NPJ Systems Biology and Applications最新文献

筛选
英文 中文
QSP modeling of loncastuximab tesirine with T-cell-dependent bispecific antibodies guides dose-regimen strategy. 使用t细胞依赖性双特异性抗体的loncastuximab tesirine QSP模型指导剂量方案策略。
IF 3.5 2区 生物学
NPJ Systems Biology and Applications Pub Date : 2025-06-11 DOI: 10.1038/s41540-025-00544-8
Yuezhe Li, A Katharina Wilkins, Jimena Davis, Timothy Knab, Marie Toukam, Joseph P Boni, Daniel C Kirouac
{"title":"QSP modeling of loncastuximab tesirine with T-cell-dependent bispecific antibodies guides dose-regimen strategy.","authors":"Yuezhe Li, A Katharina Wilkins, Jimena Davis, Timothy Knab, Marie Toukam, Joseph P Boni, Daniel C Kirouac","doi":"10.1038/s41540-025-00544-8","DOIUrl":"10.1038/s41540-025-00544-8","url":null,"abstract":"<p><p>Antibody-drug conjugates (ADCs) and T-cell-dependent bispecific antibodies (TDBs) show single-agent efficacy in relapsed/refractory (R/R) lymphomas. While coadministering therapeutics with orthogonal mechanisms of action may safely enhance efficacy, testing every potential combination regimen is infeasible in the clinic. An integrated quantitative systems pharmacology model of a CD19-targeted ADC and CD3/CD20-targeted TDBs was developed to predict combination regimen efficacy in R/R diffuse large B-cell lymphoma (DLBCL). Clinically validated models of the ADC loncastuximab tesirine and TDB mosunetuzumab were combined and extended to additional TDBs (glofitamab and epcoritamab). Virtual DLBCL populations were calibrated using monotherapy response data, and tumor volume dynamics simulated under alternate combination dosing regimens and patient scenarios. Additive antitumor effects were predicted from the fourth cycle onward, with combination efficacy insensitive to loncastuximab tesirine dose reductions or patient lymphopenias. Results of the LOTIS-7 study (NCT04970901) will soon be available to assess these predictions.</p>","PeriodicalId":19345,"journal":{"name":"NPJ Systems Biology and Applications","volume":"11 1","pages":"63"},"PeriodicalIF":3.5,"publicationDate":"2025-06-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12159156/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144275487","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Assessment of plasma derived microbiome profiles in lung cancer using targeted and whole exome sequencing. 使用靶向和全外显子组测序评估肺癌血浆来源微生物组谱。
IF 3.5 2区 生物学
NPJ Systems Biology and Applications Pub Date : 2025-06-07 DOI: 10.1038/s41540-025-00536-8
Vichitra Behel, Supriya Hait, Vanita Noronha, Aniket Chowdhury, Pratik Chandrani, Vijay Patil, Nandini Menon, Rohit Mishra, Bhargavi Bawaskar, Ganesh Dahimbekar, Minit Shah, Rajiv Kaushal, Vidya Veldore, Hitesh Goswami, Atul Bharde, Jayant Khandare, Gowhar Shafi, Anuradha Choughule, Neetu Tyagi, Sanket Desai, Kumar Prabhash, Amit Dutt
{"title":"Assessment of plasma derived microbiome profiles in lung cancer using targeted and whole exome sequencing.","authors":"Vichitra Behel, Supriya Hait, Vanita Noronha, Aniket Chowdhury, Pratik Chandrani, Vijay Patil, Nandini Menon, Rohit Mishra, Bhargavi Bawaskar, Ganesh Dahimbekar, Minit Shah, Rajiv Kaushal, Vidya Veldore, Hitesh Goswami, Atul Bharde, Jayant Khandare, Gowhar Shafi, Anuradha Choughule, Neetu Tyagi, Sanket Desai, Kumar Prabhash, Amit Dutt","doi":"10.1038/s41540-025-00536-8","DOIUrl":"10.1038/s41540-025-00536-8","url":null,"abstract":"<p><p>Microbial infections contribute to ~20% of malignancy. Plasma-derived cell-free DNA presents a promising avenue for non-invasive cancer diagnostics, capturing microbial signatures. We analyzed 261 plasma from 50 patients with lung adenocarcinoma by targeted and whole exome sequencing at 10,000 × and 340 × depth, respectively. Comparative analyses of Kraken 2 and IPD2 reveal substantial discrepancies, highlighting challenges in microbial DNA quantification and the need for stringent bioinformatics approaches to ensure accurate cancer microbiome profiling.</p>","PeriodicalId":19345,"journal":{"name":"NPJ Systems Biology and Applications","volume":"11 1","pages":"62"},"PeriodicalIF":3.5,"publicationDate":"2025-06-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12145415/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144248946","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Changes in epistatic green-beard alleles induce domain shift in hypostatic rock-paper-scissors-like green-beard competition. 上位性绿胡子等位基因的变化引起了实体类石头剪刀布绿胡子竞争的结构域转移。
