CompuCell3D (English Wikipedia)

Analysis of information sources in references of the Wikipedia article "CompuCell3D" in English language version.

Last modified: 10:09:26, 4 December 2025 (UTC)

Ref.Un. Ref.Website

Global rank English rank

1919nih.gov

5^th place

1111doi.org

2^nd place

55worldcat.org

4^th place

22adsabs.harvard.edu

14^th place

9^th place

adsabs.harvard.edu (Global: 14^th place; English: 9^th place)

ui.adsabs.harvard.edu

Sluka, James P.; Fu, Xiao; Swat, Maciej; Belmonte, Julio M.; Cosmanescu, Alin; Clendenon, Sherry G.; Wambaugh, John F.; Glazier, James A. (16 September 2016). "A Liver-Centric Multiscale Modeling Framework for Xenobiotics". PLOS ONE. 11 (9) e0162428. Bibcode:2016PLoSO..1162428S. doi:10.1371/journal.pone.0162428. PMC 5026379. PMID 27636091.
Hester, Susan D.; Belmonte, Julio M.; Gens, J. Scott; Clendenon, Sherry G.; Glazier, James A. (6 October 2011). "A Multi-cell, Multi-scale Model of Vertebrate Segmentation and Somite Formation". PLOS Computational Biology. 7 (10) e1002155. Bibcode:2011PLSCB...7E2155H. doi:10.1371/journal.pcbi.1002155. PMC 3188485. PMID 21998560.

doi.org (Global: 2^nd place; English: 2^nd place)

Swat, Maciej H.; Thomas, Gilberto L.; Belmonte, Julio M.; Shirinifard, Abbas; Hmeljak, Dimitrij; Glazier, James A. (2012). "Multi-Scale Modeling of Tissues Using CompuCell3D". Computational Methods in Cell Biology. Vol. 110. pp. 325–366. doi:10.1016/B978-0-12-388403-9.00013-8. ISBN 978-0-12-388403-9. PMC 3612985. PMID 22482955.
Izaguirre, J. A.; Chaturvedi, R.; Huang, C.; Cickovski, T.; Coffland, J.; Thomas, G.; Forgacs, G.; Alber, M.; Hentschel, G.; Newman, S. A.; Glazier, J. A. (2004). "CompuCell, a multi-model framework for simulation of morphogenesis". Bioinformatics. 20 (7). Oxford Academic: 1129–1137. doi:10.1093/bioinformatics/bth050. ISSN 1367-4803. PMID 14764549.
Chaturvedi, R.; Huang, C.; Kazmierczak, B.; Schneider, T.; Izaguirre, J. A.; Glimm, T.; Hentschel, H. G. E.; Glazier, J. A.; Newman, S. A.; Alber, M. S. (2005). "On multiscale approaches to three-dimensional modelling of morphogenesis". Journal of the Royal Society Interface. 2 (3). The Royal Society: 237–253. doi:10.1098/rsif.2005.0033. ISSN 1742-5662. PMC 1629079. PMID 16849182.
Swat, Maciej H.; Thomas, Gilberto L.; Belmonte, Julio M.; Shirinifard, Abbas; Hmeljak, Dimitrij; Glazier, James A. (2012). "Multi-Scale Modeling of Tissues Using CompuCell3D". Methods in Cell Biology. Vol. 110. Cambridge, MA, USA: Academic Press. pp. 325–366. doi:10.1016/B978-0-12-388403-9.00013-8. ISBN 978-0-12-388403-9. ISSN 0091-679X. PMC 3612985. PMID 22482955.
Swat, Maciej H.; Hester, Susan D.; Balter, Ariel I.; Heiland, Randy W.; Zaitlen, Benjamin L.; Glazier, James A. (2009). "Multicell Simulations of Development and Disease Using the CompuCell3D Simulation Environment". Systems Biology. Humana Press. pp. 361–428. doi:10.1007/978-1-59745-525-1_13. ISBN 978-1-59745-525-1. ISSN 1940-6029. PMC 2739628. PMID 19399437.
Chung, Trinity; Sego, T. J.; Glazier, James A. (2025). "Cell Modeling in Jupyter Notebook using CompuCell3D". Zenodo. 2 (1). doi:10.5281/zenodo.7600786.
Sego, T. J. (January 2024). "SimService: a lightweight library for building simulation services in Python". Bioinformatics. 40 (1) btae009. Oxford Academic. doi:10.1093/bioinformatics/btae009. ISSN 1367-4811. PMC 10809901. PMID 38237907.
Sluka, James P.; Fu, Xiao; Swat, Maciej; Belmonte, Julio M.; Cosmanescu, Alin; Clendenon, Sherry G.; Wambaugh, John F.; Glazier, James A. (16 September 2016). "A Liver-Centric Multiscale Modeling Framework for Xenobiotics". PLOS ONE. 11 (9) e0162428. Bibcode:2016PLoSO..1162428S. doi:10.1371/journal.pone.0162428. PMC 5026379. PMID 27636091.
Yang, Yongliang; Filipovic, David; Bhattacharya, Sudin (April 2022). "A Negative Feedback Loop and Transcription Factor Cooperation Regulate Zonal Gene Induction by 2, 3, 7, 8-Tetrachlorodibenzo-p-Dioxin in the Mouse Liver". Hepatology Communications. 6 (4): 750–764. doi:10.1002/hep4.1848. PMC 8948569. PMID 34726355.
Hester, Susan D.; Belmonte, Julio M.; Gens, J. Scott; Clendenon, Sherry G.; Glazier, James A. (6 October 2011). "A Multi-cell, Multi-scale Model of Vertebrate Segmentation and Somite Formation". PLOS Computational Biology. 7 (10) e1002155. Bibcode:2011PLSCB...7E2155H. doi:10.1371/journal.pcbi.1002155. PMC 3188485. PMID 21998560.
Gianlupi, Juliano Ferrari; Mapder, Tarunendu; Sego, T. J.; Sluka, James P.; Quinney, Sara K.; Craig, Morgan; Stratford, Robert E.; Glazier, James A. (2022). "Multiscale Model of Antiviral Timing, Potency, and heterogeneity Effects on an Epithelial Tissue Patch Infected by SARS-CoV-2". Viruses. 14 (3): 605. doi:10.3390/v14030605. PMC 8953050. PMID 35337012.

