Publication List

  • Dopler A, Alkan F, Malka Y, Hoefakker K, Isaeva OI, Kerkhoff M, Gangaev A, Silva J, Ramalho S, Hoekman L, Altelaar M, van der Kammen R, Yewdell JW, Kvistborg P, Faller WJ. An "alert state" ribosome population acts as a master regulator of cytokine mediated processes. bioRxiv 2023.10.17.562425; doi: https://doi.org/10.1101/2023.10.17.562425

  • Spaan CN, de Boer RJ, Smit WL, van der Meer JH, van Roest M, Vermeulen JL, Koelink PJ, Becker MA, Go S, Silva J, Faller WJ, van den Brink GR, Muncan V, Heijmans J. Grp78 is required for intestinal Kras-dependent glycolysis proliferation and adenomagenesis. Life Sci Alliance. 2023 Aug 29;6(11):e202301912. doi: 10.26508/lsa.202301912. PMID: 37643866; PMCID: PMC10465924.

  • Kohli J, Ge C, Fitsiou E, Doepner M, Brandenburg SM, Faller WJ, Ridky TW, Demaria M. Targeting anti-apoptotic pathways eliminates senescent melanocytes and leads to nevi regression. Nat Commun. 2022 Dec 23;13(1):7923. doi:10.1038/s41467-022-35657-9. PMID: 36564381; PMCID: PMC9789033.

  • Kochavi A, Lovecchio D, Faller WJ, Agami R. Proteome diversification by mRNA translation in cancer. Mol Cell. 2022 Dec 7:S1097-2765(22)01103-0. doi:10.1016/j.molcel.2022.11.014. Epub ahead of print. PMID: 36521491.

  • Malka Y, Alkan F, Ju S, Körner PR, Pataskar A, Shulman E, Loayza-Puch F, Champagne J, Wenzel C, Faller WJ, Elkon R, Lee C, Agami R. Alternative cleavage and polyadenylation generates downstream uncapped RNA isoforms with translation potential. Mol Cell. 2022 Oct 20;82(20):3840-3855.e8. doi:10.1016/j.molcel.2022.09.036. PMID: 36270248; PMCID: PMC9636002.

  • Molenaar TM, Malik M, Silva J, Liu NQ, Haarhuis JHI, Ambrosi C, Kwesi-Maliepaard EM, van Welsem T, Baubec T, Faller WJ, van Leeuwen F. The histone methyltransferase SETD2 negatively regulates cell size. J Cell Sci. 2022 Oct 1;135(19):jcs259856. doi: 10.1242/jcs.259856. Epub 2022 Oct 6. PMID: 36052643.

  • Silva J, Alkan F, Ramalho S, Snieckute G, Prekovic S, Garcia AK, Hernández-Pérez S, van der Kammen R, Barnum D, Hoekman L, Altelaar M, Zwart W, Suijkerbuijk SJE, Bekker-Jensen S, Faller WJ. Ribosome impairment regulates intestinal stem cell identity via ZAKɑ activation. Nat Commun. 2022 Aug 2;13(1):4492. doi: 10.1038/s41467-022-32220-4. PMID: 35918345.

  • Alkan F, Wilkins OG, Hernández-Pérez S, Ramalho S, Silva J, Ule J, Faller WJ. Identifying ribosome heterogeneity using ribosome profiling. Nucleic Acids Res. 2022 Jun 10:gkac484. doi: 10.1093/nar/gkac484. Online ahead of print. PMID: 35687114

  • Knight JR, Vlahov N, Gay DM, Ridgway RA, Faller WJ, Proud C, Mallucci GR, von der Haar T, Smales CM, Willis AE, Sansom OJ. Rpl24Bst mutation suppresses colorectal cancer by promoting eEF2 phosphorylation via eEF2K. Elife. 2021 Dec 13;10:e69729. doi: 10.7554/eLife.69729. PMID: 34895463

  • Champagne J, Pataskar A, Blommaert N, Nagel R, Wernaart D, Ramalho S, Kenski J, Bleijerveld OB, Zaal EA, Berkers CR, Altelaar M, Peeper DS, Faller WJ, Agami R. Oncogene-dependent sloppiness in mRNA translation. Mol Cell. 2021 Sep 21:S1097-2765(21)00736-X. doi: 10.1016/j.molcel.2021.09.002. Epub ahead of print. PMID: 34562372.

