NexTech 2021 Congress
October 03, 2021 to October 07, 2021 - Barcelona, Spain

  • UBICOMM 2021, The Fifteenth International Conference on Mobile Ubiquitous Computing, Systems, Services and Technologies
  • ADVCOMP 2021, The Fifteenth International Conference on Advanced Engineering Computing and Applications in Sciences
  • SEMAPRO 2021, The Fifteenth International Conference on Advances in Semantic Processing
  • AMBIENT 2021, The Eleventh International Conference on Ambient Computing, Applications, Services and Technologies
  • EMERGING 2021, The Thirteenth International Conference on Emerging Networks and Systems Intelligence
  • DATA ANALYTICS 2021, The Tenth International Conference on Data Analytics
  • GLOBAL HEALTH 2021, The Tenth International Conference on Global Health Challenges
  • CYBER 2021, The Sixth International Conference on Cyber-Technologies and Cyber-Systems

SoftNet 2021 Congress
October 03, 2021 to October 07, 2021 - Barcelona, Spain

  • ICSEA 2021, The Sixteenth International Conference on Software Engineering Advances
  • ICSNC 2021, The Sixteenth International Conference on Systems and Networks Communications
  • CENTRIC 2021, The Fourteenth International Conference on Advances in Human-oriented and Personalized Mechanisms, Technologies, and Services
  • VALID 2021, The Thirteenth International Conference on Advances in System Testing and Validation Lifecycle
  • SIMUL 2021, The Thirteenth International Conference on Advances in System Simulation
  • SOTICS 2021, The Eleventh International Conference on Social Media Technologies, Communication, and Informatics
  • INNOV 2021, The Tenth International Conference on Communications, Computation, Networks and Technologies
  • HEALTHINFO 2021, The Sixth International Conference on Informatics and Assistive Technologies for Health-Care, Medical Support and Wellbeing

NetWare 2021 Congress
November 14, 2021 to November 18, 2021 - Athens, Greece

  • SENSORCOMM 2021, The Fifteenth International Conference on Sensor Technologies and Applications
  • SENSORDEVICES 2021, The Twelfth International Conference on Sensor Device Technologies and Applications
  • SECURWARE 2021, The Fifteenth International Conference on Emerging Security Information, Systems and Technologies
  • AFIN 2021, The Thirteenth International Conference on Advances in Future Internet
  • CENICS 2021, The Fourteenth International Conference on Advances in Circuits, Electronics and Micro-electronics
  • ICQNM 2021, The Fifteenth International Conference on Quantum, Nano/Bio, and Micro Technologies
  • FASSI 2021, The Seventh International Conference on Fundamentals and Advances in Software Systems Integration
  • GREEN 2021, The Sixth International Conference on Green Communications, Computing and Technologies

TrendNews 2021 Congress
November 14, 2021 to November 18, 2021 - Athens, Greece

  • CORETA 2021, Advances on Core Technologies and Applications
  • DIGITAL 2021, Advances on Societal Digital Transformation

 


ThinkMind // BIOTECHNO 2012, The Fourth International Conference on Bioinformatics, Biocomputational Systems and Biotechnologies // View article biotechno_2012_1_30_50068


Predicting Gene Knockout Effects by Minimal Pathway Enumeration

Authors:
Takehide Soh
Katsumi Inoue
Tomoya Baba
Toyoyuki Takada
Toshihiko Shiroishi

Keywords: metabolic pathways; gene knockout; prediction method; minimal pathway; Keio collection.

Abstract:
In this paper, we propose a method to predict gene knockout effects for the cell growth by utilizing biological databases such as KEGG and EcoCyc, in which biological knowledge and experimental results have been collected. We construct biological networks from such databases and configure experimental conditions by giving source metabolites, target metabolites, and knockout genes. We then enumerate all minimal active pathways, which are minimal subsets of a given network using source metabolites to produce target metabolites. We simulate the effects of gene knockouts by measuring the difference of minimal active pathways between original networks and knockout ones. In the experiments, we applied it to predict the gene knockout effects on the glycolysis pathway of Escherichia coli. In the results, our method predicted three out of four essential genes, which are confirmed by the Keio collection containing comprehensive cell growth data obtained from biological experiments.

Pages: 11 to 19

Copyright: Copyright (c) IARIA, 2012

Publication date: March 25, 2012

Published in: conference

ISSN: 2308-4383

ISBN: 978-1-61208-190-8

Location: St. Maarten, The Netherlands Antilles

Dates: from March 25, 2012 to March 30, 2012

SERVICES CONTACT
2010 - 2017 © ThinkMind. All rights reserved.
Read Terms of Service and Privacy Policy.