Works matching IS 20567189 AND DT 2025 AND VI 11 AND IP 1

Results: 80

Geometric representations of brain networks can predict the surgery outcome in temporal lobe epilepsy.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00562-6

By:

Guillemaud, Martin;
Longhena, Alice;
Cousyn, Louis;
Frazzini, Valerio;
Mathon, Bertrand;
Navarro, Vincent;
Chavez, Mario

Publication type:

Article

Effects of resource packaging on the adaptative and pleiotropic consequences of evolution.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00558-2

By:

Ahlawat, Neetika;
Venkataraman, Pavithra;
Brajesh, Raman Gulab;
Saini, Supreet

Publication type:

Article

The effect of stochastic noise on antibiotic resistance in intestinal flora.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00548-4

By:

Hu, Aofei;
Yang, Ling;
Yan, Jie

Publication type:

Article

Author Correction: Systems medicine disease maps: community-driven comprehensive representation of disease mechanisms.

Published in:

2025

By:

Mazein, Alexander;
Ostaszewski, Marek;
Kuperstein, Inna;
Watterson, Steven;
Le Novère, Nicolas;
Lefaudeux, Diane;
De Meulder, Bertrand;
Pellet, Johann;
Balaur, Irina;
Saqi, Mansoor;
Nogueira, Maria Manuela;
HeFeng, Feng Q.;
Parton, Andrew;
Lemonnier, Nathanaël;
Gawron, Piotr;
Gebel, Stephan;
Hainaut, Pierre;
Ollert, Markus;
Dogrusoz, Ugur;
Barillot, Emmanuel

Publication type:

Correction Notice

Author Correction: A roadmap towards personalized immunology.

Published in:

2025

By:

Delhalle, Sylvie;
Bode, Sebastian F. N.;
Balling, Rudi;
Ollert, Markus;
HeFeng, Feng Q.

Publication type:

Correction Notice

Data-driven synthetic microbes for sustainable future.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00556-4

By:

Mariam, Iqra;
Rova, Ulrika;
Christakopoulos, Paul;
Matsakas, Leonidas;
Patel, Alok

Publication type:

Article

Genome-scale metabolic model-guided systematic framework for designing customized live biotherapeutic products.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00555-5

By:

Lee, Yi Qing;
Choi, Yoon-Mi;
Park, Seo-Young;
Kim, Su-Kyung;
Lee, Minouk;
Kim, Dongseok;
Koduru, Lokanand;
Lakshmanan, Meiyappan;
Jung, Sangyong;
Kim, Mi Jin;
Choe, Yon Ho;
Lee, Dong-Yup

Publication type:

Article

Single-cell transcriptomic profiling of immune landscape in triple-negative breast cancer during neoadjuvant chemotherapy.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00549-3

By:

Patysheva, M. R.;
Iamshchikov, P. S.;
Fedorenko, A. A.;
Bragina, O. D.;
Vostrikova, M. A.;
Garbukov, E. Y.;
Cherdyntseva, N. V.;
Denisov, E. V.;
Gerashchenko, T. S.

Publication type:

Article

Author Correction: Mitochondria interaction networks show altered topological patterns in Parkinson's disease.

Published in:

2025

By:

Zanin, Massimiliano;
Santos, Bruno F. R.;
Antony, Paul M. A.;
Berenguer-Escuder, Clara;
Larsen, Simone B.;
Hanss, Zoé;
Barbuti, Peter A.;
Baumuratov, Aidos S.;
Grossmann, Dajana;
Capelle, Christophe M.;
Weber, Joseph;
Balling, Rudi;
Ollert, Markus;
Krüger, Rejko;
Diederich, Nico J.;
HeFeng, Feng Q.

