Content-rich biological network constructed by mining PubMed abstracts

BMC Bioinformatics

Table 3 Retrospective study of the predictive capability of the "hypothetical relationships" generated by Chilibot

Term 1	Tertiary nodes	Term 2	References Analyzed	Relationship Documented
LTP	PI-3K PKA CAMKII ACTIN ERK TAU PKC AMPA	KV4.2	1960~2000	2001~2004
LTP	PKA ACTIN SYNAPTOPHYSIN PKC NMDA TAU AMPA PLC	ERK	1960~1995	1996~2000
LTP	PKA ACTIN NMDA TAU AMPA PLC	ARC	1960~1995	1996~2000
LTP	PKA ACTIN CREB PKC PLC	PI-3K	1960~1995	1996~2000
LTP	PKA ACTIN SYNAPTOPHYSIN PKC TAU	ACTININ	1960~1995	1996~2000
LTP	PKA CAMKII CREB PKC TAU	ATF	1960~1995	1996~2000
LTP	ZIF268 PKC NMDA PLC	TRKB	1960~1995	1996~2000
LTP	PKA CAMKII CREB	CAMKIV	1960~1995	1996~2000
LTP	ZIF268 PLC	TRKA	1960~1995	1996~2000
LTP	NMDA TAU PLC ACTIN	ARC	1960~1990	1996~2000
LTP	PKC TAU CAMKII ACTIN	SYNAPSIN I	1960~1990	1991~1995
LTP	PKC NMDA TAU ACTIN	PKA	1960~1990	1991~1995
LTP	TAU ACTIN	SYNAPTOPHYSIN	1960~1990	1991~1995
LTP	TAU ACTIN	ACTININ	1960~1990	1996~2000
LTP	ACTIN	ZIF268	1960~1990	1991~1995

A "hypothetical relationship" is defined when two terms have no documented relationship, but share connections to the same tertiary node(s). To test the value of these relationships in predicting the findings of future research, 22 terms (i.e., term 2; see methods) known to be involved in long-term potentiation (LTP) (i.e. term 1) were queried by Chilibot, limiting the latest references analyzed to the years 1990, 1995, 2000, and 2004. The "hypothetical relationships" (i.e. term 1 is related to term 2) and the time periods when these hypothetical relationships were suggested and documented are listed. The original results of these searches including links to the PubMed abstracts are available [see additional file 5].

ISSN: 1471-2105