Groth A. 2018. Chromatin Replication and Histone Dynamics. Masai H, Foiani M, editors. In DNA Replication : From Old Principles to New Discoveries. Singapore: Springer Nature. pp. 311-333. (Advances in Experimental Medicine and Biology). Available from: 10.1007/978-981-10-6955-0_15

Barini E, Miccoli A, Tinarelli F, Mulholland K, Kadri H, Khanim F, Stojanovski L, Read KD, Burness K, Blow JJ, Mehellou Y, Muqit MMK. 2018. The Anthelmintic Drug Niclosamide and Its Analogues Activate the Parkinson's Disease Associated Protein Kinase PINK1. ChemBioChem. 19(5):425-429. Available from: 10.1002/cbic.201700500

Biddlestone J, Batie M, Bandarra D, Munoz I, Rocha S. 2018. SINHCAF/FAM60A and SIN3A specifically repress HIF 2α expression. Biochemical Journal. Available from: 10.1042/BCJ20170945

Borodkin VS, Rafie K, Selvan N, Aristotelous T, Navratilova I, Ferenbach AT, Van Aalten DMF. 2018. O-GlcNAcase Fragment Discovery with Fluorescence Polarimetry. ACS Chemical Biology. 13(5):1353-1360. Available from: 10.1021/acschembio.8b00183

Brenes Murillo A, Afzal V, Kent R, Lamond A. 2018. The Encyclopedia of Proteome Dynamics – A big data ecosystem for (prote)omics. Nucleic Acids Research. 46(D1):D1202-D1209. Available from: 10.1093/nar/gkx807

Bustos F, Segarra Fas A, Chaugule VK, Brandenburg L, Branigan E, Toth R, Macartney T, Knebel A, Hay R, Walden H, Findlay G. 2018. RNF12 X-linked intellectual disability mutations disrupt E3 ligase activity and neural differentiation. Cell Reports. 23:1599-1611. Available from: 10.1016/j.celrep.2018.04.022

Crozier TWM, Tinti M, Wheeler RJ, Ly T, Ferguson MAJ, Lamond AI. 2018. Proteomic analysis of the cell cycle of procylic form Trypanosoma brucei. Molecular & Cellular Proteomics. 17:1184-1195. Available from: 10.1074/mcp.RA118.000650

Delso I, Valero-Gonzalez J, Gomollón-Bel F, Castro-López J, Fang W, Navratilova I, van Aalten DMF, Tejero T, Merino P, Hurtado-Guerrero R. 2018. Inhibitors against Fungal Cell Wall Remodeling Enzymes. ChemMedChem. 13(2):128-132. Available from: 10.1002/cmdc.201700720

Ghirardello M, Perrone D, Chinaglia N, Sádaba D, Delso I, Tejero T, Marchesi E, Fogagnolo M, Rafie K, van Aalten DMF, Merino P. 2018. UDP-GlcNAc Analogues as Inhibitors of O-GlcNAc Transferase (OGT): Spectroscopic, Computational, and Biological Studies. Chemistry: a European Journal. 24(28):7264-7272. Available from: 10.1002/chem.201801083

Gray KM, Kaifer KA, Baillat D, Wen Y, Bonacci TR, Ebert AD, Raimer AC, Spring AM, Have ST, Glascock JJ, Gupta K, Van Duyne GD, Emanuele MJ, Lamond AI, Wagner EJ, Lorson CL, Matera AG. 2018. Self-oligomerization regulates stability of survival motor neuron protein isoforms by sequestering an SCFSlmb degron. Molecular Biology of the Cell. 29(2):96-110. Available from: 10.1091/mbc.E17-11-0627

Gundogdu M, Llabres S, Gorelik A, Ferenbach A, Zachariae U, Van Aalten D. 2018. The O-GlcNAc Transferase Intellectual Disability Mutation L254F Distorts the TPR Helix. Cell Chemical Biology. 25:1-6. Available from: 10.1016/j.chembiol.2018.03.004

Hong Y, Sonneville R, Wang B, Scheidt V, Meier B, Woglar A, Demetriou S, Labib K, Jantsch V, Gartner A. 2018. LEM-3 is a midbody-tethered DNA nuclease that resolves chromatin bridges during late mitosis. Nature Communications. 9:1-11. Available from: 10.1038/s41467-018-03135-w

Hong Y, Velkova M, Silva N, Jagut M, Scheidt V, Labib K, Jantsch V, Gartner A. 2018. The conserved LEM-3/Ankle1 nuclease is involved in the combinatorial regulation of meiotic recombination repair and chromosome segregation in Caenorhabditis elegans. PLoS Genetics. 14(6):1-22. Available from: 10.1371/journal.pgen.1007453

Inesta-Vaquera F, Chaugule VK, Galloway A, Chandler L, Rojas-Fernandez A, Weidlich S, Peggie M, Cowling V. 2018. DHX15 regulates CMTR1-dependent gene expression and cell proliferation. Life Science Alliance.