IF 3.5 2区 生物学
NPJ Systems Biology and Applications Pub Date : 2025-06-07 DOI: 10.1038/s41540-025-00541-x
Jibeom Choi
{"title":"Changes in epistatic green-beard alleles induce domain shift in hypostatic rock-paper-scissors-like green-beard competition.","authors":"Jibeom Choi","doi":"10.1038/s41540-025-00541-x","DOIUrl":"10.1038/s41540-025-00541-x","url":null,"abstract":"<p><p>Myxobacteria with compatible TraA receptors can exchange materials located on the outer membrane. Such outer membrane exchange (OME) is an efficient strategy to help clonemates. If OME occurs between cells carrying different sitAI repertoires, however, transferred toxins may harm the recipient. While traA and sitAI can be categorized as green-beard genes, the functionality of sitAI is heavily reliant on traA. In other words, the harming effect of the sitAI is invalidated without OME. Hence, I termed traA and sitAI epistatic and hypostatic green-beard genes, respectively, and proposed a handshake-dependent rock-paper-scissors-like (RPSL) model. The simulation results imply that evolutionary pressure for traA diversification is context-dependent. The competition among aggressors, susceptibles, and freeloaders determined by hypostatic sitAI repertoire exhibits cyclic dominance, yet involves the possibility of divergent dynamics. By changing the epistatic green-beard traA alleles, susceptibles can avoid invasion of the aggressors, establishing another domain of the RPSL competition (domain shift). Furthermore, I mathematically analyzed the expected relatedness between myxobacteria from the compatibility of epistatic and hypostatic green-beard alleles. Not only can it explain the polymorphism of myxobacterial traA and sitAI alleles, but the model can also be expanded to investigate the social interactions of fusogenic cancer cells.</p>","PeriodicalId":19345,"journal":{"name":"NPJ Systems Biology and Applications","volume":"11 1","pages":"61"},"PeriodicalIF":3.5,"publicationDate":"2025-06-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12145440/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144248947","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Next generation lineage tracing and its applications to unravel development. 下一代谱系追踪及其在揭示发展中的应用。
IF 3.5 2区 生物学
NPJ Systems Biology and Applications Pub Date : 2025-06-05 DOI: 10.1038/s41540-025-00542-w
Spencer Short, Rodrigo García-Tejera, Linus J Schumacher, Daniel L Coutu
{"title":"Next generation lineage tracing and its applications to unravel development.","authors":"Spencer Short, Rodrigo García-Tejera, Linus J Schumacher, Daniel L Coutu","doi":"10.1038/s41540-025-00542-w","DOIUrl":"10.1038/s41540-025-00542-w","url":null,"abstract":"<p><p>Lineage tracing remains an essential approach towards understanding cell fate, tissue formation, and human development. Herein, we review advancements in lineage tracing techniques, the integration of sequencing and imaging technologies, and computational tools for analysis. We report on recent lineage tracing applications, including integrative techniques (MADM-CloneSeq), in situ hybridization (DART-FISH), and modern workflows (BaSISS), which hold an essential role in our aim to unravel lineage hierarchies and, ultimately, human development.</p>","PeriodicalId":19345,"journal":{"name":"NPJ Systems Biology and Applications","volume":"11 1","pages":"60"},"PeriodicalIF":3.5,"publicationDate":"2025-06-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12141437/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144234667","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Evaluating PSA dynamics for predicting androgen deprivation failure with a patient specific prostate cancer model. 用患者特异性前列腺癌模型评估PSA动态预测雄激素剥夺失败。
IF 3.5 2区 生物学
NPJ Systems Biology and Applications Pub Date : 2025-06-02 DOI: 10.1038/s41540-025-00540-y
Shengchao Zhao, Evan T Keller, Tyler Robinson, Jinlu Dai, Alyssa Ghose, Ajjai Alva, Trachette Jackson, Harsh Vardhan Jain
