By Professor Alexander Swarbrick

Conference Abstracts

Strach MC; Yeung N; Apostolov E; Lin H-M; Nagaraju RT; Ansari N; Koh C; Shin J-S; Kench J; Aziz O; Swarbrick A; Horvath LG; Barriuso J; Mahon K, 2022, 'Single-cell transcriptomic analysis of appendiceal cancer peritoneal disease', in ANNALS OF ONCOLOGY, ELSEVIER, ELECTR NETWORK, Vol. 33, pp. S1322 - S1322, presented at Annual Meeting of the European-Society-for-Medical-Oncology (ESMO), ELECTR NETWORK, 09 September 2022 - 13 September 2022, http://dx.doi.org/10.1016/j.annonc.2022.07.1791

Wu SZ; Roden D; Al Eryani G; Junankar S; Lim E; Thennavan A; Andersson A; Williams S; Gong J; Fropf R; Fuhrman K; Lundeberg J; Perou C; Swarbrick A, 2021, 'An integrated multi-omic cellular atlas of human breast cancers.', in CANCER RESEARCH, AMER ASSOC CANCER RESEARCH, Vol. 81, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000680263502037&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Quek C; Silva IP; Al-Eryani G; Mayer A; Bartonicek N; Harvey K; Buckley C; Braubach O; Thompson JF; Stretch JR; Saw RPM; Shannon KF; Menzies AM; Scolyer RA; Long GV; Swarbrick A; Wilmott JS, 2021, 'CODEX highly multiplex image mapping to CITEseq datasets reveal the spatial dynamics of the TME during the development of acquired resistant in immunotherapy treated melanoma.', in CANCER RESEARCH, AMER ASSOC CANCER RESEARCH, Vol. 81, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000680263504311&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Portman N; Milioli H; Alexandrou S; Coulson R; Yong A; Fernandez K; Chia K; Halilovic E; Segara D; Parker A; Haupt S; Haupt Y; Tilley W; Swarbrick A; Caldon L; Lim E, 2021, 'Mdm2 inhibition synergises with endocrine therapy or cdk4/6 inhibition for the treatment of estrogen receptor-positive breast cancer', in CANCER RESEARCH, AMER ASSOC CANCER RESEARCH, Vol. 81, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000618737700638&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Hickey T; Selth L; Chia KM; Milioli HH; Laven-Law G; Roden D; Jindal S; Hui M; Ebrahimie E; Birrel SN; Stello S; Iggo R; Alexandrou S; Caldon L; Finlay-Shultz J; Abdel-Fatah TM; Ellis IO; Zwart W; Palmieri C; Sartorious CA; Swarbrick A; Lim E; Carrol JS; Tilley WD, 2020, 'The androgen receptor is a tumour suppressor in estrogen receptor positive breast cancer', in Journal of the Endocrine Society, Oxford University Press (OUP), Vol. 4, pp. or05 - or06, presented at Endocrine Society Annual Meeting, http://dx.doi.org/10.1210/jendso/bvaa046.982

Lim E; Hickey TA; Selth LA; Chia KM; Milioli HH; Roden D; Laven-Law G; Jindal S; Hui M; Ebrahimie E; Birrell SN; Stelloo S; Caldon CE; Finlay-Schultz J; Abdel-Fatah TM; Ellis IO; Zwart W; Palmieri C; Sartorius CA; Swarbrick A; Carroll JS; Tilley WD, 2019, 'Abstract GS2-03: The androgen receptor is a tumour suppressor in estrogen receptor positive breast cancer', in Cancer Research, American Association for Cancer Research (AACR), TX, San Antonio, Vol. 80, pp. gs2-03-gs2-03, presented at 42nd Annual San Antonio Breast Cancer Symposium, TX, San Antonio, 09 December 2019 - 14 December 2019, http://dx.doi.org/10.1158/1538-7445.sabcs19-gs2-03