nih.gov (Global: 5^th place; English: 5^th place)

pubmed.ncbi.nlm.nih.gov

Swat, Maciej H.; Thomas, Gilberto L.; Belmonte, Julio M.; Shirinifard, Abbas; Hmeljak, Dimitrij; Glazier, James A. (2012). "Multi-Scale Modeling of Tissues Using CompuCell3D". Computational Methods in Cell Biology. Vol. 110. pp. 325–366. doi:10.1016/B978-0-12-388403-9.00013-8. ISBN 978-0-12-388403-9. PMC 3612985. PMID 22482955.
Izaguirre, J. A.; Chaturvedi, R.; Huang, C.; Cickovski, T.; Coffland, J.; Thomas, G.; Forgacs, G.; Alber, M.; Hentschel, G.; Newman, S. A.; Glazier, J. A. (2004). "CompuCell, a multi-model framework for simulation of morphogenesis". Bioinformatics. 20 (7). Oxford Academic: 1129–1137. doi:10.1093/bioinformatics/bth050. ISSN 1367-4803. PMID 14764549.
Chaturvedi, R.; Huang, C.; Kazmierczak, B.; Schneider, T.; Izaguirre, J. A.; Glimm, T.; Hentschel, H. G. E.; Glazier, J. A.; Newman, S. A.; Alber, M. S. (2005). "On multiscale approaches to three-dimensional modelling of morphogenesis". Journal of the Royal Society Interface. 2 (3). The Royal Society: 237–253. doi:10.1098/rsif.2005.0033. ISSN 1742-5662. PMC 1629079. PMID 16849182.
Swat, Maciej H.; Thomas, Gilberto L.; Belmonte, Julio M.; Shirinifard, Abbas; Hmeljak, Dimitrij; Glazier, James A. (2012). "Multi-Scale Modeling of Tissues Using CompuCell3D". Methods in Cell Biology. Vol. 110. Cambridge, MA, USA: Academic Press. pp. 325–366. doi:10.1016/B978-0-12-388403-9.00013-8. ISBN 978-0-12-388403-9. ISSN 0091-679X. PMC 3612985. PMID 22482955.
Swat, Maciej H.; Hester, Susan D.; Balter, Ariel I.; Heiland, Randy W.; Zaitlen, Benjamin L.; Glazier, James A. (2009). "Multicell Simulations of Development and Disease Using the CompuCell3D Simulation Environment". Systems Biology. Humana Press. pp. 361–428. doi:10.1007/978-1-59745-525-1_13. ISBN 978-1-59745-525-1. ISSN 1940-6029. PMC 2739628. PMID 19399437.
Sego, T. J. (January 2024). "SimService: a lightweight library for building simulation services in Python". Bioinformatics. 40 (1) btae009. Oxford Academic. doi:10.1093/bioinformatics/btae009. ISSN 1367-4811. PMC 10809901. PMID 38237907.
Sluka, James P.; Fu, Xiao; Swat, Maciej; Belmonte, Julio M.; Cosmanescu, Alin; Clendenon, Sherry G.; Wambaugh, John F.; Glazier, James A. (16 September 2016). "A Liver-Centric Multiscale Modeling Framework for Xenobiotics". PLOS ONE. 11 (9) e0162428. Bibcode:2016PLoSO..1162428S. doi:10.1371/journal.pone.0162428. PMC 5026379. PMID 27636091.
Yang, Yongliang; Filipovic, David; Bhattacharya, Sudin (April 2022). "A Negative Feedback Loop and Transcription Factor Cooperation Regulate Zonal Gene Induction by 2, 3, 7, 8-Tetrachlorodibenzo-p-Dioxin in the Mouse Liver". Hepatology Communications. 6 (4): 750–764. doi:10.1002/hep4.1848. PMC 8948569. PMID 34726355.
Hester, Susan D.; Belmonte, Julio M.; Gens, J. Scott; Clendenon, Sherry G.; Glazier, James A. (6 October 2011). "A Multi-cell, Multi-scale Model of Vertebrate Segmentation and Somite Formation". PLOS Computational Biology. 7 (10) e1002155. Bibcode:2011PLSCB...7E2155H. doi:10.1371/journal.pcbi.1002155. PMC 3188485. PMID 21998560.
Gianlupi, Juliano Ferrari; Mapder, Tarunendu; Sego, T. J.; Sluka, James P.; Quinney, Sara K.; Craig, Morgan; Stratford, Robert E.; Glazier, James A. (2022). "Multiscale Model of Antiviral Timing, Potency, and heterogeneity Effects on an Epithelial Tissue Patch Infected by SARS-CoV-2". Viruses. 14 (3): 605. doi:10.3390/v14030605. PMC 8953050. PMID 35337012.