  • Prekovic S, Schuurman K, Mayayo-Peralta I, Manjón AG, Buijs M, Yavuz S, Wellenstein MD, Barrera A, Monkhorst K, Huber A, Morris B, Lieftink C, Chalkiadakis T, Alkan F, Silva J, Győrffy B, Hoekman L, van den Broek B, Teunissen H, Debets DO, Severson T, Jonkers J, Reddy T, de Visser KE, Faller WJ, Beijersbergen R, Altelaar M, de Wit E, Medema R, Zwart W. Glucocorticoid receptor triggers a reversible drug-tolerant dormancy state with acquired therapeutic vulnerabilities in lung cancer. Nat Commun. 2021 Jul 16;12(1):4360. doi: 10.1038/s41467-021-24537-3. PMID: 34272384; PMCID: PMC8285479.

  • Leach JDG, Vlahov N, Tsantoulis P, Ridgway RA, Flanagan DJ, Gilroy K, Sphyris N, Vázquez EG, Vincent DF, Faller WJ, Hodder MC, Raven A, Fey S, Najumudeen AK, Strathdee D, Nixon C, Hughes M, Clark W, Shaw R; S:CORT consortium, van Hooff SR, Huels DJ, Medema JP, Barry ST, Frame MC, Unciti-Broceta A, Leedham SJ, Inman GJ, Jackstadt R, Thompson BJ, Campbell AD, Tejpar S, Sansom OJ. Oncogenic BRAF, unrestrained by TGFβ-receptor signalling, drives right-sided colonic tumorigenesis. Nat Commun. 2021 Jun 8;12(1):3464. doi: 10.1038/s41467-021-23717-5. PMID: 34103493; PMCID: PMC8187652.

  • Garcia TM, van Roest M, Vermeulen JLM, Meisner S, Smit WL, Silva J, Koelink PJ, Koster J, Faller WJ, Wildenberg ME, van Elburg RM, Muncan V, Renes IB. Early Life Antibiotics Influence In Vivo and In Vitro Mouse Intestinal Epithelium Maturation and Functioning. Cell Mol Gastroenterol Hepatol. 2021;12(3):943-981. doi: 10.1016/j.jcmgh.2021.05.019. Epub 2021 Jun 6. PMID: 34102314; PMCID: PMC8346670.

  • Alkan F, Silva J, Barberà EP, Faller WJ. Ribo-ODDR: Oligo design pipeline for experiment-specific rRNA depletion in ribo-seq. Bioinformatics. 2021 Mar 15;37(17):2659–67. doi: 10.1093/bioinformatics/btab171. Epub ahead of print. PMID: 33720291; PMCID: PMC8428583.

  • Minnee E, Faller WJ. Translation initiation and its relevance in colorectal cancer. FEBS J. 2020 Dec 31. doi: 10.1111/febs.15690. Epub ahead of print. PMID: 33382175.

  • Knight JRP, Alexandrou C, Skalka GL, Vlahov N, Pennel K, Officer L, Teodosio A, Kanellos G, Gay DM, May-Wilson S, Smith EM, Najumudeen AK, Gilroy K, Ridgway RA, Flanagan DJ, Smith RCL, McDonald L, MacKay C, Cheasty A, McArthur K, Stanway E, Leach JD, Jackstadt R, Waldron JA, Campbell AD, Vlachogiannis G, Valeri N, Haigis KM, Sonenberg N, Proud CG, Jones NP, Swarbrick ME, McKinnon HJ, Faller WJ, Le Quesne J, Edwards J, Willis AE, Bushell M, Sansom OJ. MNK Inhibition Sensitizes KRAS-Mutant Colorectal Cancer to mTORC1 Inhibition by Reducing eIF4E Phosphorylation and c-MYC Expression. Cancer Discov. 2021 May;11(5):1228-1247. doi: 10.1158/2159-8290.CD-20-0652. Epub 2020 Dec 16. PMID: 33328217; PMCID: PMC7611341.

