Genome Informatics
Overview
Genome Informatics is a scientific journal, published since 2001 in English. The journal's country of origin is Japan and its primary focus area is genetics.
Details
Recent Articles
1.
Yada T, Yoshida K, Morita M, Taniguchi T, Irie T, Suzuki Y
Genome Inform
. 2012 Jan;
25(1):53-60.
PMID: 22230939
We developed linear regression models which predict strength of transcriptional activity of promoters from their sequences. Intrinsic transcriptional strength data of 451 human promoter sequences in three cell lines (HEK293,...
2.
Tamada Y, Shimamura T, Yamaguchi R, Imoto S, Nagasaki M, Miyano S
Genome Inform
. 2012 Jan;
25(1):40-52.
PMID: 22230938
Our research group is currently developing software for estimating large-scale gene networks from gene expression data. The software, called SiGN, is specifically designed for the Japanese flagship supercomputer "K computer"...
3.
Ohue M, Matsuzaki Y, Akiyama Y
Genome Inform
. 2012 Jan;
25(1):25-39.
PMID: 22230937
Elucidating protein-RNA interactions (PRIs) is important for understanding many cellular systems. We developed a PRI prediction method by using a rigid-body protein-RNA docking calculation with tertiary structure data. We evaluated...
4.
Iwamoto K, Hamada H, Okamoto M
Genome Inform
. 2012 Jan;
25(1):12-24.
PMID: 22230936
When the DNA damage is generated, the tumor suppressor gene p53 is activated and selects the cell fate such as the cell cycle arrest, the DNA repair and the induction...
5.
Arita M, Yoshimoto M, Suwa K, Hirai A, Kanaya S, Shibahara N, et al.
Genome Inform
. 2012 Jan;
25(1):1-11.
PMID: 22230935
A wiki-based repository for crude drugs and Kampo medicine is introduced. It provides taxonomic and chemical information for 158 crude drugs and 348 prescriptions of the traditional Kampo medicine in...
6.
Zhao Y, Tamura T, Hayashida M, Akutsu T
Genome Inform
. 2011 Nov;
24:218-29.
PMID: 22081602
For several decades, many methods have been developed for predicting organic synthesis paths. However these methods have non-polynomial computational time. In this paper, we propose a bottom-up dynamic programming algorithm...
7.
G1 and G2 arrests in response to osmotic shock are robust properties of the budding yeast cell cycle
Waltermann C, Floettmann M, Klipp E
Genome Inform
. 2011 Nov;
24:204-17.
PMID: 22081601
Boolean modeling has been successfully applied to the budding yeast cell cycle to demonstrate that both its structure and its timing are robustly designed. However, from these studies few conclusions...
8.
Tamura T, Yamanishi Y, Tanabe M, Goto S, Kanehisa M, Horimoto K, et al.
Genome Inform
. 2011 Nov;
24:193-203.
PMID: 22081600
Signaling pathways are often represented by networks where each node corresponds to a protein and each edge corresponds to a relationship between nodes such as activation, inhibition and binding. However,...
9.
Spiesser T, Klipp E
Genome Inform
. 2011 Nov;
24:179-92.
PMID: 22081599
DNA replication is a fundamental process that is tightly regulated during the cell cycle. In budding yeast it starts from multiple origins of replication and proceeds in a timely fashion...
10.
Shimamura T, Imoto S, Nagasaki M, Yamauchi M, Yamaguchi R, Fujita A, et al.
Genome Inform
. 2011 Nov;
24:164-78.
PMID: 22081598
One of the open problems in systems biology is to infer dynamic gene networks describing the underlying biological process with mathematical, statistical and computational methods. The first-order difference equation-based models...