ncbi.nlm.nih.gov

Swat, Maciej H.; Thomas, Gilberto L.; Belmonte, Julio M.; Shirinifard, Abbas; Hmeljak, Dimitrij; Glazier, James A. (2012). "Multi-Scale Modeling of Tissues Using CompuCell3D". Computational Methods in Cell Biology. Vol. 110. pp. 325–366. doi:10.1016/B978-0-12-388403-9.00013-8. ISBN 978-0-12-388403-9. PMC 3612985. PMID 22482955.
Chaturvedi, R.; Huang, C.; Kazmierczak, B.; Schneider, T.; Izaguirre, J. A.; Glimm, T.; Hentschel, H. G. E.; Glazier, J. A.; Newman, S. A.; Alber, M. S. (2005). "On multiscale approaches to three-dimensional modelling of morphogenesis". Journal of the Royal Society Interface. 2 (3). The Royal Society: 237–253. doi:10.1098/rsif.2005.0033. ISSN 1742-5662. PMC 1629079. PMID 16849182.
Swat, Maciej H.; Thomas, Gilberto L.; Belmonte, Julio M.; Shirinifard, Abbas; Hmeljak, Dimitrij; Glazier, James A. (2012). "Multi-Scale Modeling of Tissues Using CompuCell3D". Methods in Cell Biology. Vol. 110. Cambridge, MA, USA: Academic Press. pp. 325–366. doi:10.1016/B978-0-12-388403-9.00013-8. ISBN 978-0-12-388403-9. ISSN 0091-679X. PMC 3612985. PMID 22482955.
Swat, Maciej H.; Hester, Susan D.; Balter, Ariel I.; Heiland, Randy W.; Zaitlen, Benjamin L.; Glazier, James A. (2009). "Multicell Simulations of Development and Disease Using the CompuCell3D Simulation Environment". Systems Biology. Humana Press. pp. 361–428. doi:10.1007/978-1-59745-525-1_13. ISBN 978-1-59745-525-1. ISSN 1940-6029. PMC 2739628. PMID 19399437.
Sego, T. J. (January 2024). "SimService: a lightweight library for building simulation services in Python". Bioinformatics. 40 (1) btae009. Oxford Academic. doi:10.1093/bioinformatics/btae009. ISSN 1367-4811. PMC 10809901. PMID 38237907.
Sluka, James P.; Fu, Xiao; Swat, Maciej; Belmonte, Julio M.; Cosmanescu, Alin; Clendenon, Sherry G.; Wambaugh, John F.; Glazier, James A. (16 September 2016). "A Liver-Centric Multiscale Modeling Framework for Xenobiotics". PLOS ONE. 11 (9) e0162428. Bibcode:2016PLoSO..1162428S. doi:10.1371/journal.pone.0162428. PMC 5026379. PMID 27636091.
Yang, Yongliang; Filipovic, David; Bhattacharya, Sudin (April 2022). "A Negative Feedback Loop and Transcription Factor Cooperation Regulate Zonal Gene Induction by 2, 3, 7, 8-Tetrachlorodibenzo-p-Dioxin in the Mouse Liver". Hepatology Communications. 6 (4): 750–764. doi:10.1002/hep4.1848. PMC 8948569. PMID 34726355.
Hester, Susan D.; Belmonte, Julio M.; Gens, J. Scott; Clendenon, Sherry G.; Glazier, James A. (6 October 2011). "A Multi-cell, Multi-scale Model of Vertebrate Segmentation and Somite Formation". PLOS Computational Biology. 7 (10) e1002155. Bibcode:2011PLSCB...7E2155H. doi:10.1371/journal.pcbi.1002155. PMC 3188485. PMID 21998560.
Gianlupi, Juliano Ferrari; Mapder, Tarunendu; Sego, T. J.; Sluka, James P.; Quinney, Sara K.; Craig, Morgan; Stratford, Robert E.; Glazier, James A. (2022). "Multiscale Model of Antiviral Timing, Potency, and heterogeneity Effects on an Epithelial Tissue Patch Infected by SARS-CoV-2". Viruses. 14 (3): 605. doi:10.3390/v14030605. PMC 8953050. PMID 35337012.