  • Huels DJ, Bruens L, Hodder MC, Cammareri P, Campbell AD, Ridgway RA, Gay DM, Solar-Abboud M, Faller WJ, Nixon C, Zeiger LB, McLaughlin ME, Morrissey E, Winton DJ, Snippert HJ, van Rheenen J, Sansom OJ. Wnt ligands influence tumour initiation by controlling the number of intestinal stem cells. Nat Commun. 2018 Mar 19;9(1):1132. doi: 10.1038/s41467-018-03426-2. PubMed PMID: 29556067; PubMed Central PMCID: PMC5859272.

  • Kumar N, Srivillibhuthur M, Joshi S, Walton KD, Zhou A, Faller WJ, Perekatt AO, Sansom OJ, Gumucio DL, Xing J, Bonder EM, Gao N, White E, Verzi MP. A YY1-dependent increase in aerobic metabolism is indispensable for intestinal organogenesis. Development. 2016 Oct 15;143(20):3711-3722. PubMed PMID: 27802136; PubMed Central PMCID: PMC5087649.

  • Ma Y, Faller WJ, Sansom OJ, Brown ER, Doig TN, Melton DW, Machesky LM. Fascin expression is increased in metastatic lesions but does not correlate with progression nor outcome in melanoma. Melanoma Res. 2015 Apr;25(2):169-72. doi: 10.1097/CMR.0000000000000135. PubMed PMID: 25535872.

  • Rai TS, Cole JJ, Nelson DM, Dikovskaya D, Faller WJ, Vizioli MG, Hewitt RN, Anannya O, McBryan T, Manoharan I, van Tuyn J, Morrice N, Pchelintsev NA, Ivanov A, Brock C, Drotar ME, Nixon C, Clark W, Sansom OJ, Anderson KI, King A, Blyth K, Adams PD. HIRA orchestrates a dynamic chromatin landscape in senescence and is required for suppression of neoplasia. Genes Dev. 2014 Dec 15;28(24):2712-25. doi: 10.1101/gad.247528.114. PubMed PMID: 25512559; PubMed Central PMCID: PMC4265675.

  • Faller WJ, Jackson TJ, Knight JR, Ridgway RA, Jamieson T, Karim SA, Jones C, Radulescu S, Huels DJ, Myant KB, Dudek KM, Casey HA, Scopelliti A, Cordero JB, Vidal M, Pende M, Ryazanov AG, Sonenberg N, Meyuhas O, Hall MN, Bushell M, Willis AE, Sansom OJ. mTORC1-mediated translational elongation limits intestinal tumour initiation and growth. Nature. 2015 Jan 22;517(7535):497-500. doi: 10.1038/nature13896. PubMed PMID: 25383520; PubMed Central PMCID: PMC4304784.

  • Muinonen-Martin AJ, Susanto O, Zhang Q, Smethurst E, Faller WJ, Veltman DM, Kalna G, Lindsay C, Bennett DC, Sansom OJ, Herd R, Jones R, Machesky LM, Wakelam MJ, Knecht DA, Insall RH. Melanoma cells break down LPA to establish local gradients that drive chemotactic dispersal. PLoS Biol. 2014 Oct 14;12(10):e1001966. doi: 10.1371/journal.pbio.1001966. PubMed PMID: 25313567; PubMed Central PMCID: PMC4196730.

  • Lindsay CR, Li A, Faller W, Ozanne B, Welch H, Machesky LM, Sansom OJ. A Rac1-independent role for P-Rex1 in melanoblasts. J Invest Dermatol. 2015 Jan;135(1):314-8. doi: 10.1038/jid.2014.323. PubMed PMID: 25075639; PubMed Central PMCID: PMC4269807.