Publication type:

Correction Notice

Personalized cancer treatment strategies incorporating irreversible and reversible drug resistance mechanisms.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00547-5

By:

He, Wei;
McCoy, Matthew D.;
Riggins, Rebecca B.;
Beckman, Robert A.;
Yeang, Chen-Hsiang

Publication type:

Article

Modeling the use of transient ligand binding information by AMPA receptors.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00546-6

By:

Braunstein, Helena;
Ventura, Alejandra C.;
Colman-Lerner, Alejandro

Publication type:

Article

Temporal analysis of doxorubicin-induced cardiac toxicity and hypertrophy.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00545-7

By:

Lin, Yu-Te;
Lee, Yi-Ju;
Tseng, Wen-Wei;
Chen, Zih-Hua;
Hsieh, Huai-Ching;
Lin, Ko-Hong;
Su, Jin-Yu;
Wei, An-Chi

Publication type:

Article

A supervised machine learning approach with feature selection for sex-specific biomarker prediction.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00523-z

By:

Meyer, Luke;
Mulder, Danielle;
Wallace, Joshua

Publication type:

Article

QSP modeling of loncastuximab tesirine with T-cell-dependent bispecific antibodies guides dose-regimen strategy.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00544-8

By:

Li, Yuezhe;
Wilkins, A. Katharina;
Davis, Jimena;
Knab, Timothy;
Toukam, Marie;
Boni, Joseph P.;
Kirouac, Daniel C.

Publication type:

Article

Region-specific mean field models enhance simulations of local and global brain dynamics.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00543-9

By:

Lorenzi, Roberta Maria;
Palesi, Fulvia;
Casellato, Claudia;
Gandini Wheeler-Kingshott, Claudia A. M.;
D'Angelo, Egidio

Publication type:

Article

Automated model refinement using perturbation-observation pairs.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00532-y

By:

Park, Kyu Hyong;
Rozum, Jordan C.;
Albert, Réka

Publication type:

Article

Mathematical modeling and mechanisms of HIV latency for personalized anti latency therapies.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00538-6

By:

Rasi, Gianmarco;
Emili, Elena;
Conway, Jessica M.;
Cotugno, Nicola;
Palma, Paolo

Publication type:

Article

Changes in epistatic green-beard alleles induce domain shift in hypostatic rock-paper-scissors-like green-beard competition.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00541-x

By:

Choi, Jibeom

Publication type:

Article

Assessment of plasma derived microbiome profiles in lung cancer using targeted and whole exome sequencing.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00536-8

By:

Behel, Vichitra;
Hait, Supriya;
Noronha, Vanita;
Chowdhury, Aniket;
Chandrani, Pratik;
Patil, Vijay;
Menon, Nandini;
Mishra, Rohit;
Bawaskar, Bhargavi;
Dahimbekar, Ganesh;
Shah, Minit;
Kaushal, Rajiv;
Veldore, Vidya;
Goswami, Hitesh;
Bharde, Atul;
Khandare, Jayant;
Shafi, Gowhar;
Choughule, Anuradha;
Tyagi, Neetu;
Desai, Sanket

Publication type:

Article

Next generation lineage tracing and its applications to unravel development.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00542-w

By:

Short, Spencer;
García-Tejera, Rodrigo;
Schumacher, Linus J.;
Coutu, Daniel L.

Publication type:

Article

Evaluating PSA dynamics for predicting androgen deprivation failure with a patient specific prostate cancer model.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00540-y

By:

Zhao, Shengchao;
Keller, Evan T.;
Robinson, Tyler;
Dai, Jinlu;
Ghose, Alyssa;
Alva, Ajjai;
Jackson, Trachette;
Jain, Harsh Vardhan

Publication type:

Article

Translational disease modeling of peripheral blood identifies type 2 diabetes biomarkers predictive of Alzheimer's disease.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00539-5

By:

Ball, Brendan K.;
Park, Jee Hyun;
Bergendorf, Alexander M.;
Proctor, Elizabeth A.;
Brubaker, Douglas K.

