Cytoview: Development of a cell modelling framework

Prashant Khodade, Samta Malhotra, Nirmal Kumar, M. Sriram Iyengar, N. Balakrishnan, Nagasuma Chandra

Research output: Contribution to journalArticlepeer-review

5 Scopus citations


The biological cell, a natural self-contained unit of prime biological importance, is an enormously complex machine that can be understood at many levels. A higher-level perspective of the entire cell requires integration of various features into coherent, biologically meaningful descriptions. There are some efforts to model cells based on their genome, proteome or metabolome descriptions. However, there are no established methods as yet to describe cell morphologies, capture similarities and differences between different cells or between healthy and disease states. Here we report a framework to model various aspects of a cell and integrate knowledge encoded at different levels of abstraction, with cell morphologies at one end to atomic structures at the other. The different issues that have been addressed are ontologies, feature description and model building. The framework describes dotted representations and tree data structures to integrate diverse pieces of data and parametric models enabling size, shape and location descriptions. The framework serves as a first step in integrating different levels of data available for a biological cell and has the potential to lead to development of computational models in our pursuit to model cell structure and function, from which several applications can flow out.

Original languageEnglish (US)
Pages (from-to)965-977
Number of pages13
JournalJournal of Biosciences
Issue number1
StatePublished - Aug 2007
Externally publishedYes


  • Cell modelling
  • Cell morphology
  • Cell ontology
  • Computational models
  • Dotted representation

ASJC Scopus subject areas

  • General Biochemistry, Genetics and Molecular Biology
  • General Agricultural and Biological Sciences


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