{"title":"Evaluating PSA dynamics for predicting androgen deprivation failure with a patient specific prostate cancer model.","authors":"Shengchao Zhao, Evan T Keller, Tyler Robinson, Jinlu Dai, Alyssa Ghose, Ajjai Alva, Trachette Jackson, Harsh Vardhan Jain","doi":"10.1038/s41540-025-00540-y","DOIUrl":"10.1038/s41540-025-00540-y","url":null,"abstract":"<p><p>Prostate cancer is the second leading cause of cancer-related death among American men, with a new diagnosis made every 2 min in the United States. Advanced cases are commonly treated with androgen deprivation therapy (ADT). Despite its effectiveness, treatment failure remains inevitable for many patients, necessitating better predictive tools for clinical management of disease. This study presents a data-driven mathematical modeling approach that integrates patient-specific prostate-specific antigen (PSA) time-course data with experimentally measured PSA expression rates to improve the prediction of ADT failure. Our findings suggest that post-nadir PSA dynamics, rather than initial decline, hold greater prognostic value and can inform PSA monitoring schedules. By employing virtual clones of individual patients, our model integrates routinely collected PSA measurements to dynamically predict ADT failure probabilities at future clinic visits. If implemented in clinical practice, this personalized framework could empower oncologists to make proactive, informed treatment decisions and guide timely interventions.</p>","PeriodicalId":19345,"journal":{"name":"NPJ Systems Biology and Applications","volume":"11 1","pages":"59"},"PeriodicalIF":3.5,"publicationDate":"2025-06-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12130521/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144209053","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Translational disease modeling of peripheral blood identifies type 2 diabetes biomarkers predictive of Alzheimer's disease. 外周血转化疾病模型确定2型糖尿病生物标志物预测阿尔茨海默病。
IF 3.5 2区 生物学
NPJ Systems Biology and Applications Pub Date : 2025-05-29 DOI: 10.1038/s41540-025-00539-5
Brendan K Ball, Jee Hyun Park, Alexander M Bergendorf, Elizabeth A Proctor, Douglas K Brubaker
{"title":"Translational disease modeling of peripheral blood identifies type 2 diabetes biomarkers predictive of Alzheimer's disease.","authors":"Brendan K Ball, Jee Hyun Park, Alexander M Bergendorf, Elizabeth A Proctor, Douglas K Brubaker","doi":"10.1038/s41540-025-00539-5","DOIUrl":"10.1038/s41540-025-00539-5","url":null,"abstract":"<p><p>Type 2 diabetes (T2D) is a significant risk factor for Alzheimer's disease (AD). Despite multiple studies reporting this connection, the mechanism by which T2D exacerbates AD is poorly understood. It is challenging to design studies that address co-occurring and comorbid diseases, limiting the number of existing evidence bases. To address this challenge, we expanded the applications of a computational framework called Translatable Components Regression (TransComp-R), initially designed for cross-species translation modeling, to perform cross-disease modeling to identify biological programs of T2D that may exacerbate AD pathology. Using TransComp-R, we combined peripheral blood-derived T2D and AD human transcriptomic data to identify T2D principal components predictive of AD status. Our model revealed genes enriched for biological pathways associated with inflammation, metabolism, and signaling pathways from T2D principal components predictive of AD. The same T2D PC predictive of AD outcomes unveiled sex-based differences across the AD datasets. We performed a gene expression correlational analysis to identify therapeutic hypotheses tailored to the T2D-AD axis. We identified six T2D and two dementia medications that induced gene expression profiles associated with a non-T2D or non-AD state. We next assessed our blood-based T2DxAD biomarker signature in post-mortem human AD and control brain gene expression data from the hippocampus, entorhinal cortex, superior frontal gyrus, and postcentral gyrus. Using partial least squares discriminant analysis, we identified a subset of genes from our cross-disease blood-based biomarker panel that significantly separated AD and control brain samples. Finally, we validated our findings using single cell RNA-sequencing blood data of AD and healthy individuals and found erythroid cells contained the most gene expression signatures to the T2D PC. Our methodological advance in cross-disease modeling identified biological programs in T2D that may predict the future onset of AD in this population. This, paired with our therapeutic gene expression correlational analysis, also revealed alogliptin, a T2D medication that may help prevent the onset of AD in T2D patients.</p>","PeriodicalId":19345,"journal":{"name":"NPJ Systems Biology and Applications","volume":"11 1","pages":"58"},"PeriodicalIF":3.5,"publicationDate":"2025-05-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12122922/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144180903","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Deep exploration of logical models of cell differentiation in human preimplantation embryos. 人类着床前胚胎细胞分化逻辑模型的深入探索。
