By Professor Alexander Swarbrick

Preprints

Apostolov E; Roden DL; Holliday H; Cazet A; Harvey K; Zhang H; Wu SZ; van der Leij S; Selth LA; Bartonicek N; Al-Eryani G; He M; Lundeberg J; Reeves J; Kench JG; Potter AJ; Stricker P; Joshua AM; Horvath L; Swarbrick A, 2024, Profiling of epithelial functional states and fibroblast phenotypes in hormone therapy-naïve localised prostate cancer, http://dx.doi.org/10.1101/2024.10.23.619925

Cai Z; Boys EL; Noor Z; Aref A; Xavier D; Lucas N; Williams SG; Koh JMS; Poulos RC; Wu Y; Dausmann M; MacKenzie KL; Aguilar-Mahecha A; Armengol C; Barranco MM; Basik M; Bowman ED; Clifton-Bligh RJ; Connolly EA; Cooper WA; Dalal B; DeFazio A; Filipits M; Flynn PJ; Graham JD; George J; Gill AJ; Gnant M; Habib R; Harris CC; Harvey K; Horvath LG; Jackson C; Kohonen-Corish MRJ; Lim E; Liu J; Long G; Lord RV; Mann GJ; McCaughan GW; Morgan L; Murphy LC; Nagabushan S; Nagrial AM; Navinés J; Panizza BJ; Samra JS; Scolyer RA; Souglakos I; Swarbrick A; Thomas DM; Balleine RL; Hains PG; Robinson PJ; Zhong Q; Reddel RR, 2024, Federated deep learning enables cancer subtyping by proteomics, http://dx.doi.org/10.1101/2024.10.16.618763

Parsons A; Colon ES; Spasic M; Kurt BB; Swarbrick A; Freedman RA; Mittendorf EA; van Galen P; McAllister SS, 2024, Cell Populations in Human Breast Cancers are Molecularly and Biologically Distinct with Age., http://dx.doi.org/10.21203/rs.3.rs-5167339/v1

Sandarenu P; Chen J; Slapetova I; Browne L; Graham PH; Swarbrick A; Millar EKA; Song Y; Meijering E, 2024, Semi-supervised variational autoencoder for cell feature extraction in multiplexed immunofluorescence images, http://arxiv.org/abs/2406.15727v2

Wang T; Harvey K; Morlanes JE; Kiedik B; Al-Eryani G; Greenwald A; Kalavros N; Dezem FS; Ma Y; Pita-Juarez YH; Wise K; Degletagne C; Elz A; Hadadianpour A; Johanneson J; Pakiam F; Ryu H; Newell EW; Tonon L; Kohlway A; Drennon T; Abousoud J; Stott R; Lund P; Durruthy J; Vallejo AF; Kaczorowski D; Warren J; Butler LM; O’Toole S; Plummer J; Vlachos IS; Lundeberg J; Swarbrick A; Martelotto L, 2023, snPATHO-seq: unlocking the pathology archives, http://dx.doi.org/10.1101/2023.12.07.570700

Wang T; Harvey K; Reeves J; Roden DL; Bartonicek N; Yang J; Al-Eryani G; Kaczorowski D; Chan C-L; Powell J; O’Toole S; Lim E; Swarbrick A, 2023, An experimental comparison of the Digital Spatial Profiling and Visium spatial transcriptomics technologies for cancer research, http://dx.doi.org/10.1101/2023.04.06.535805

Al-Eryani G; Bartonicek N; Chan C-L; Anderson A; Harvey K; Wu SZ; Roden D; Wang T; Reeves J; Yeung BZ; Masle-Farquhar E; Goodnow CC; Ma C; Phan TG; Lundeberg J; Junankar S; Swarbrick A, 2022, Integration of single-cell RNA and protein data identifies novel clinically-relevant lymphocyte phenotypes in breast cancers, http://dx.doi.org/10.1101/2022.05.31.494081

Chaudagar K; Hieromnimon HM; Khurana R; Labadie B; Hirz T; Mei S; Hasan R; Shafran J; Kelley A; Apostolov E; Al-Eryani G; Harvey K; Rameshbabu S; Loyd M; Bynoe K; Drovetsky C; Solanki A; Markiewicz E; Zamora M; Fan X; Schürer S; Swarbrick A; Sykes DB; Patnaik A, 2022, Reversal of lactate and PD-1-mediated macrophage immunosuppression controls growth of PTEN/p53-deficient prostate cancer, http://dx.doi.org/10.1101/2022.05.12.490223

Masle-Farquhar E; Jackson KJL; Peters T; Al-Eryani G; Singh M; Payne K; Rao G; Apps G; Kingham J; Jara C; Skvortsova K; Swarbrick A; Ma C; Suan D; Uzel G; Chua I; Leiding J; Heiskanen K; Preece K; Kainulainen L; O’Sullivan M; Cooper M; Seppänen MRJ; Mustjoki S; Brothers S; Vogel T; Brink R; Tangye S; Reed J; Goodnow C, 2022, STAT3gain-of-function mutations connect leukemia with autoimmune disease by pathological dysregulation of NKG2D^hiCD8 killer T cells, http://dx.doi.org/10.1101/2022.02.11.480027

