Brock Lab at UT Austin Cancer Bioengineering
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Pub​lications 

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Lineage Tracing Reveals Clone-Specific Responses to Doxorubicin in Triple-Negative Breast Cancer
Morgan, D., Gardner, A.L., Brock, A. (2025)
bioRxiv
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Mapping cell-cell fusion at single-cell resolution
Gardner, A. L., Zheng, L., Howland, K., Saunders, A., Ramirez, A., Parker, P., Iloegbunam, C., Morgan, D., Jost, T. A., & Brock, A. (2025)
​bioRxiv

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Differentiation Protocol-Dependent Variability in hiPSC-Derived Endothelial Progenitor Functionality
Stern, B., Meng, S., Larsen, B., Brock, A., Zoldan, J. (2025)
Regenerative Engineering and Translational Medicine
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A mathematical model for predicting the spatiotemporal response of breast cancer cells treated with doxorubicin
Miniere, H. , Lima ,E.,  Lorenzo ,G., Hormuth ,D., Ty ,S., Brock, A., Yankeelov, T. (2024). 
Cancer Biology & Therapy
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Pycashier: cash in on DNA barcode tags.
Morgan, D., Brock, A. (2024)
Journal of Open Source Software
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Computational identification of surface markers for isolating distinct subpopulations from heterogeneous cancer cell populations
Gardner, A.L., Jost, T.A., Morgan, D., Brock, A. (2024)
npj Systems Biology and Applications 
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Genetic variation drives cancer cell adaptation to ECM stiffness
Wang, T.-C., Sawhney, S., Morgan, D., Bennett, R. L., Rashmi, R., Estecio, M. R., Brock, A., Singh, I., Baer, C. F., Licht, J. D., Lele, T. P. (2024)
Proceedings of the National Academy of Sciences

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Cellular barcoding tracks heterogeneous clones through selective pressures and phenotypic transitions
Howland K, Brock A. (2023)
Trends Cancer
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Modeling collective cell behavior in cancer: perspectives from an interdisciplinary conversation
Adler F, Anderson A.R.A., Bhushan A, Bogdan P, Bravo-Cordero JJ, Brock A, Chen Y, Cukierman E, DelGiorno KE, Denis GV, Ferrall-Fairbanks M, Gartner Z, Germain R, Gordon DM, Hunter G, Jolly MK, Karacosta LG, Mythreye K, Katira P, Kulkarni RP, Kutys ML, Lander AD, Laughney AM, Levine H, Lou E; Lowenstein PR, Masters KS, Pe'er D, Peyton SR, Platt MO, Purvis JE, Quon G, Richer JK, Riddle NC, Rodriguez A, Snyder JC,  Szeto GL, Tomlin CJ, Yanai I, Zervantonakis I, Dueck HR. (2023)
Cell Systems
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Quantification of long-term doxorubicin response dynamics in breast cancer cell lines to direct treatment schedules
Howard GR, Jost TA, Yankeelov TE, Brock A (2022)

PLOS Computational Biology
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Integration of quantitative methods and mathematical approaches for the modeling of cell proliferation dynamics
Cotner M*, Meng S*, De Santiago C, Gardner A, Jost T, Brock A. (2022)
American Journal of Physiology: Cell Physiology
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Functionalized Lineage Tracing for the Study and Manipulation of Heterogeneous Cell Populations
Gardner A*, Morgan D*, Al’Khafaji A, Brock A. (2022)
Biomedical Engineering Technologies.
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Applications of high-resolution clone tracking technologies in cancer
Morgan D, Jost TA, DeSantiago C, Brock, A. (2021)
Current Opinion in Biomedical Engineering
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An experimental-mathematical approach to predict tumor cell growth as a function of glucose availability in breast cancer cell lines
Yang J, Virostko J, Hormuth DA, Liu J, Brock A, Kowalski J, Yankeelov TE (2021)
PLOS One
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Multifunctional barcoding with ClonMapper enables high-resolution study of clonal dynamics during tumor evolution and treatment
Gutierrez C*, Al’Khafaji AM*, Brenner E*, Johnson KE, Gohil SH, Lin Z, Knisbacher BA, Durrett RE, Li S, Parvin S, Biran A, Zhang W, Rassenti L, Kipps TJ, Livak KJ, Neuberg D, Letai A, Getz G, Wu CJ, Brock A. (2021)
Nature Cancer
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A time-resolved experimental–mathematical model for predicting the response of glioma cells to single-dose radiation therapy
Liu J, Hormuth DA II, Davis T, Yang J, McKenna MT, Jarrett AM, Enderling H, Brock A, Yankeelov TE (2021)
Integrative Biology
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Integrating quantitative assays with biologically-based mathematical modeling for predictive oncology
Kazerouni AS, Gadde M, Gardner A, Hormuth DA, Jarrett AM, Johnson KE, Lima EABF, Lorenzo G, Phillips C, Brock A, Yankeelov TE (2020)
iScience
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Integrating multimodal data sets into a mathematical framework to describe and predict therapeutic resistance in cancer
Johnson K, Howard G, Morgan D, Brenner E, Gardner A, Durrett R, Mo W, Al’Khafaji A, Sontag E, Jarrett A, Yankeelov T, Brock A (2020)​

IOP Science Physical Biology
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A hybrid model of tumor growth and angiogenesis: In silico experiments
Phillips CM, Lima EABF, Woodall RT, Brock A, Yankeelov TE (2020)
PLOS One
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Single cell transcriptome profiling of the human alcohol-dependent brain
Brenner E, Tiwari GR, Liu Y, Brock A, Mayfield RD. (2020)

