Preprints

Turvey G, de Alba EL, Stewart E, Byrom L, Cook H, Sofi S, Alati A, Ainscough J, Mason AS, Anston AA & Coverley D, Dominant CIZ1 fragments drive epigenetic instability and are expressed in early stage cancers, bioRxiv (2023).

Chandler JC, Jafree DJ, Malik S, Pomeranz G, Ball M, Kolatsi-Joannou M, Piapi A, Mason WJ, Woolf AS, Winyard PJ, Mason AS, Waters AM & Long DA, Exploration of the single-cell transcriptomic landscape identifies aberrant glomerular cell crosstalk in a murine model of WT1 kidney disease, bioRxiv (2022).

2023

Rice ES, Alberdi A, Alfieri J, Athrey G, Balacco JR, Bardou P, Blackmon H, Charles M, Cheng H, Fedrigo O, Fiddaman SR, Formenti G, Frantz L, Gilbert MTP, Hearn CJ, Jarvis ED, Klopp C, Mason AS, Marcos S, Velez-Irizarry D, Xu L & Warren WC (2023), A pangenome graph reference of 30 chicken genomes allows genotyping of large and complex structural variants, BMC Biology, 21:267.

Smith J, Alfieri JM, Anthony N, Arensburger P, Athrey GN, Balacco J, Balic A, Bardou P, Barela P, Bigot Y, Blackmon H, Borodin PM, Carroll R, Casono MC, Charles M, Cheng H, Chiodi M, Cigan L, Coghill LM, Crooijmans R, Das N, Davey S, Davidian A, Degalez F, Dekkers JM, Derks M, Diack AB, Djikeng A, Drechsler Y, Dyomin A, Fedrigo O, Fiddaman SR, Formenti G, Frantz LAF, Fulton JE, Gaginskaya E, Galkina S, Gallardo RA, Geibel J, Gheyas AA, Godinez CJP, Goodell A, Graves JAM, Griffin DK, Haase B, Han J, Hanotte O, Henderson LJ, Hou Z, Howe K, Huynh L, Ilatsia E, Jarvis ED, Johnson SM, Kaufman J, Kelly T, Kemp S, Kern C, Keroack JH, Klopp C, Lagarrigue S, Lamont SJ, Lange M, Lanke A, Larkin DM, Larson G, Layos JKN, Lebrasseur O, Malinovskaya LP, Martin RJ, Martin CML, Mason AS, McCarthy FM, McGrew MJ, Mountcastle J, Muhonja CK, Muir W, Muret K, Murphy T, Ng’ang’a I, Nishibori M, O’Connor RE, Ogugo M, Okimoto R, Ouko O, Patel HR, Perini F, Pigozzi MI, Potter KC, Price PD, Reimer C, Rice ES, Rocos N, Rogers TF, Saelao P, Schauer J, Schnabel RD, Schneider V, Simianer H, Smith A, Stevens MP, Stiers K, Tiambo CK, Tixier-Boichard M, Torgasheva AA, Tracey A, Tregaskes CA, Vervelde L, Wang Y, Warren WC, Waters PD, Webb D, Weigend S, Wolc A, Wright AE, Wright D, Wu Z, Yamagata M, Yang C, Yin Z, Young MC, Zhang G, Zhao B & Zhou H (2023), Fourth Report on Chicken Genes and Chromosomes 2022, Cytogenetic and Genome Research, 10.1159/000529376.

• Warren WC, Fedrigo O, Tacey A, Mason AS, Formenti G, Perini F, Wu Z, Murphy T, Schneider V, Stiers K, Rice ES, Coghill LM, Anthony N, Okimoto R, Carroll R, Mountcastle J, Balacco J, Haase B, Yang C, Zhang G, Smith J, Drechsler Y, Cheng H, Howe K & Jarvis E, Multiple Chicken (Gallus gallus) Genome References to Advance Genetic Variation Studies, p3-10.
• Mason AS, Endogenous Avian Leukosis Viruses: The Chicken-Specific Endogenous Retrovirus, p46-9.

2022

Mason AS, Varley CL, Foody OM, Li X, Skinner K, Walker D, Larson T, Wakamatsu D, Baker SC & Southgate J (2022), LPCAT4 knockdown alters barrier integrity and cellular bioenergetics in human urothelium, International Journal of Molecular Sciences, 23(19):11871

Baker SC, Mason AS, Slip RG, Eriksson P, Sjödahl G, Trejdosiewicz LK & Southgate J (2022), The urothelial transcriptomic response to interferon gamma predicts T1 recurrence-free and basal/squamous muscle-invasive bladder cancer survival and better targeted strategies for immune checkpoint blocking, Cancers, 14(21):5295.

Baker SC, Mason AS, Slip RG, Skinner KT, Macdonald A, Masood O, Harris RS, Fenton TR, Periyasamy M, Ali S & Southgate J (2022), Induction of APOBEC3-mediated genomic damage in urothelium implicates BK polyomavirus (BKPyV) as a hit-and-run driver for bladder cancer, Oncogene, 10.1038/s41388-022-02235-8.