IF 3.5 2区 生物学
NPJ Systems Biology and Applications Pub Date : 2025-05-27 DOI: 10.1038/s41540-025-00537-7
Mathieu Bolteau, Célia Messaoudi, Laurent David, Jérémie Bourdon, Carito Guziolowski
{"title":"Deep exploration of logical models of cell differentiation in human preimplantation embryos.","authors":"Mathieu Bolteau, Célia Messaoudi, Laurent David, Jérémie Bourdon, Carito Guziolowski","doi":"10.1038/s41540-025-00537-7","DOIUrl":"10.1038/s41540-025-00537-7","url":null,"abstract":"<p><p>The advent of single-cell transcriptomics (scRNA-seq) has provided unprecedented access to specific cell type signatures, including during transient developmental stages. One key expectation is to be able to model gene regulatory networks (GRNs) from the cell-type scRNA-seq signatures. However, most computed GRNs are static models and lack the ability to predict the effects of genetic or environmental perturbations. Here, we focus on the maturation process of the trophectoderm (TE), the outer layer of cells of human embryos, which is critical for their ability to attach to the endometrium. Addressing this challenge required overcoming two major limitations: (i) handling the search space generated by the high dimensionality of single-cell data, (ii) the lack of feasible perturbation data for certain biological systems, which limits validation or generation of dynamic models. To address these challenges, we created SCIBORG, a computational package designed to infer Boolean networks (BNs) of gene regulation by integrating single-cell transcriptomic data with prior knowledge networks. SCIBORG uses logic programming to manage the combinatorial explosion. It learns two distinct BN families for each of the two developmental stages studied (TE and mature TE) by identifying specific gene regulatory mechanisms. The comparison between these two BN families reveals different pathways, identifying potential key genes critical for trophectoderm maturation. In silico validation through cell classification into studied stages reveals balanced precision 67% - 73% for inferred BN families. We demonstrate that SCIBORG is a powerful tool that integrates the diversity between gene expression profiles of cells at two different stages of development in the construction of Boolean models.</p>","PeriodicalId":19345,"journal":{"name":"NPJ Systems Biology and Applications","volume":"11 1","pages":"57"},"PeriodicalIF":3.5,"publicationDate":"2025-05-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12117111/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144160678","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Bringing evolutionary cancer therapy to the clinic: a systems approach. 将进化癌症疗法引入临床:系统方法。
IF 3.5 2区 生物学
NPJ Systems Biology and Applications Pub Date : 2025-05-27 DOI: 10.1038/s41540-025-00528-8
Arina Soboleva, Irene Grossmann, Anne-Marie C Dingemans, Jafar Rezaei, Kateřina Staňková
{"title":"Bringing evolutionary cancer therapy to the clinic: a systems approach.","authors":"Arina Soboleva, Irene Grossmann, Anne-Marie C Dingemans, Jafar Rezaei, Kateřina Staňková","doi":"10.1038/s41540-025-00528-8","DOIUrl":"10.1038/s41540-025-00528-8","url":null,"abstract":"<p><p>Evolutionary cancer therapy (ECT) delays or forestalls the progression of metastatic cancer by adjusting treatment based on individual patient and disease characteristics. Clinical implementation of ECT can improve patient outcomes but faces technical and cultural challenges. To address those, we propose a systems approach incorporating systems modeling, problem structuring, and stakeholder engagement. This approach identifies and addresses barriers to implementation, ensuring the feasibility of ECT in clinical practice and enabling better metastatic cancer care.</p>","PeriodicalId":19345,"journal":{"name":"NPJ Systems Biology and Applications","volume":"11 1","pages":"56"},"PeriodicalIF":3.5,"publicationDate":"2025-05-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12117075/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144160677","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Model of metabolism and gene expression predicts proteome allocation in Pseudomonas putida. 代谢和基因表达模型预测恶臭假单胞菌蛋白质组分配。