Human Molecular Genetics
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Emerging Concepts and Tools in Cell Mechanomemory
Lele TP, Brock A, Peyton S. (2019)

Annals of Biomedical Engineering 
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Cancer cell population growth kinetics at low densities deviate from exponential growth model and suggest an Allee effect
Johnson K, Howard G, Mo W, Strasser M, Lima, E ABF, Huang S, Brock A. (2019)
PLOS Biology
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Single-cell RNA sequencing of lung adenocarcinoma reveals heterogeneity of immune response–related genes
Ma KY, Schonnesen AA, Brock A, Van Den Berg C, Eckhardt SG, Liu Z, Jiang N. (2019)
JCI Insight
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Mathematical models of tumor cell proliferation: A review of the literature
Jarrett AM, Lima E ABF, Hormuth DA, McKenna MT, Feng X, Ekrut DA, Resende AC, Brock A, Yankeelov TE. (2018)

Expert Review of Anticancer Therapy
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A Phenotypic Basis for Matrix Stiffness-Dependent Chemoresistance of Breast Cancer Cells to Doxorubicin
Joyce MH, Lu C, James E, Hegab R, Allen S, Suggs L, Brock A. (2018)
Frontiers in Oncology

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Control of Lineage-Specific Gene Expression by Functionalized gRNA Barcodes
Al’Khafaji A, Deatherage D, Brock A. (2018)
ACS Synthetic Biology
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A multi-state model of chemoresistance to characterize phenotypic dynamics in breast cancer
Howard GR, Johnson KE, Ayala AR, Yankeelov TE, Brock A. (2018)

Nature Scientific Reports
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Precision Medicine with Imprecise Therapy: Computational Modeling for Chemotherapy in Breast Cancer
McKenna MT, Weis JA, Brock A, Quaranta V, Yankeelov TE. (2018)
Translational Oncology
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​Precision Oncology: Between Vaguely Right and Precisely Wrong

Brock A and Huang, S. (2017)
Cancer Research
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Novel Nanomaterials Enable Biomimetic Models of the Tumor Microenvironment
Joyce MH, Allen S, Suggs L,
Brock A. (2017)
Journal of Nanotechnology
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Intraductal Delivery to Rabbit Mammary Gland
Clark A, Bird N,
Brock A. (2017)
Journal of Visualized Experiments
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Control of cancer formation by intrinsic genetic noise and microenviromental cues
Brock A, Krause S, Ingber DE. (2015)

Nature Reviews Cancer
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Nanoparticle targeting of anti-cancer drugs that alter intracellular signaling or influence the tumor microenvironment
Kanapathipillai M,
Brock A, Ingber D. (2014)

Advanced Drug Delivery Reviews
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Silencing HoxA1 by Intraductal Injection of siRNA Lipidoid Nanoparticles Prevents Mammary Tumor Progression in Mice
Brock A, Krause S, Li H., Kowalski M, Goldberg M, Collins JJ, Ingber DE. (2014)
Science Translational Medicine
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Non-Darwinian dynamics in therapy-induced cancer drug resistance
Pisco, A.*, Brock, A.*, Zhou, J.
et al (2013)
Nature Communications
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Intraductal Injection for Localized Drug Delivery to the Mouse Mammary Gland
Krause S, Brock A, Ingber DE. (2013)
Journal of Visualized Experiments
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Cellular Reprogramming: A New Technology Frontier in Pharmaceutical Research
Brock, A., Goh, HT., Yang, B. et al. (2012)
Pharmaceutical Research
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Non-genetic heterogeneity — a mutation-independent driving force for the somatic evolution of tumours
Brock, A., Chang, H. & Huang, S. (2009)
Nature Reviews Genetics
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Control of the direction of lamellipodia extension through changes in the balance between Rac and Rho activities
Brock AL, Ingber DE. (2006)

Molecular & Cellular Biomechanics
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High betweenness proteins in the yeast protein interaction network
Joy MP,
Brock A, Ingber, DE, Huang S. (2005)
BioMed Research Online
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Identification of a distinct class of cytoskeleton-associated mRNAs using microarray technology
Brock, A., Huang, S. & Ingber, D.E. (2003)

BMC Cell Biology
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Geometric determinants of directional cell motility revealed using microcontact printing
Brock A, Chang E, Ho CC, LeDuc, P, Jiang X, Whitesides GM, Ingber DE. (2003)

Langmuir
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Directional control of lamellipodia extension by constraining cell shape and orienting cell tractional forces
Parker KK,
Brock AL, Brangwynne C, Mannix, RJ, Wang N, Ostuni E, Geisse, NA, Adams JC, Whitesides GM, Ingber DE. (2002)
The FASEB Journal
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The S. cerevisiae Mag1 3-methyladenine DNA glycosylase modulates susceptibility to homologous recombination
Hendricks CA, Razlog M, Matsuguchi T, Goyal A,
Brock AL, Engelward BP. (2002)
DNA Repair
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Isolation of high molecular length DNA: alfalfa, pea, rice, sorghum, soybean and spinach
Bennett PV, Hada M, Hidema J,
Lepre A, Pope LC, Quaite FE, Sullivan JH, Takayanagi S, Sutherland JC, Sutherland BM. (2001)
Crop Science
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A robust, inexpensive filter for blocking UVC radiation in broad-spectrum ‘UVB’ lamps

Lepre A, Sutherland JC, Trunk JG, Sutherland BM. (1998)

Journal of Photochemistry and Photobiology B: Biology
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