2021

Mason AS (2021), Falling fowl of the chicken reference genome: pitfalls of studying polymorphic endogenous retroviruses, Retrovirology, 18:10.

Fulton JE, Mason AS, Wolc A, Arango J, Settar P, Lund AR & Burt DW (2021), The impact of Endogenous Avian Leukosis Viruses (ALVE) on production traits in elite layer lines, Poultry Science, 100:101121.

van Doeveren, T, Nakauma-Gonzalez JA, Mason AS, van Leenders GJLH, Zuiverloon TCM, Zwarthoff EC, Meijssen IC, van der Made AC, van Der Heijden AG, Hendricksen K, van Rhijn BWG, Voskuilen CS, van Riet J, Dinjens WNM, Dubbink HJ, van de Werken HJG & Boormans JL (2021), The clonal relation of primary upper urinary tract urothelial carcinoma and paired urothelial carcinoma of the bladder, International Journal of Cancer, 148(4):981-7.

2020

Mason AS, Lund AR, Hocking PM, Fulton JE & Burt DW (2020), Identification and characterisation of endogenous Avian Leukosis Virus subgroup E (ALVE) insertions in chicken whole genome sequencing data, Mobile DNA, 11:22.

Mason AS, Miedzinska K, Kebede A, Bamidele O, Al-Jumaili AS, Dessie T, Hanotte O & Smith J (2020), Diversity of endogenous Avian Leukosis Virus subgroup E (ALVE) insertions in indigenous chickens, Genetics Selection Evolution, 52:29.

Mason AS, Fulton JE & Smith J (2020), Endogenous Avian Leukosis Virus subgroup E elements of the chicken reference genome, Poultry Science, 99(6):2911-5.

Baker SC, Mason AS & Southgate J (2020), Does a Novel Mutagenic Process Target KMT2D Mutation in the Most Common First Event on the Path to Bladder Cancer?, European Urology, 79(3):435-6.

Baker SC, Mason AS & Southgate J (2020), Pro-carcinogen activation and mutational signatures model the initiation of carcinogenesis in human urothelial tissues in vitro, European Urology, 78(2):143-7.

Morris KM, Hindle MM, Boitard S, Burt DW, Danner AF, Eory L, Forrest HL, Gourichon D, Gros J, Hillier LW, Jaffredo T, Khoury H, Lansford R, Leterrier C, Loudon A, Mason AS, Meddle SL, Minvielle F, Minx P, Pitel F, Seiler JP, Shimmura T, Tomlinson C, Vignal A, Webster RG, Yoshimura T, Warren WC & Smith J (2020), The quail genome: insights into social behaviour, seasonal biology and infectious disease response, BMC Biology, 18:14.

2019

Daza-Cajigal C, Albuquerque AS, Pearson J, Hinley J, Mason AS, Stahlschmidt J, Thrasher AJ, Mishra V, Southgate J & Burns SO (2019), Loss of Janus Associated Kinase 1 alters urothelial cell function and facilitates the development of bladder cancer, Frontiers in Immunology, 10:2065.

McNeill RV, Mason AS, Hodson ME, Catto JWF & Southgate J (2019), Specificity of the Metallothionein-1 Response by Cadmium-Exposed Normal Human Urothelial Cells, International Journal of Molecular Sciences, 20(6):1344.

Woodcock ME, Gheyas AA, Mason AS, Nandi S, Taylor L, Sherman A, Smith J, Burt DW, Hawken R & McGrew MJ (2019), Reviving rare chicken breeds using genetically engineered sterility in surrogate host birds, PNAS, 116(42):20930-7.

2017

Warren WC, Hillier LW, Tomlinson C, Minx P, Kremitzki M, Graves T, Markovic C, Bouk N, Pruitt KD, Thibaud-Nissen F, Schneider V, Mansour TA, Brown CT, Zimin A, Hawken R, Abrahamsen M, Pyrkosz AB, Morisson M, Fillon V, Vignal A, Chow W, Howe K, Fulton JE, Miller MM, Lovell P, Mello CV, Wirthlin M, Mason AS, Kuo R, Burt DW, Dodgson JB & Cheng HH (2017), A New Chicken Genome Assembly Provides Insight into Avian Genome Structure, G3: Genes, Genomes, Genetics, 7(1):109-117.

2016

Mason AS, Fulton JE, Hocking PM & Burt DW (2016), A new look at the LTR retrotransposon content of the chicken genome, BMC Genomics, 17:688.

2015

Wragg D, Mason AS, Yu L, Kuo R, Lawal RA, Desta TT, Mwacharo JM, Cho CY, Kemp S, Burt DW & Hanotte O (2015), Genome-wide analysis reveals the extent of EAV-HP integration in domestic chicken, BMC Genomics, 16:784.