We introduce and discuss a new computational approach towards prediction
and inference of biological functions from genomic sequences by making
use of the pathway data in KEGG. Due to its piecewise nature, the
current approach of predicting each gene function based on sequence
similarity searches often fails to reconstruct cellular functions
with all necessary components. The pathway diagram in KEGG, which
may be considered a wiring diagram of molecules in biological systems,
can be utilised as a reference for functional reconstruction. KEGG
also contains binary relations that represent molecular interactions
and relations and that can be utilised for computing and comparing
pathways.
Description
This article, written in 1998, provides updates on the state of the KEGG databases. The particular emphasis of the paper is on the PATHWAY database and how pathways are generated.
%0 Journal Article
%1 ogata1998computation
%A Ogata, Hiroyuki
%A Goto, Susumu
%A Fujibuchi, Wataru
%A Kanehisa, Minoru
%D 1998
%J BioSystems
%K 10 background history kegg methods pathways
%N 1
%P 119-128
%R 10.1016/S0303-2647(98)00017-3
%T Computation with the KEGG pathway database
%U http://www.ingentaconnect.com/search/expand?pub=infobike://els/03032647/1998/00000047/00000001/art00017&unc=
%V 47
%X We introduce and discuss a new computational approach towards prediction
and inference of biological functions from genomic sequences by making
use of the pathway data in KEGG. Due to its piecewise nature, the
current approach of predicting each gene function based on sequence
similarity searches often fails to reconstruct cellular functions
with all necessary components. The pathway diagram in KEGG, which
may be considered a wiring diagram of molecules in biological systems,
can be utilised as a reference for functional reconstruction. KEGG
also contains binary relations that represent molecular interactions
and relations and that can be utilised for computing and comparing
pathways.
@article{ogata1998computation,
abstract = {We introduce and discuss a new computational approach towards prediction
and inference of biological functions from genomic sequences by making
use of the pathway data in KEGG. Due to its piecewise nature, the
current approach of predicting each gene function based on sequence
similarity searches often fails to reconstruct cellular functions
with all necessary components. The pathway diagram in KEGG, which
may be considered a wiring diagram of molecules in biological systems,
can be utilised as a reference for functional reconstruction. KEGG
also contains binary relations that represent molecular interactions
and relations and that can be utilised for computing and comparing
pathways.},
added-at = {2017-11-09T15:42:43.000+0100},
author = {Ogata, Hiroyuki and Goto, Susumu and Fujibuchi, Wataru and Kanehisa, Minoru},
biburl = {https://www.bibsonomy.org/bibtex/2f2dc98f6dc69f035b54d8cc23c56cd02/artheibault},
description = {This article, written in 1998, provides updates on the state of the KEGG databases. The particular emphasis of the paper is on the PATHWAY database and how pathways are generated.},
doi = {10.1016/S0303-2647(98)00017-3},
interhash = {39659166cb81857e6df02a9458a08739},
intrahash = {f2dc98f6dc69f035b54d8cc23c56cd02},
journal = {BioSystems},
keywords = {10 background history kegg methods pathways},
number = 1,
pages = {119-128},
timestamp = {2017-11-09T15:42:43.000+0100},
title = {Computation with the KEGG pathway database},
url = {http://www.ingentaconnect.com/search/expand?pub=infobike://els/03032647/1998/00000047/00000001/art00017&unc=},
volume = 47,
year = 1998
}