E-cell system: basic concepts and applications
Saved in:
| Format: | Book |
|---|---|
| Language: | English |
| Published: |
Austin, Tex.
Landes Bioscience
2013
New York Springer Science+Business Media |
| Series: | Molecular biology intelligence unit
|
| Subjects: | |
| Online Access: | Inhaltsverzeichnis |
| Item Description: | Includes bibliographical references and index |
| Physical Description: | 179 S. Ill., graph. Darst. |
| ISBN: | 9781461461562 |
Staff View
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Record in the Search Index
| _version_ | 1804149806683127808 |
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| adam_text | Titel: E-cell system
Autor: Arjunan, Satya Nanda Vel
Jahr: 2013
=^= CONTENTS =^=
Part 1. Basic Concepts.................................................................1
1. Introduction to Whole Cell Modeling............................................3
Pawan K Dhar
Modeling Fundamentals..........................................................................................3
1. The Phenomenon..................................................................................................3
2. Mathematical Representation..........................................................................10
3. Computer Simulation........................................................................................12
General Concepts on Whole Cell Modeling....................................................13
2. Foundations ofE-Cell Simulation Environment Architecture......15
Nathan Addy and Koichi Takahashi
Background...............................................................................................................17
The E-Cell System...................................................................................................19
The Meta-Algorithm..............................................................................................21
The E-Cell SE Kernel..............................................................................................23
Interfaces to the Kernel..........................................................................................29
Future Directions....................................................................................................32
3« Distributed Cell Biology Simulations with the E-Cell System......33
Masahiro Sugimoto
Design of ESM.........................................................................................................34
Parameter Estimation on ESM............................................................................38
Discussion.................................................................................................................39
4. A Guide to Modeling Reaction-Diffusion of Molecules
with the E-Cell System.................................................................43
SatyaNanda VelArjunan
Spatiocyte Method..................................................................................................44
Installing and Running Spatiocyte.....................................................................46
Spatiocyte Modules.................................................................................................49
Part 2. Applications...................................................................63
5. A Model Library of Bacterial Chemotaxis on E-Cell System.........65
Yuri Matsuzaki
Models and Methods..............................................................................................66
Conclusion and Discussion...................................................................................71
6. Electrophysiological Simulation of Developmental Changes
in Action Potentials of Cardiomyocytes.......................................75
Hitomi Itoh
Methods.....................................................................................................................79
Results........................................................................................................................83
Discussion.................................................................................................................86
7. Simulation of Human Erythrocyte Metabolism............................89
Ayako Kinoshita
Simulation Analysis of Glucose-6-Phosphate Dehydrogenase
(G6PDH) Deficiency........................................................................................90
Simulation Study for Methemoglobin Reduction Pathways.........................93
Prediction by Mathematical Modeling and Its Verification
by Metabolome Analysis for Oxygen Sensing Mechanism
in Human Erythrocytes....................................................................................97
8. Dynamic Kinetic Modeling of Mitochondrial
Energy Metabolism....................................................................105
Katsuyuki Yugi
Construction of the Model.................................................................................106
Simulation Results................................................................................................109
Discussion...............................................................................................................112
Appendix A.............................................................................................................117
Rate Equations.......................................................................................................139
9. A Computational Model of the Hepatic Lobule..........................143
Yasuhiro Naito
The Single Hepatocyte Model............................................................................144
The Sinusoid Model..............................................................................................144
Appendix: Details of the Mathematical Model.............................................148
10. Decoding the Signaling Mechanism of Toll-Like Receptor 4
Pathways in Wild Type and Knockouts......................................157
Kumar Selvarajoo
Guest editor: Sankar Ghosh
Materials and Methods........................................................................................158
Results......................................................................................................................160
Discussion...............................................................................................................161
Appendix A.............................................................................................................166
11. Modeling of Hsp70-Mediated Protein Refolding.......................169
Bin Hu, Matthias P. Mayer and Masaru Tomita
Materials and Methods........................................................................................170
Results......................................................................................................................171
Discussion and Conclusion.................................................................................173
Index.........................................................................................177
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| dewey-ones | 572 - Biochemistry |
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| dewey-tens | 570 - Biology |
| discipline | Biologie |
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| indexdate | 2024-07-10T00:28:53Z |
| institution | BVB |
| isbn | 9781461461562 |
| language | English |
| lccn | 2012043388 |
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| physical | 179 S. Ill., graph. Darst. |
| publishDate | 2013 |
| publishDateSearch | 2013 |
| publishDateSort | 2013 |
| publisher | Landes Bioscience Springer Science+Business Media |
| record_format | marc |
| series2 | Molecular biology intelligence unit |
| spelling | E-cell system basic concepts and applications Satya Nanda Vel Arjunan ... Austin, Tex. Landes Bioscience 2013 New York Springer Science+Business Media 179 S. Ill., graph. Darst. txt rdacontent n rdamedia nc rdacarrier Molecular biology intelligence unit Includes bibliographical references and index Cellular Structures metabolism Cell Physiological Phenomena Computer Simulation Metabolic Networks and Pathways physiology Models, Biological Computersimulation (DE-588)4148259-1 gnd rswk-swf Primärstoffwechsel (DE-588)4175700-2 gnd rswk-swf Primärstoffwechsel (DE-588)4175700-2 s Computersimulation (DE-588)4148259-1 s 1\p DE-604 Arjunan, Satya Nanda Vel Sonstige oth HBZ Datenaustausch application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=025502930&sequence=000004&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA Inhaltsverzeichnis 1\p cgwrk 20201028 DE-101 https://d-nb.info/provenance/plan#cgwrk |
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| subject_GND | (DE-588)4148259-1 (DE-588)4175700-2 |
| title | E-cell system basic concepts and applications |
| title_auth | E-cell system basic concepts and applications |
| title_exact_search | E-cell system basic concepts and applications |
| title_full | E-cell system basic concepts and applications Satya Nanda Vel Arjunan ... |
| title_fullStr | E-cell system basic concepts and applications Satya Nanda Vel Arjunan ... |
| title_full_unstemmed | E-cell system basic concepts and applications Satya Nanda Vel Arjunan ... |
| title_short | E-cell system |
| title_sort | e cell system basic concepts and applications |
| title_sub | basic concepts and applications |
| topic | Cellular Structures metabolism Cell Physiological Phenomena Computer Simulation Metabolic Networks and Pathways physiology Models, Biological Computersimulation (DE-588)4148259-1 gnd Primärstoffwechsel (DE-588)4175700-2 gnd |
| topic_facet | Cellular Structures metabolism Cell Physiological Phenomena Computer Simulation Metabolic Networks and Pathways physiology Models, Biological Computersimulation Primärstoffwechsel |
| url | http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=025502930&sequence=000004&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA |
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