TY  - THES
U1  - Bachelor Thesis
A1  - Kang, Hadi Adisurya
T1  - Import and optimally visualise database regulatory knowledge in Cytoscape
N2  - Cytoscape is an open source platform for complex network analysis and visualisation. The Pathway Interaction Database (PID) is a highly structured, curated collection of information about known biomolecular interactions and key cellular processes assembled into signalling pathways. Despite the obvious potential and advantageous usage of both tool (Cytoscape) and information source (PID), there has been no conclusive effort to merge and synergise them. This project aims to make use of the open source characteristics of Cytoscape and optimally visualise the biomolecular interactions found in the PID. This is made possible by the development of a plugin which imports a user-selected pathway file, converts it into a Cytoscape-readable file, and then visualises it. Finally, the user has options to further optimise the pathway by the use of a filter (Barcode – Affymetrix) that removes nodes from the network which are lowly expressed in the Affymetrix microarray data. The user then obtains visual results in a matter of seconds. Additionally, the process of subgraphing nodes through the shortest path method could be applied to the network. This can further assist the user in identifying the molecular pathways of the nodes of interest, a useful feature in network analysis.
KW  - Import
KW  - database
KW  - cytoscape
Y2  - 2012
U6  - https://nbn-resolving.org/urn:nbn:de:bsz:840-opus-543
UN  - https://nbn-resolving.org/urn:nbn:de:bsz:840-opus-543
ER  -