ProgeniDB: a novel cell lineage database for generation associated phenotypic behavior in cell-based assays.
ProgeniDB is a web-accessible cell lineage database, which comprises data derived from time-lapse microscopy image sequences, using our novel encoding software tool called ProgeniTRAK. This database provides information on qualitative and quantitative changes in cellular dynamics in response to anti-cancer drugs variation, which is critical for pharmacodynamic modeling and validation. The lineage data for each progenitor cell centers around the construction of a bifurcation map, locating in both space and time critical cellular events such as cell division and cell death. This database provides the opportunity to select a set of lineages based on different experimental constraints and observe the associated phenotypic behavior of progenitor cells. The output generated from this database depicts the cellular dynamic of selected population which can be downloaded to explore and exploit in relation to hypothesis-driven drug discovery. A case study is presented where we interrogate drug-induced perturbations on ensuing cell lineages. The database is available at http://biodiversity.cs.cf.ac.uk/cymart/progenidb.html.
Khan
Imtiaz A
IA
Biostatistics and Bioinformatics Unit, School of Medicine, Cardiff University, Cardiff, UK. wpciak@cf.ac.uk
Husemann
Peter
P
Campbell
Lee
L
White
Nick S
NS
White
Richard J
RJ
Smith
Paul J
PJ
Errington
Rachel J
RJ
D000293:Adolescent; D000970:Antineoplastic Agents / Q000494:pharmacology; D016923:Cell Death / Q000187:drug effects / Q000502:physiology; D002454:Cell Differentiation / Q000502:physiology*; D002455:Cell Division / Q000187:drug effects / Q000502:physiology; D045744:Cell Line, Tumor; D019070:Cell Lineage / Q000502:physiology*; D003114:Colony-Forming Units Assay / Q000379:methods* / Q000639:trends; D003198:Computer Simulation; D016208:Databases, Factual / Q000592:standards / Q000639:trends*; D004354:Drug Screening Assays, Antitumor / Q000379:methods* / Q000639:trends; D005260:Female; D006801:Humans; D010641:Phenotype; D015203:Reproducibility of Results; D013234:Stem Cells / Q000166:cytology / Q000187:drug effects / Q000502:physiology*
D000970:Antineoplastic Agents