ALES: cell lineage analysis and mapping of developmental events

被引:23
作者
Braun, V
Azevedo, RBR
Gumbel, M
Agapow, PM
Leroi, AM
Meinzer, HP
机构
[1] Deutsch Krebsforschungszentrum, Div Med & Biol Informat, D-69120 Heidelberg, Germany
[2] Univ London Imperial Coll Sci Technol & Med, Dept Biol, Ascot SL5 5PY, Berks, England
[3] Univ Houston, Dept Biol & Biochem, Houston, TX 77204 USA
基金
英国生物技术与生命科学研究理事会; 英国自然环境研究理事会;
关键词
D O I
10.1093/bioinformatics/btg087
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
Motivation: Animals build their bodies by altering the fates of cells. The way in which they do so is reflected in the topology of cell lineages and the fates of terminal cells. Cell lineages should, therefore, contain information about the molecular events that determined them. Here we introduce new tools for visualizing, manipulating, and extracting the information contained in cell lineages. Our tools enable us to analyze very large cell lineages, where previously analyses have only been carried out on cell lineages no larger than a few dozen cells. Results: Ales (A Lineage Evaluation System) allows the display, evaluation and comparison of cell lineages with the aim of identifying molecular and cellular events underlying development. Ales introduces a series of algorithms that locate putative developmental events. The distribution of these predicted events can then be compared to gene expression patterns or other cellular characteristics. In addition, artificial lineages can be generated, or existing lineages modified, according to a range of models, in order to test hypotheses about lineage evolution.
引用
收藏
页码:851 / 858
页数:8
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