Systems biology

computational and mathematical modeling of complex biological systems

complex system of communication that governs basic cellular activities and coordinates cell actions

interdisciplinary branch of biology and engineering

KEGG (Kyoto Encyclopedia of Genes and Genomes) is a collection of databases dealing with genomes, biological pathways, diseases, drugs, and chemical substances. KEGG is utilized for bioinformatics research and education, including data analysis in genomics, metagenomics, metabolomics and other omics studies, modeling and simulation in systems biology, and translational research in drug development.

thumb|The central principle of biology showing the flow of information from [[DNA to the phenotype. Associated with each stage is the corresponding systems biology tool, from genomics to metabolomics.]]

thumb|right|200px|Cover of Ribofunk by Paul Di Filippo, a seminal biopunk story collection Biopunk (a portmanteau of "biotechnology" or "biology" and "punk") is a subgenre of science fiction that focuses on biotechnology. It is derived from cyberpunk, but focuses on the implications of biotechnology rather than mechanical cyberware and information technology. Biopunk is concerned with synthetic biology. It is derived from cyberpunk and often involves bio-hackers, biotech megacorporations, and oppressive organizations that engineer DNA. Most often keeping with the dark atmosphere of cyberpunk,

thumb|upright=1.4|General schema showing the relationships of the genome, [[transcriptome, proteome, and metabolome (lipidome, glycome).]]

collection of molecular regulators that interact with each other and with other substances in the cell to govern the gene expression levels of mRNA and proteins

protein-fragment complementation assay to find protein–protein/DNA interactions, in which the transcription factor is split into two fragments

subdiscipline of neuroscience and systems biology

In molecular biology, an interactome is the whole set of molecular interactions in a particular cell. The term specifically refers to physical interactions among molecules (such as those among proteins, also known as protein–protein interactions (PPIs); or between small molecules and proteins.) but can also describe sets of indirect interactions among genes (genetic interactions). 400px|right|thumb|Part of the DISC1 interactome with genes represented by text in boxes and interactions noted by lines between the genes. From Hennah and Porteous, 2009. The word "interactome" was originally coined

graphical description of a physical dynamic system

networks found in ecological, evolutionary, and physiological contexts

Cytoscape is an open source bioinformatics software platform for visualizing molecular interaction networks and integrating with gene expression profiles and other state data. Additional features are available as plugins. Plugins are available for network and molecular profiling analyses, new layouts, additional file format support and connection with databases and searching in large networks. Plugins may be developed using the Cytoscape open Java software architecture by anyone and plugin community development is encouraged. Cytoscape also has a JavaScript-centric sister project named Cytosca

broad-based engineering discipline with particular emphasis on biology and chemistry

testing genomic, epigenetic and molecular biomarkers for efficacy in individualized treatment

term

Human-dominated ecosystems of the anthropocene era

open self-organizing living things that interact with their environment

analysing how the control of fluxes and intermediate concentrations in a metabolic pathway is distributed

REDIRECT Phenotype#Definition

journal

Graph measuring gene relationships

thumb|Multiomics aims to bring together various omics disciplines in [[biotechnology through cross-disciplinary computing and analysis.]]

mathematical approaches to studying physiological systems

the ability of elements that are structurally different to perform the same function or yield the same output

form of biological modelling

in chemical engineering/systems biology

non-profit research institute

The Systems Biology Markup Language (SBML) is a representation format, based on XML, for communicating and storing computational models of biological processes. It is a free and open standard with widespread software support and a community of users and developers. SBML can represent many different classes of biological phenomena, including metabolic networks, cell signaling pathways, regulatory networks, infectious diseases, and many others. It has been proposed as a standard for representing computational models in systems biology today.