NLIMED: Natural Language Interface for Model Entity Discovery in Biosimulation Model Repositories von Munarko, Yuda, Sarwar, Dewan M, Rampadarath, Anand, Atalag, Koray, Gennari, John H, Neal, Maxwell L, Nickerson, David P

Volltext

A semantics, energy-based approach to automate biomodel composition von Shahidi, Niloofar, Pan, Michael, Tran, Kenneth, Crampin, Edmund J, Nickerson, David P

Volltext

Hierarchical semantic composition of biosimulation models using bond graphs von Shahidi, Niloofar, Pan, Michael, Safaei, Soroush, Tran, Kenneth, Crampin, Edmund J, Nickerson, David P

Volltext

A modular and reusable model of epithelial transport in the proximal convoluted tubule von Noroozbabaee, Leyla, Blanco, Pablo J, Safaei, Soroush, Nickerson, David P

Volltext

Model annotation and discovery with the Physiome Model Repository von Sarwar, Dewan M, Kalbasi, Reza, Gennari, John H, Carlson, Brian E, Neal, Maxwell L, Bono, Bernard de, Atalag, Koray, Hunter, Peter J, Nickerson, David P

Volltext

A novel modular modeling approach for understanding different electromechanics between left and right heart in rat von Kim, Nari, Pronto, Julius D., Nickerson, David P., Taberner, Andrew J., Hunter, Peter J.

Volltext

An overview of the CellML API and its implementation von Miller, Andrew K, Marsh, Justin, Reeve, Adam, Garny, Alan, Britten, Randall, Halstead, Matt, Cooper, Jonathan, Nickerson, David P, Nielsen, Poul F

Volltext

CASBERT: BERT-based retrieval for compositely annotated biosimulation model entities von Munarko, Yuda, Rampadarath, Anand, Nickerson, David P

Volltext

Computational Modelling of Glucose Uptake by SGLT1 and Apical GLUT2 in the Enterocyte von Afshar, Nima, Safaei, Soroush, Nickerson, David P, Hunter, Peter J, Suresh, Vinod

Volltext

The Physiome Model Repository 2 von YU, Tommy, LLOYD, Catherine M, NIELSEN, Poul M. F, NICKERSON, David P, COOLING, Michael T, MILLET, Andrew K, GARNY, Alan, TERKILDSEN, Jonna R, LAWSON, James, BRITTEN, Randall D, HUNTER, Peter J

Volltext

The SPARC DRC: Building a Resource for the Autonomic Nervous System Community von Osanlouy, Mahyar, Bandrowski, Anita, de Bono, Bernard, Brooks, David, Cassarà, Antonino M, Christie, Richard, Ebrahimi, Nazanin, Gillespie, Tom, Grethe, Jeffrey S, Guercio, Leonardo A, Heal, Maci, Lin, Mabelle, Kuster, Niels, Martone, Maryann E, Neufeld, Esra, Nickerson, David P, Soltani, Elias G, Tappan, Susan, Wagenaar, Joost B, Zhuang, Katie, Hunter, Peter J

Volltext

Computational Modeling of Glucose Uptake in the Enterocyte von Afshar, Nima, Safaei, Soroush, Nickerson, David P, Hunter, Peter J, Suresh, Vinod

Volltext

OMEX metadata specification (version 1.2) von Gennari, John H., König, Matthias, Misirli, Goksel, Neal, Maxwell L., Nickerson, David P., Waltemath, Dagmar

Volltext

Specifications of standards in systems and synthetic biology: status, developments, and tools in 2024 von Golebiewski, Martin, Bader, Gary, Gleeson, Padraig, Gorochowski, Thomas E., Keating, Sarah M., König, Matthias, Myers, Chris J., Nickerson, David P., Sommer, Björn, Waltemath, Dagmar, Schreiber, Falk

Volltext

CellML 2.0 von Clerx, Michael, Cooling, Michael T., Cooper, Jonathan, Garny, Alan, Moyle, Keri, Nickerson, David P., Nielsen, Poul M. F., Sorby, Hugh

Volltext

Energy-based bond graph models of glucose transport with SLC transporters von Hunter, Peter J., Ai, Weiwei, Nickerson, David P.

Volltext

Insights From Computational Modeling Into the Contribution of Mechano-Calcium Feedback on the Cardiac End-Systolic Force-Length Relationship von Guidry, Megan E., Nickerson, David P., Crampin, Edmund J., Nash, Martyn P., Loiselle, Denis S., Tran, Kenneth

Volltext

Open modeling and exchange (OMEX) metadata specification version 1.0 von Neal, Maxwell L., Gennari, John H., Waltemath, Dagmar, Nickerson, David P., König, Matthias

Volltext

Specifications of standards in systems and synthetic biology: status and developments in 2022 and the COMBINE meeting 2022 von König, Matthias, Gleeson, Padraig, Golebiewski, Martin, Gorochowski, Thomas E., Hucka, Michael, Keating, Sarah M., Myers, Chris J., Nickerson, David P., Sommer, Björn, Waltemath, Dagmar, Schreiber, Falk

Volltext

CellML and associated tools and techniques von Garny, Alan, Nickerson, David P, Cooper, Jonathan, Santos, Rodrigo Weber dos, Miller, Andrew K, McKeever, Steve, Nielsen, Poul M.F, Hunter, Peter J

Volltext