Exploration of the cell-cycle genes found within the RIKEN FANTOM2 data set.
The cell cycle is one of the most fundamental processes within a cell. Phase-dependent expression and cell-cycle checkpoints require a high level of control. A large number of genes with varying functions and modes of action are responsible for this biology. In a targeted exploration of the FANTOM2-Variable Protein Set, a number of mouse homologs to known cell-cycle regulators as well as novel members of cell-cycle families were identified. Focusing on two prototype cell-cycle families, the cyclins and the NIMA-related kinases (NEKs), we believe we have identified all of the mouse members of these families, 24 cyclins and 10 NEKs, and mapped them to ENSEMBL transcripts. To attempt to globally identify all potential cell cycle-related genes within mouse, the MGI (Mouse Genome Database) assignments for the RIKEN Representative Set (RPS) and the results from two homology-based queries were merged. We identified 1415 genes with possible cell-cycle roles, and 1758 potential paralogs. We comment on the genes identified in this screen and evaluate the merits of each approach.
Forrest
Alistair R R
AR
The Institute for Molecular Bioscience, University of Queensland, Queensland Q4072, Australia. a.forrest@imb.uq.edu.au
Taylor
Darrin
D
Grimmond
Sean
S
D000595:Amino Acid Sequence; D000818:Animals; D018797:Cell Cycle Proteins / Q000235:genetics* / Q000502:physiology; D020090:Chromosome Segregation / Q000235:genetics; D019295:Computational Biology / Q000379:methods; D016213:Cyclins / Q000235:genetics / Q000502:physiology; D030541:Databases, Genetic; D004330:Drosophila / Q000235:genetics; D005260:Female; D017344:Genes, Insect / Q000235:genetics / Q000502:physiology; D018816:Genes, cdc; D051379:Mice; D008969:Molecular Sequence Data; D000072380:NIMA-Related Kinase 1; D000072379:NIMA-Related Kinases; D011494:Protein Kinases; D017346:Protein Serine-Threonine Kinases / Q000235:genetics / Q000378:metabolism / Q000502:physiology; D011505:Protein-Tyrosine Kinases / Q000235:genetics / Q000502:physiology
D018797:Cell Cycle Proteins; D016213:Cyclins; D011494:Protein Kinases; D011505:Protein-Tyrosine Kinases; C000606914:NEK1 protein, human; C512685:NEK7 protein, human; C462119:NEK9 protein, human; D000072380:NIMA-Related Kinase 1; D000072379:NIMA-Related Kinases; C442331:NIMA-related kinase 6; C000606920:Nek1 protein, mouse; C490317:Nek2 protein, mouse; C089442:Nek3 protein, mouse; C512686:Nek7 protein, mouse; C499219:Nek8 protein, mouse; D017346:Protein Serine-Threonine Kinases