By Associate Professor Christine Louise Chaffer

Conference Papers

Brennan JP; Chaffer CL; Slavin J; Temelcos C; Goad J; Williams ED, 2006, 'Patterns of spread in an orthotopic mouse model of bladder cancer', in BJU INTERNATIONAL, BLACKWELL PUBLISHING, pp. 9 - 9, http://dx.doi.org/10.1111/j.1464-410X.2006.06085_31.x

Brennan JP; Williams ED; Chaffer CL; Goad J; Temelcos C; Slavin J, 2005, 'A novel orthotopic model of muscle-invasive bladder cancer', in BJU INTERNATIONAL, BLACKWELL PUBLISHING, AUSTRALIA, Melbourne, pp. 27 - 27, presented at Annual Scientific Meeting of the Urological- Society-of-Australasia, AUSTRALIA, Melbourne, 13 February 2005 - 17 February 2005, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000236061300125&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Conference Abstracts

Liu J; Cosman R; Childs S; Cohen JE; Rodrigues A; Hansen T; Kiely BE; Chen J; Pala A; Sandhu G; Ho J; Warakulasuriya S; Elgundi D; Sim H-W; Kent R; Martin C; Woodson EM; Chaffer CL; Dear R, 2026, 'Abstract CT043: Androgen receptor inhibition to overcome taxane resistance in AR-positive metastatic TNBC: Interim results of the 4CAST Phase 1b trial', in Cancer Research, American Association for Cancer Research (AACR), Vol. 86, pp. ct043 - ct043, http://dx.doi.org/10.1158/1538-7445.am2026-ct043

Gupta S; Sun X; Tong A; Kuchroo M; Bhaskar D; Liu C; Venkat A; San Juan BP; Rangel L; Rodriguez V; Lock JG; Chaffer CL; Krishnaswamy S, 2026, 'Revealing dynamic temporal trajectories and underlying regulatory networks with Cflows.', in CANCER RESEARCH, AMER ASSOC CANCER RESEARCH, CA, San Diego, Vol. 86, presented at AACR Annual Meeting, CA, San Diego, 17 April 2026 - 22 April 2026, http://dx.doi.org/10.1158/1538-7445.AM2026-5483

Juan BPS; Hediyah-Zadeh S; Rangel L; Rodriguez V; Milioli HH; Kohane F; Purcell CA; Hickey TE; Goldstein LD; Lock JG; Davis MJ; Chaffer CL, 2022, 'Abstract 1029: The anti-androgen seviteronel sensitizes triple-negative breast cancer to chemotherapy', in Cancer Research, American Association for Cancer Research (AACR), Vol. 82, pp. 1029 - 1029, http://dx.doi.org/10.1158/1538-7445.am2022-1029

Preprints

Steindl AJ; Rocha JF; Di Bassinga BT; Warren Z; Scicluna M; Córdova CMV; Gupta S; Torices L; Neumann D; Mann TJ; Gunawan I; Bhaskar D; Lock JG; Chaffer CL; Wolf G; Krishnaswamy S, 2026, scShapeBench: Discovering geometry from high dimensional scRNAseq data, http://dx.doi.org/10.48550/arxiv.2605.12662

Sun X; Rocha JF; Phelan B; Bhaskar D; Huguet G; Zhang Y; Tong A; Xu K; Fasina O; Gerstein M; Ivanova N; Chaffer CL; Wolf G; Krishnaswamy S, 2026, MIOFlow 2.0: A unified framework for inferring cellular stochastic dynamics from single cell and spatial transcriptomics data, http://dx.doi.org/10.48550/arxiv.2603.22564

Van Dijk D; Sharma R; Nainys J; Yim K; Kathail P; Carr A; Burdziak C; Moon KR; Chaffer CL; Pattabiraman D; Bierie B; Mazutis L; Wolf G; Krishnaswamy S; Pe’er D, 2018, Recovering Gene Interactions from Single-Cell Data Using Data Diffusion, http://dx.doi.org/10.2139/ssrn.3155779