Vallejo A; Harvey K; Wang T; Wise K; Butler L; Polo J; Plummer J; Swarbrick A; Martelotto L, 2022, snPATHO-seq: unlocking the FFPE archives for single nucleus RNA profiling, http://dx.doi.org/10.1101/2022.08.23.505054

Deng N; Minoche A; Harvey K; Li M; Winkler J; Goga A; Swarbrick A, 2021, Deep Whole Genome Sequencing Identifies Recurrent Genomic Alterations in Commonly-Used Breast Cancer Cell Lines and Patient Derived Xenograft Models, http://dx.doi.org/10.21203/rs.3.rs-859624/v2

Tilley W; Hickey T; Selth L; Chia KM; Milioli H; Laven-Law G; Roden D; Jindal S; Hui M; Finlay-Schultz J; Ebrahimie E; Birrell S; Stelloo S; Iggo R; Alexandrou S; Caldon C; Abdel-Fatah T; Ellis I; Zwart W; Palmieri C; Sartorius C; Swarbrick A; Lim E; Carroll J, 2020, The Androgen Receptor is a Tumour Suppressor in Estrogen Receptor Positive Breast Cancer, http://dx.doi.org/10.21203/rs.3.rs-62718/v1

Baker LA; Holliday H; Roden D; Krisp C; Wu SZ; Junankar S; Serandour AA; Mohammed H; Nair R; Sankaranarayanan G; Law AMK; McFarland A; Simpson PT; Lakhani S; Dodson E; Selinger C; Anderson L; Samimi G; Hacker NF; Lim E; Ormandy CJ; Naylor MJ; Simpson K; Nikolic I; O’Toole S; Kaplan W; Cowley MJ; Carroll JS; Molloy M; Swarbrick A, 2020, Proteogenomic analysis of Inhibitor of Differentiation 4 (ID4) in basal-like breast cancer, http://dx.doi.org/10.21203/rs.3.rs-16182/v2

Baker LA; Holliday H; Roden D; Krisp C; Wu SZ; Junankar S; Serandour AA; Mohammed H; Nair R; Sankaranarayanan G; Law AMK; McFarland A; Simpson PT; Lakhani S; Dodson E; Selinger C; Anderson L; Samimi G; Hacker NF; Lim E; Ormandy CJ; Naylor MJ; Simpson K; Nikolic I; O’Toole S; Kaplan W; Cowley MJ; Carroll JS; Molloy M; Swarbrick A, 2020, Proteogenomic analysis of Inhibitor of Differentiation 4 (ID4) in basal-like breast cancer, http://dx.doi.org/10.21203/rs.3.rs-16182/v1

Murali R; Varghese BA; Karthikeyan N; Archana PT; Teo WS; McFarland A; Roden DL; Holliday H; Konrad C; Cazet A; Dodson E; George JT; Levine H; Jolly MK; Swarbrick A; Nair R, 2019, Targeting the Id1-Kif11-Aurka axis in triple negative breast cancer using combination therapy, http://dx.doi.org/10.1101/760686

Teo WS; Holliday H; Karthikeyan N; Cazet AS; Roden DL; Harvey K; Konrad CV; Murali R; Varghese BA; P. T. A; Chan C-L; McFarland A; Junankar S; Ye S; Yang J; Nikolic I; Shah JS; Baker LA; Millar EKA; Naylor MJ; Ormandy CJ; Lakhani SR; Kaplan W; Mellick AS; O’Toole SA; Swarbrick A; Nair R, 2018, Id proteins promote a cancer stem cell phenotype in triple negative breast cancer via negative regulation of Robo1, http://dx.doi.org/10.1101/497313

Roden DL; Baker LA; Elsworth B; Chan C-L; Harvey K; Deng N; Wu SZ; Cazet A; Nair R; Swarbrick A, 2018, Single cell transcriptomics reveals molecular subtype and functional heterogeneity in models of breast cancer, http://dx.doi.org/10.1101/282079

Cazet A; Hui M; Elsworth B; Wu S; Roden D; Chan C-L; Skhinas J; Collot R; Yang J; Harvey K; Johan Z; Cooper C; Nair R; Herrmann D; McFarland A; Deng N-T; Ruiz-Borrego M; Rojo F; Trigo J; Bezares S; Caballero R; Lim E; Timpson P; O’Toole S; Watkins N; Cox T; Samuel M; Martín M; Swarbrick A, 2017, Targeting stromal remodeling and cancer stem cell plasticity to overcome chemoresistance in triple negative breast cancer, http://dx.doi.org/10.1101/215954

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