Al-Eryani G; Singh M; Wu S; Carswell S; Jackson K; Junankar S; Bartonicek N; Luciani F; Phan T; Smith M; Goodnow CC; Swarbrick A; Roden D, 2019, 'Linking multi-modal single-cell RNA sequencing with targeted long-read sequencing reveals the clonal and transcriptional profile of lymphocytes', in EUROPEAN JOURNAL OF IMMUNOLOGY, WILEY, PEOPLES R CHINA, Beijing, Vol. 49, pp. 1343 - 1343, presented at 17th International Congress of Immunology of the International-Union-of-Immunological-Societies (IUIS), PEOPLES R CHINA, Beijing, 19 October 2019 - 23 October 2019, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000490026904252&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Chin VT; Al Eryani G; McCloy R; Stone E; Havryk A; Plit M; Field A; Watkins N; Swarbrick A; Powell J, 2019, 'Using single cell genomics to change the treatment of lung cancer.', in JOURNAL OF CLINICAL ONCOLOGY, AMER SOC CLINICAL ONCOLOGY, IL, Chicago, Vol. 37, presented at Annual Meeting of the American-Society-of-Clinical-Oncology (ASCO), IL, Chicago, 31 May 2019 - 04 June 2019, http://dx.doi.org/10.1200/JCO.2019.37.15_suppl.e20563

Chia KM; Milioli HH; Portman N; Laven-Law G; Coulson R; Young A; Segara D; Parker A; Caldon L; Deng N; Swarbrick A; Tilley W; Hickey T; Lim E, 2019, 'Targeting AR in endocrine-resistant breast cancer', in Oncolabs, Bioscientifica, presented at 7th PacRim Breast & Prostate Cancer Meeting, http://dx.doi.org/10.1530/oncolabs.1.P012

Chia KM; Milioli H; Portman N; Laven-Law G; Yong A; Swarbrick A; Caldon L; Tilley W; Hickey T; Lim E, 2018, 'Abstract P6-20-04: Activation of AR inhibits growth of endocrine-resistant breast cancer', in Cancer Research, American Association for Cancer Research (AACR), TX, San Antonio, Vol. 79, pp. p6-20-04-p6-20-04, presented at San Antonio Breast Cancer Symposium, TX, San Antonio, 04 December 2018 - 08 December 2018, http://dx.doi.org/10.1158/1538-7445.sabcs18-p6-20-04

Swarbrick A; Wu SZ; Roden D; Al-Eryani G; O'Toole S; Lim E, 2018, 'Landscape of the breast tumour microenvironment at single-cell resolution', in CANCER RESEARCH, AMER ASSOC CANCER RESEARCH, TX, San Antonio, Vol. 79, presented at San Antonio Breast Cancer Symposium, TX, San Antonio, 04 December 2018 - 08 December 2018, http://dx.doi.org/10.1158/1538-7445.SABCS18-GS1-01

Swarbrick A; Cazet A; Hui M; O'Toole S; Lim E; Martin M, 2018, 'Small molecule inhibition of smoothened in triple negative breast cancer-associated fibroblasts depletes cancer stem cells and sensitizes to cytotoxic chemotherapy in mice and humans', in CANCER RESEARCH, AMER ASSOC CANCER RESEARCH, TX, San Antonio, Vol. 79, presented at San Antonio Breast Cancer Symposium, TX, San Antonio, 04 December 2018 - 08 December 2018, http://dx.doi.org/10.1158/1538-7445.SABCS18-P5-07-03

Hui MN; Cazet A; Elsworth B; Roden D; Cox T; Yang J; McFarland A; Deng N; Chan C-L; O'Toole S; Swarbrick A, 2018, 'Targeting the Hedgehog signalling pathway in triple negative breast cancer.', in JOURNAL OF CLINICAL ONCOLOGY, AMER SOC CLINICAL ONCOLOGY, Vol. 36, http://dx.doi.org/10.1200/JCO.2018.36.15_suppl.e24216