IF 3.5 2区 生物学
NPJ Systems Biology and Applications Pub Date : 2025-05-24 DOI: 10.1038/s41540-025-00521-1
Juan D Tibocha-Bonilla, Vishant Gandhi, Chloe Lieng, Oriane Moyne, Rodrigo Santibáñez-Palominos, Karsten Zengler
{"title":"Model of metabolism and gene expression predicts proteome allocation in Pseudomonas putida.","authors":"Juan D Tibocha-Bonilla, Vishant Gandhi, Chloe Lieng, Oriane Moyne, Rodrigo Santibáñez-Palominos, Karsten Zengler","doi":"10.1038/s41540-025-00521-1","DOIUrl":"10.1038/s41540-025-00521-1","url":null,"abstract":"<p><p>The genome-scale model of metabolism and gene expression (ME-model) for Pseudomonas putida KT2440, iPpu1676-ME, provides a comprehensive representation of biosynthetic costs and proteome allocation. Compared to a metabolic-only model, iPpu1676-ME significantly expands on gene expression, macromolecular assembly, and cofactor utilization, enabling accurate growth predictions without additional constraints. Multi-omics analysis using RNA sequencing and ribosomal profiling data revealed translational prioritization in P. putida, with core pathways, such as nicotinamide biosynthesis and queuosine metabolism, exhibiting higher translational efficiency, while secondary pathways displayed lower priority. Notably, the ME-model significantly outperformed the M-model in alignment with multi-omics data, thereby validating its predictive capacity. Thus, iPpu1676-ME offers valuable insights into P. putida's proteome allocation and presents a powerful tool for understanding resource allocation in this industrially relevant microorganism.</p>","PeriodicalId":19345,"journal":{"name":"NPJ Systems Biology and Applications","volume":"11 1","pages":"55"},"PeriodicalIF":3.5,"publicationDate":"2025-05-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12103522/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144143115","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Personalizing neoadjuvant chemotherapy regimens for triple-negative breast cancer using a biology-based digital twin. 使用基于生物学的数字双胞胎个性化三阴性乳腺癌新辅助化疗方案。
IF 3.5 2区 生物学
NPJ Systems Biology and Applications Pub Date : 2025-05-23 DOI: 10.1038/s41540-025-00531-z
Chase Christenson, Chengyue Wu, David A Hormuth, Jingfei Ma, Clinton Yam, Gaiane M Rauch, Thomas E Yankeelov
{"title":"Personalizing neoadjuvant chemotherapy regimens for triple-negative breast cancer using a biology-based digital twin.","authors":"Chase Christenson, Chengyue Wu, David A Hormuth, Jingfei Ma, Clinton Yam, Gaiane M Rauch, Thomas E Yankeelov","doi":"10.1038/s41540-025-00531-z","DOIUrl":"10.1038/s41540-025-00531-z","url":null,"abstract":"<p><p>Despite advances triple negative breast cancer treatment, ~50% of patients will not achieve a pathological complete response prior to surgery with standard of care neoadjuvant therapy (NAT). We hypothesize that personalized regimens for NAT could significantly improve patient outcomes, which we address with a patient-specific digital twin framework. This framework is established by calibrating a biology-based model to longitudinal magnetic resonance images with approximate Bayesian computation. We then apply optimal control theory to either (1) reduce the final tumor cell number with equivalent dose, or (2) reduce the total dose of NAT with equivalent response. For (1), the personalized regimens (n = 50) achieved a median (range) reduction in the final tumor cell number of 17.62% (0.00-37.36%). For (2), the personalized regimens achieved a median reduction in dose delivered of 12.62% (0.00-56.55%) when compared to the standard-of-care regimen, while providing statistically equivalent tumor control.</p>","PeriodicalId":19345,"journal":{"name":"NPJ Systems Biology and Applications","volume":"11 1","pages":"53"},"PeriodicalIF":3.5,"publicationDate":"2025-05-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12102339/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144132642","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
0
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
确定
请完成安全验证×
相关产品
×
本文献相关产品
联系我们:info@booksci.cn Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。 Copyright © 2023 布克学术 All rights reserved.
京ICP备2023020795号-1
ghs 京公网安备 11010802042870号
Book学术文献互助
Book学术文献互助群
群 号:604180095
Book学术官方微信