worldcat.org (Global: 4^th place; English: 4^th place)

search.worldcat.org

Izaguirre, J. A.; Chaturvedi, R.; Huang, C.; Cickovski, T.; Coffland, J.; Thomas, G.; Forgacs, G.; Alber, M.; Hentschel, G.; Newman, S. A.; Glazier, J. A. (2004). "CompuCell, a multi-model framework for simulation of morphogenesis". Bioinformatics. 20 (7). Oxford Academic: 1129–1137. doi:10.1093/bioinformatics/bth050. ISSN 1367-4803. PMID 14764549.
Chaturvedi, R.; Huang, C.; Kazmierczak, B.; Schneider, T.; Izaguirre, J. A.; Glimm, T.; Hentschel, H. G. E.; Glazier, J. A.; Newman, S. A.; Alber, M. S. (2005). "On multiscale approaches to three-dimensional modelling of morphogenesis". Journal of the Royal Society Interface. 2 (3). The Royal Society: 237–253. doi:10.1098/rsif.2005.0033. ISSN 1742-5662. PMC 1629079. PMID 16849182.
Swat, Maciej H.; Thomas, Gilberto L.; Belmonte, Julio M.; Shirinifard, Abbas; Hmeljak, Dimitrij; Glazier, James A. (2012). "Multi-Scale Modeling of Tissues Using CompuCell3D". Methods in Cell Biology. Vol. 110. Cambridge, MA, USA: Academic Press. pp. 325–366. doi:10.1016/B978-0-12-388403-9.00013-8. ISBN 978-0-12-388403-9. ISSN 0091-679X. PMC 3612985. PMID 22482955.
Swat, Maciej H.; Hester, Susan D.; Balter, Ariel I.; Heiland, Randy W.; Zaitlen, Benjamin L.; Glazier, James A. (2009). "Multicell Simulations of Development and Disease Using the CompuCell3D Simulation Environment". Systems Biology. Humana Press. pp. 361–428. doi:10.1007/978-1-59745-525-1_13. ISBN 978-1-59745-525-1. ISSN 1940-6029. PMC 2739628. PMID 19399437.
Sego, T. J. (January 2024). "SimService: a lightweight library for building simulation services in Python". Bioinformatics. 40 (1) btae009. Oxford Academic. doi:10.1093/bioinformatics/btae009. ISSN 1367-4811. PMC 10809901. PMID 38237907.

CompuCell3D (English Wikipedia)

adsabs.harvard.edu (Global: 14th place; English: 9th place)