Anderson RL; Swarbrick A; Johnstone R; Chua B; Gill A; Saunders C; Lakhani S; Lim E; Loi S; O'Toole SA; Khanna KK; Devereux L; Harvey K; Reed AM, 2017, 'Brocade: The National Breast Cancer Foundation Repository of Primary Tumours and Metastases from Breast Cancer Patients', in ASIA-PACIFIC JOURNAL OF CLINICAL ONCOLOGY, WILEY, Vol. 13, pp. 110 - 111, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000413954500136&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Rojo F; Ruiz Borrego M; Hui M; Trigo Perez JM; Cazet A; Karsdal MA; Urruticoechea A; Antolin S; Garcia-Saenz JA; O'Toole S; Blach A; Perez-Ramos L; Bezares S; Sanchez-Arago M; Caballero R; Bager CL; Swarbrick A; Martin Jimenez M, 2017, 'Tumor microenvironment biomarkers as therapeutic strategies for TNBC', in ANNALS OF ONCOLOGY, OXFORD UNIV PRESS, SPAIN, Madrid, Vol. 28, presented at 42nd European-Society-for-Medical-Oncology Congress (ESMO), SPAIN, Madrid, 08 September 2017 - 12 September 2017, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000411324004218&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Ho GY; Lieschke E; Kyran E; Shield-Artin K; Kondrashova O; Barker H; Hollian R; Cazet A; Thuan P; Swarbrick A; McNally O; Bowtell D; Wakefield M; Scott CL, 2017, 'Hedgehog inhibition impaired platinum response in high-grade serous ovarian cancer harboring high hedgehog ligand expression and mTOR pathway activation.', in JOURNAL OF CLINICAL ONCOLOGY, AMER SOC CLINICAL ONCOLOGY, IL, Chicago, Vol. 35, presented at 53rd Annual Clinical Science Meeting of the American-Society-of-Clinical-Oncology (ASCO) / Symposium on Old Targets, New Drugs - Her2 and MET, IL, Chicago, 02 June 2017 - 07 June 2017, http://dx.doi.org/10.1200/JCO.2017.35.15_suppl.5583

Byrne NM; Khoo WH; Mourad N; Quinn JAPJ; Shah S; Mcdonald MM; Cazet A; Swarbrick A; Phan TG; Rogers MJ; Croucher PI, 2016, 'Identification of dormant prostate cancer cells in the skeleton in vivo and ex vivo', in BJU INTERNATIONAL, WILEY-BLACKWELL, AUSTRALIA, Melbourne, Vol. 118, pp. 35 - 36, presented at 17th Asia-Pacific Prostate Cancer Conference, AUSTRALIA, Melbourne, 31 August 2016 - 03 September 2016, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000381708200082&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Gallego-Ortega D; Ledger A; Roden D; Cho C; Allerdice SL; Lee HJ; Valdes-Mora F; Lee B; Kaplan W; Salomon R; Piggin C; Rabinovich B; Millar E; Chtanova T; Swarbrick A; Clark S; Ormandy C, 2015, 'The ETS transcription factor ELF5 drives metastasis via angiogenesis and recruitment of Gr-1+ CD11b+ myeloid derived suppressor cells in luminal breast cancer', in Clinical and Experimental Metastasis, Springer Verlag (Germany), Vol. 32, pp. 203 - 203, presented at MRS 15th International biennial congress of the metastasis research society

Nair R; Teo WS; Ye S; McFarland A; Harvey K; Roden D; Junankar S; Baker L; Yang J; Fluke N; Millar E; Mellick A; Naylor M; Ormandy C; Lakhani S; O'Toole S; Swarbrick A, 2015, 'The Inhibitor of Differentiation proteins mediate tumour-initiating properties and metastasis in breast cancer', in CLINICAL & EXPERIMENTAL METASTASIS, SPRINGER, Vol. 32, pp. 224 - 224, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000351601900129&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

O'Toole SA; Machalek D; Shearer R; Millar EKA; Nair R; Martelotto L; McLeod D; Cooper C; Qiu MR; Sutherland RL; Watkins DN; Swarbrick A, 2010, 'Hedgehog Ligand Overexpression Predicts Poor Outcome in Breast Cancer and Is a Potential Therapeutic Target for Metastatic Disease', in CANCER RESEARCH, AMER ASSOC CANCER RESEARCH, Vol. 70, http://dx.doi.org/10.1158/0008-5472.SABCS10-S6-8

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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