Jantsch M, Quattrone A, O'Connell M, Helm M, Frye M, Macias-Gonzales M, Ohman M, Ameres S, Willems L, Fuks F, Oulas A, Vanacova S, Nielsen H, Bousquet-Antonelli C, Motorin Y, Roignant J-Y, Balatsos N, Dinnyes A, Baranov P, Kelly V, Lamm A, Rechavi G, Pelizzola M, Liepins J, Holodnuka Kholodnyuk I, Zammit V, Ayers D, Drablos F, Dahl JA, Bujnicki J, Jeronimo C, Almeida R, Neagu M, Costache M, Bankovic J, Banovic B, Kyselovic J, Valor LM, Selbert S, Pir P, Demircan T, Cowling V, Schäfer M, Rossmanith W, Lafontaine D, David A, Carre C, Lyko F, Schaffrath R, Schwartz S, Verdel A, Klungland A, Purta E, Timotijevic G, Cardona F, Davalos A, Ballana E, O Carroll D, Ule J, Fray R. 2018. Positioning Europe for the EPITRANSCRIPTOMICS challenge. RNA Biology. 1-8. Available from: 10.1080/15476286.2018.1460996

Jonik-Nowak B, Menneteau T, Fesquet D, Baldin V, Bonne-Andrea C, Méchali F, Fabre B, Boisguerin P, de Rossi S, Henriquet C, Pugnière M, Ducoux-Petit M, Burlet-Schiltz O, Lamond A, Fort P, Boulon S, Bousquet M-P, Coux O. 2018. PIP30/FAM192A is a novel regulator of the nuclear proteasome activator PA28γ. Proceedings of the National Academy of Sciences of the United States of America. Available from: 10.1073/pnas.1722299115

Liakath-Ali K, Mills EW, Sequeira I, Lichtenberger BM, Pisco AO, Sipilä KH, Mishra A, Yoshikawa H, Wu CC-C, Ly T, Lamond AI, Adham IM, Green R, Watt FM. 2018. An evolutionarily conserved ribosome-rescue pathway maintains epidermal homeostasis. Nature. 556:376-380. Available from: 10.1038/s41586-018-0032-3

Liu Y, Freeman A, Déclais A-C, Gartner A, Lilley DMJ. 2018. Biochemical and Structural Properties of Fungal Holliday Junction-Resolving Enzymes. Spies M, Malkova A, editors. In Mechanisms of DNA Recombination and Genome Rearrangements: Methods to Study Homologous Recombination. Academic Press. pp. 543-568. (Methods in Enzymology). Available from: 10.1016/bs.mie.2017.11.021

Loftus RM, Assmann N, Kedia-Mehta N, O'Brien KL, Garcia A, Gillespie C, Hukelmann JL, Oefner PJ, Lamond AI, Gardiner CM, Dettmer K, Cantrell DA, Sinclair LV, Finlay DK. 2018. Amino acid-dependent cMyc expression is essential for NK cell metabolic and functional responses in mice. Nature Communications. 9(1):1-15. Available from: 10.1038/s41467-018-04719-2

Ly T, Endo A, Brenes A, Gierlinski M, Afzal V, Pawellek A, Lamond AI. 2018. Proteome-wide analysis of protein abundance and turnover remodelling during oncogenic transformation of human breast epithelial cells. Wellcome Open Research. 3:1-48. Available from: 10.12688/wellcomeopenres.14392.1

Mariappa DN, Ferenbach A, van Aalten DMF. 2018. Effects of hypo O-GlcNAcylation on Drosophila development. Journal of Biological Chemistry. 293(19):7209-7221. Available from: 10.1074/jbc.RA118.002580

Meier B, Volkova NV, Hong Y, Schofield P, Campbell PJ, Gerstung M, Gartner A. 2018. Mutational signatures of DNA mismatch repair deficiency in and human cancers. Genome Research. 28(5):666-675. Available from: 10.1101/gr.226845.117

Müncheberg S, Hay RT, Ip WH, Meyer T, Weiß C, Brenke J, Masser S, Hadian K, Dobner T, Schreiner S. 2018. E1B-55K mediated regulation of RNF4 STUbL promotes HAdV gene expression. Journal of Virology. Available from: 10.1128/JVI.00164-18

O'Donoghue SI, Baldi BF, Clark SJ, Darling AE, Hogan JM, Kaur S, Maier-Hein L, McCarthy DJ, Moore W, Stenau E, Swedlow J, Vuong J, Procter J. 2018. Visualization of Biomedical Data. Annual Review of Biomedical Data Science. 1. Available from: 10.1146/annurev-biodatasci-080917-013424

Offenburger S-L, Jongsma E, Gartner A. 2018. Mutations in Caenorhabditis elegans neuroligin-like glit-1, the apoptosis pathway and the calcium chaperone crt-1 increase dopaminergic neurodegeneration after 6-OHDA treatment. PLoS Genetics. 14(1):1-34. Available from: 10.1371/journal.pgen.1007106

Offenburger S-L, Ho XY, Tachie-Menson T, Coakley S, Hilliard MA, Gartner A. 2018. 6-OHDA-induced dopaminergic neurodegeneration in Caenorhabditis elegans is promoted by the engulfment pathway and inhibited by the transthyretin-related protein TTR-33. PLoS Genetics. 14(1):1-27. Available from: 10.1371/journal.pgen.1007125

Pao K-C, Wood NT, Knebel A, Rafie K, Stanley M, Mabbitt PD, Sundaramoorthy R, Hofmann K, van Aalten DMF, Virdee S. 2018. Activity-based E3 ligase profiling uncovers an E3 ligase with esterification activity. Nature. 556:381-385. Available from: 10.1038/s41586-018-0026-1

Rafie K, Gorelik A, Trapannone R, Borodkin V, Van Aalten D. 2018. Thio-linked UDP-peptide conjugates as O-GlcNAc transferase inhibitors. Bioconjugate Chemistry. 3/5/18. Available from: 10.1021/acs.bioconjchem.8b00194

Raimi OG, Hurtado Guerrero R, van Aalten DM. 2018. Evidence for substrate assisted catalysis in -acetylphosphoglucosamine mutase. The Biochemical journal. Available from: 10.1042/BCJ20180172

Varshney D, Lombardi O, Schweikert G, Dunn S, Suska O, Cowling V. 2018. mRNA cap methyltransferase, RNMT-RAM, promotes RNA pol II-dependent transcription. Cell Reports. 23(5):1530-1542. Available from: 10.1016/j.celrep.2018.04.004