GenePath: a system for inference of genetic networks and proposal of genetic experiments.
A genetic network is a formalism that is often used in biology to represent causalities and reason about biological phenomena related to genetic regulation. We present GenePath, a computer-based system that supports the inference of genetic networks from a set of genetic experiments. Implemented in Prolog, GenePath uses abductive inference to elucidate network constraints based on background knowledge and experimental results. Additionally, it can propose genetic experiments that may further refine the discovered network and establish relations between genes that could not be related based on the original experimental data. We illustrate GenePath's approach and utility on analysis of data on aggregation and sporulation of the soil amoeba Dictyostelium discoideum.
Zupan
Blaz
B
Faculty of Computer and Information Science, University of Ljubljana, Trzaska 25, SI-1000 Ljubljana, Slovenia. blaz.zupan@fri.uni-lj.si
Bratko
Ivan
I
Demsar
Janez
J
Juvan
Peter
P
Curk
Tomaz
T
Borstnik
Urban
U
Beck
J Robert
JR
Halter
John
J
Kuspa
Adam
A
Shaulsky
Gad
G
D000818:Animals; D004247:DNA; D004023:Dictyostelium / Q000235:genetics; D005786:Gene Expression Regulation; D023281:Genomics; D006801:Humans; D019359:Knowledge; D016571:Neural Networks, Computer; D012106:Research / Q000639:trends
D004247:DNA