  • Li A, Morton JP, Ma Y, Karim SA, Zhou Y, Faller WJ, Woodham EF, Morris HT, Stevenson RP, Juin A, Jamieson NB, MacKay CJ, Carter CR, Leung HY, Yamashiro S, Blyth K, Sansom OJ, Machesky LM. Fascin is regulated by slug, promotes progression of pancreatic cancer in mice, and is associated with patient outcomes. Gastroenterology. 2014 May;146(5):1386-96.e1-17. doi: 10.1053/j.gastro.2014.01.046. PubMed PMID: 24462734; PubMed Central PMCID: PMC4000441.

  • Ma Y, Li A, Faller WJ, Libertini S, Fiorito F, Gillespie DA, Sansom OJ, Yamashiro S, Machesky LM. Fascin 1 is transiently expressed in mouse melanoblasts during development and promotes migration and proliferation. Development. 2013 May;140(10):2203-11. doi: 10.1242/dev.089789. PubMed PMID: 23633513; PubMed Central PMCID: PMC3912869.

  • Lindsay CR, Lawn S, Campbell AD, Faller WJ, Rambow F, Mort RL, Timpson P, Li A, Cammareri P, Ridgway RA, Morton JP, Doyle B, Hegarty S, Rafferty M, Murphy IG, McDermott EW, Sheahan K, Pedone K, Finn AJ, Groben PA, Thomas NE, Hao H, Carson C, Norman JC, Machesky LM, Gallagher WM, Jackson IJ, Van Kempen L, Beermann F, Der C, Larue L, Welch HC, Ozanne BW, Sansom OJ. P-Rex1 is required for efficient melanoblast migration and melanoma metastasis. Nat Commun. 2011 Nov 22;2:555. doi: 10.1038/ncomms1560. PubMed PMID: 22109529; PubMed Central PMCID: PMC3400057.

  • Gremel G, Ryan D, Rafferty M, Lanigan F, Hegarty S, Lavelle M, Murphy I, Unwin L, Joyce C, Faller W, McDermott EW, Sheahan K, Ponten F, Gallagher WM. Functional and prognostic relevance of the homeobox protein MSX2 in malignant melanoma. Br J Cancer. 2011 Aug 9;105(4):565-74. doi: 10.1038/bjc.2011.249. PubMed PMID: 21730974; PubMed Central PMCID: PMC3170959.

  • Faller WJ, Rafferty M, Hegarty S, Gremel G, Ryan D, Fraga MF, Esteller M, Dervan PA, Gallagher WM. Metallothionein 1E is methylated in malignant melanoma and increases sensitivity to cisplatin-induced apoptosis. Melanoma Res. 2010 Oct;20(5):392-400. PubMed PMID: 20848733.

  • Ryan D, Rafferty M, Hegarty S, O'Leary P, Faller W, Gremel G, Bergqvist M, Agnarsdottir M, Strömberg S, Kampf C, Pontén F, Millikan RC, Dervan PA, Gallagher WM. Topoisomerase I amplification in melanoma is associated with more advanced
    tumours and poor prognosis.     Pigment Cell Melanoma Res. 2010 Aug;23(4):542-53. doi: 10.1111/j.1755-148X.2010.00720.x. PubMed PMID: 20465595.

  • Lujambio A, Calin GA, Villanueva A, Ropero S, Sánchez-Céspedes M, Blanco D, Montuenga LM, Rossi S, Nicoloso MS, Faller WJ, Gallagher WM, Eccles SA, Croce CM, Esteller M. A microRNA DNA methylation signature for human cancer metastasis. Proc Natl Acad Sci U S A. 2008 Sep 9;105(36):13556-61. doi: 10.1073/pnas.0803055105. PubMed PMID: 18768788; PubMed Central PMCID: PMC2528872.

  • Rafferty M, Faller WJ, Moss C, McCormack J, Mãlandsmo GM, Easty DJ, Gallagher WM. Real-time quantitative reverse transcriptase-polymerase chain reaction analysis of melanoma progression-associated genes. Anticancer Res. 2007 May-Jun;27(3A):1301-7. PubMed PMID: 17593623.