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Category: Publications

SimBioSys June 16, 2023 AACR 2023, Publications

A rapid, non-invasive test to determine HER2-low status in triple negative breast cancer (TNBC) patients

The potential to expand the current treatment for HER2-low and -zero patients, highlights the limitations of traditional HER2 assessment, including HER2 intra-tumoral heterogeneity, differential IHC pathology staining, and inter-reader variability. We therefore sought to address how to optimally identify HER2-low…

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SimBioSys June 16, 2023 Bioinformatics advances, Publications

Computational speed-up of large-scale, single-cell model simulations via a fully integrated SBML-based format

Here, we developed two solutions to communication bottlenecks that speed-up simulation by ∼4-fold for hybrid stochastic-deterministic simulations and by over 100-fold for fully deterministic simulations.

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SimBioSys June 16, 2023 BMC, Publications

Novel computational biology modeling system can accurately forecast response to neoadjuvant therapy in early breast cancer

Here, we perform a study in an independent cohort of early-stage and locally advanced breast cancer patients to forecast tumor response to NAT and assess the stability of a previously validated biophysical simulation platform.

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SimBioSys June 16, 2023 Frontiers, Publications

Next generation immuno-oncology tumor profiling using a rapid, non-invasive, computational biophysics biomarker in early-stage breast cancer

Here, we perform a study in an independent cohort of early-stage and locally advanced breast cancer patients to forecast tumor response to NAT and assess the stability of a previously validated biophysical simulation platform.

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SimBioSys December 20, 2022 ACoP13, Publications

Biophysical simulation approach for dose escalation in Phase I clinical trials

Here we performed a proof-of-concept study using trastuzumab emtansine (TDM1), a targeted drug for HER2-enriched breast cancer, to demonstrate how biophysical modeling can support dose selection in phase I clinical trials.

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SimBioSys October 14, 2022 Publications, Science Direct

Highly accurate response prediction in high-risk early breast cancer patients using a biophysical simulation platform

Pathologic complete response (pCR) to neoadjuvant chemotherapy (NAC) in early breast cancer (EBC) is largely dependent on breast cancer subtype, but no clinical-grade model exists to predict response and guide selection of treatment. A biophysical simulation of response to NAC…

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SimBioSys May 27, 2022 ASCO 2022, Publications

Using a multimodal approach to elucidate racial disparities in breast cancer biology by integrating tumor imaging and -omics data

Abstract Background: Race-related differences in breast cancer incidence and clinical outcome have been well documented, with many studies focusing on socioeconomic determinants contributing to African American (AA) breast cancer patients having higher mortality rates. Far less is understood about the…

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SimBioSys May 27, 2022 ASCO 2022, Publications

Multimodal approach to capture spatially resolved single-cell tumor heterogeneity in breast cancer

Abstract Tumor heterogeneity is known to play a key role in drug response and resistance. However, knowledge of tumor heterogeneity is largely limited to genetics and biopsy samples representing one region of the tumor. The study of spatial tumor heterogeneity…

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SimBioSys May 27, 2022 ASCO 2022, Publications

Novel imaging marker for low- and mid-recurrence score patients at risk for recurrence

Abstract Background: The 21-gene (Oncotype DX) recurrence score (RS) has been utilized as a prognostic assay in patients with hormone receptor-positive (HR+), human epidermal growth factor receptor 2-negative (HER2–) breast cancer. The results stratify patients into low-, mid- and high-risk…

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SimBioSys May 27, 2022 ASCO 2022, Publications

Prediction of Response to Neoadjuvant Therapy (NAT) in Early Breast Cancer (EBC) at Community Hospitals – SimBioSys® TumorScope(TM) Validation Study

Abstract While most cancer patients are treated at community hospitals, specialized equipment, diagnostic tests, and therapeutic regimens are generally validated at academic settings. Here we present a novel approach to precision medicine to improve outcomes in breast cancer care in…

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