Venkat A; Youlten SE; San Juan BP; Purcell C; Amodio M; Burkhardt DB; Benz A; Holst J; McCool C; Mollbrink A; Lundeberg J; van Dijk D; Goldstein LD; Kummerfeld S; Krishnaswamy S; Chaffer CL, AAnet resolves a continuum of spatially-localized cell states to unveil tumor complexity, http://dx.doi.org/10.1101/2024.05.11.593705

Silvani G; Kopecky C; Romanazzo S; Rodriguez V; Das A; Pandzic E; Lock JG; Chaffer C; Poole K; Kilian KA, Capillary constrictions prime cancer cell tumorigenicity through PIEZO1, http://dx.doi.org/10.1101/2025.07.22.666218

Mckinnon J; Milioli H; Purcell C; Chaffer C; Wadie B; Alexandrov T; Mitchell T; Ellis S, Enhancing Metabolite Coverage in MALDI-MSI using Laser Post-Ionisation (MALDI-2)., http://dx.doi.org/10.26434/chemrxiv-2023-sptss

Kohane FV; Johnstone C; Neumann DP; Gunawan I; Huang T; Vafaee F; Chaffer CL; Lock JG, Epithelial–mesenchymal cell state heterogeneity predetermines differential phospho-signaling responses to EGF stimulation, http://dx.doi.org/10.1101/2025.07.05.658545

King HE; O’Connell S; Kavanagh D; Mason S; McCool C; Fernandez-Chamorro J; Chaffer C; Clark SJ; Vieira HGS; Sterne-Weiler T; Weatheritt RJ, Isoform-specific single-cell perturb-seq reveals distinct functions of alternative promoters in drug response, http://dx.doi.org/10.1101/2025.07.14.664827

Sahoo S; Ramu S; Nair MG; Pillai M; San Juan BP; Milioli HZ; Mandal S; Naidu CM; Mavatkar AD; Subramaniam H; Neogi AG; Chaffer CL; Prabhu JS; Somarelli JA; Jolly MK, Multi-modal transcriptomic analysis unravels enrichment of hybrid epithelial/mesenchymal state and enhanced phenotypic heterogeneity in basal breast cancer, http://dx.doi.org/10.1101/2023.09.30.558960

Krishnaswamy S; Tong A; Kuchroo M; Gupta S; Venkat A; Juan BS; Rangel L; Zhu B; Lock J; Chaffer C, Revealing dynamic temporal regulatory networks driving cancer cell state plasticity with neural ODE-based optimal transport, http://dx.doi.org/10.21203/rs.3.rs-3605296/v1

Sun X; Gupta S; Tong A; Kuchroo M; Bhaskar D; Liu C; Venkat A; San Juan BP; Rangel L; Rodriguez V; Lock JG; Chaffer CL; Krishnaswamy S, Revealing dynamic temporal trajectories and underlying regulatory networks with Cflows, http://dx.doi.org/10.1101/2023.03.28.534644

Gration B; Chai RC; Young SG; Sergio CM; Skorokhodova E; Smith JT; Castro-Martinez A; Bray A; Lin X; Yan C; Kao J; Perram J; Lai S; Lau L; Weilbaecher KN; Moore J; Pocock N; Chaffer CL; Center J; Phan TG; McCaughan G; Croucher PI, Romosozumab Safely Restores Bone Mass in Multiple Myeloma via Osteoblast Reprogramming: A Phase IIa Study, http://dx.doi.org/10.64898/2026.07.02.26357196

Amodio M; Youlten SE; Venkat A; San Juan BP; Chaffer C; Krishnaswamy S, Single-Cell Multi-Modal GAN (scMMGAN) reveals spatial patterns in single-cell data from triple negative breast cancer, http://dx.doi.org/10.1101/2022.07.04.498732

San Juan BP; Hediyeh-Zadeh S; Rangel L; Milioli HH; Rodriguez V; Bunkum A; Kohane FV; Purcell CA; Bhuva DD; Kurumlian A; Castillo L; Lim E; Gill AJ; Ganju V; Dear R; O’Toole S; Vargas AC; Hickey TE; Goldstein LD; Lock JG; Davis MJ; Chaffer CL, Targeting phenotypic plasticity prevents metastasis and the development of chemotherapy-resistant disease, http://dx.doi.org/10.1101/2022.03.21.22269988

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