Publication type:

Article

Deep exploration of logical models of cell differentiation in human preimplantation embryos.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00537-7

By:

Bolteau, Mathieu;
Messaoudi, Célia;
David, Laurent;
Bourdon, Jérémie;
Guziolowski, Carito

Publication type:

Article

Bringing evolutionary cancer therapy to the clinic: a systems approach.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00528-8

By:

Soboleva, Arina;
Grossmann, Irene;
Dingemans, Anne-Marie C.;
Rezaei, Jafar;
Staňková, Kateřina

Publication type:

Article

Model of metabolism and gene expression predicts proteome allocation in Pseudomonas putida.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00521-1

By:

Tibocha-Bonilla, Juan D.;
Gandhi, Vishant;
Lieng, Chloe;
Moyne, Oriane;
Santibáñez-Palominos, Rodrigo;
Zengler, Karsten

Publication type:

Article

Personalizing neoadjuvant chemotherapy regimens for triple-negative breast cancer using a biology-based digital twin.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00531-z

By:

Christenson, Chase;
Wu, Chengyue;
Hormuth II, David A.;
Ma, Jingfei;
Yam, Clinton;
Rauch, Gaiane M.;
Yankeelov, Thomas E.

Publication type:

Article

Estimating treatment sensitivity in synthetic and in vitro tumors using a random differential equation model.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00530-0

By:

Meacham, Natalie;
Rutter, Erica M.

Publication type:

Article

Emergence of multiple collective motility modes in a physical model of cell chains.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00529-7

By:

Zhang, Ying;
Bastounis, Effie E.;
Copos, Calina

Publication type:

Article

COmmunity and Single Microbe Optimisation System (COSMOS).

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00534-w

By:

Raajaraam, Lavanya;
Raman, Karthik

Publication type:

Article

Genome-scale metabolic modelling identifies reactions mediated by SNP-SNP interactions associated with yeast sporulation.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00503-3

By:

Sasikumar, Srijith;
Kumar, S Pavan;
Bhatt, Nirav Pravinbhai;
Sinha, Himanshu

Publication type:

Article

SEgene identifies links between super enhancers and gene expression across cell types.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00533-x

By:

Shinkai, Norio;
Asada, Ken;
Machino, Hidenori;
Takasawa, Ken;
Takahashi, Satoshi;
Kouno, Nobuji;
Komatsu, Masaaki;
Hamamoto, Ryuji;
Kaneko, Syuzo

Publication type:

Article

Cell populations simulated in silico within SimulCell accurately reproduce the behaviour of experimental cell cultures.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00518-w

By:

Toscano, Elvira;
Cimmino, Elena;
Boccia, Angelo;
Sepe, Leandra;
Paolella, Giovanni

Publication type:

Article

Assessing the impact of sampling bias on node centralities in synthetic and biological networks.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00526-w

By:

Salehzadeh-Yazdi, Ali;
Hütt, Marc-Thorsten

Publication type:

Article

Computational modeling of cancer cell metabolism along the catabolic-anabolic axes.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00525-x

By:

Villela-Castrejon, Javier;
Levine, Herbert;
Kaipparettu, Benny A.;
Onuchic, José N.;
George, Jason T.;
Jia, Dongya

Publication type:

Article

A Python toolbox for neural circuit parameter inference.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00527-9

By:

Orozco Valero, Alejandro;
Rodríguez-González, Víctor;
Montobbio, Noemi;
Casal, Miguel A.;
Tlaie, Alejandro;
Pelayo, Francisco;
Morillas, Christian;
Poza, Jesús;
Gómez, Carlos;
Martínez-Cañada, Pablo

Publication type:

Article

Patient-specific gene co-expression networks reveal novel subtypes and predictive biomarkers in lung adenocarcinoma.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00522-0

By:

López-Sánchez, Patricio;
Ávila-Moreno, Federico;
Hernández-Lemus, Enrique;
Kuijjer, Marieke L.;
Espinal-Enríquez, Jesús

Publication type:

Article

Effective integration of multi-omics with prior knowledge to identify biomarkers via explainable graph neural networks.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00519-9

By:

Tripathy, Rohit K.;
Frohock, Zachary;
Wang, Hong;
Cary, Gregory A.;
Keegan, Stephen;
Carter, Gregory W.;
Li, Yi

Publication type:

Article

An in silico approach deciphering the commensal dynamics in the cutaneous milieu.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00524-y

By:

Kalankariyan, Sumathi;
Thottapillil, Anjana;
Saxena, Abha;
Srivatsn S, Manoj;
Kadamkode, Vinitha;
Kapoor, Renu;
Mitra, Rupak;
Raut, Janhavi;
Venkatesh, KV

Publication type:

Article

Neural mechanisms balancing accuracy and flexibility in working memory and decision tasks.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00520-2

By:

Yan, Han;
Wang, Jin

Publication type:

Article

The Virtual Parkinsonian patient.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00516-y

By:

Angiolelli, Marianna;
Depannemaecker, Damien;
Agouram, Hasnae;
Régis, Jean;
Carron, Romain;
Woodman, Marmaduke;
Chiodo, Letizia;
Triebkorn, Paul;
Ziaeemehr, Abolfazl;
Hashemi, Meysam;
Eusebio, Alexandre;
Jirsa, Viktor;
Sorrentino, Pierpaolo

Publication type:

Article

Biochemical implementation of acceleration sensing and PIDA control.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00514-0

By:

Alexis, Emmanouil;
Espinel-Ríos, Sebastián;
Kevrekidis, Ioannis G.;
Avalos, José L.

Publication type:

Article

A multidisciplinary approach towards modeling of a virtual human lung.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00517-x

By:

Lam, Timothy;
Quach, Henry T.;
Hall, Lauren;
Abou Chakra, Maria;
Wong, Amy P.

Publication type:

Article

MIRO1 mutation leads to metabolic maladaptation resulting in Parkinson's disease-associated dopaminergic neuron loss.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00509-x

By:

Zagare, Alise;
Sauter, Thomas;
Barmpa, Kyriaki;
Pacheco, Maria;
Krüger, Rejko;
Schwamborn, Jens Christian;
Saraiva, Claudia

Publication type:

Article

Exploring the role of EMT in ovarian cancer progression using a multiscale mathematical model.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00508-y

By:

Oliver, Samuel;
Williams, Michael;
Jolly, Mohit Kumar;
Gonzalez, Deyarina;
Powathil, Gibin

Publication type:

Article

Single cell RNAseq to identify subpopulations of glial progenitors in iPSC-derived oligodendroglial lineage cultures.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00515-z

By:

Blaszczyk, Gabriela J.;
Piscopo, Valerio E. C.;
Goldsmith, Taylor M.;
Chapleau, Alexandra;
Sirois, Julien;
Bernard, Geneviève;
Antel, Jack P.;
Durcan, Thomas M.

Publication type:

Article

Predicting gene expression changes from chromatin structure modification.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00510-4

By:

Senapati, Swayamshree;
Irshad, Inayat Ullah;
Sharma, Ajeet K.;
Kumar, Hemant

Publication type:

Article

Quantitative cancer-immunity cycle modeling for predicting disease progression in advanced metastatic colorectal cancer.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00513-1

By:

Li, Chenghang;
Wei, Yongchang;
Lei, Jinzhi

Publication type:

Article

Plant cold acclimation and its impact on sensitivity of carbohydrate metabolism.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00505-1

By:

Adler, Stephan O.;
Kitashova, Anastasia;
Bulović, Ana;
Nägele, Thomas;
Klipp, Edda

Publication type:

Article

Modeling the dynamics of EMT reveals genes associated with pan-cancer intermediate states and plasticity.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00512-2

By:

McDermott, MeiLu;
Mehta, Riddhee;
Roussos Torres, Evanthia T.;
MacLean, Adam L.

Publication type:

Article

Understanding therapeutic tolerance through a mathematical model of drug-induced resistance.

Published in:

NPJ Systems Biology & Applications, 2025, v. 11, n. 1, p. 1, doi. 10.1038/s41540-025-00511-3

By:

Gevertz, Jana L.;
Greene, James M.;
Prosperi, Samantha;
Comandante-Lou, Natacha;
Sontag, Eduardo D.

Publication type:

Article