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Article
Numerical factorization of a polynomial by rational Hermite interpolation
We derive a class of iterative formulae to find numerically a factor of arbitrary degree of a polynomialf(x) based on the rational Hermite interpolation. The iterative formula generates the sequence of polynomial...
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Article
On Factorization of Analytic Functions and Its Verification
An interval method for finding a polynomial factor of an analytic function f(z) is proposed. By using a Samelson-like method recursively, we obtain a sequence of polynomials that converges to a factor p*(z) of f(
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Article
Monitoring the expression pattern of around 7,000 Arabidopsis genes under ABA treatments using a full-length cDNA microarray
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Article
Monitoring the expression pattern of around 7,000 Arabidopsis genes under ABA treatments using a full-length cDNA microarray
Full-length cDNAs are essential for functional analysis of plant genes. Recently, cDNA microarray analysis has been developed for quantitative analysis of global and simultaneous analysis of expression profil...
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Article
A method for finding the zeros of polynomials using a companion matrix
The zeros of a polynomial can be found by computing the eigenvalues of the corresponding companion matrix. However, in the case of multiple zeros, the calculated results are usually not as accurate as those fo...
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Chapter
Transcriptome analysis in abiotic stress conditions in higher plants
Drought, high salinity, and low temperature are major environmental factors that limit plant productivity. Plants respond and adapt to these stresses in order to survive. Recent molecular and genetic studies h...
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Article
Monitoring the expression profiles of genes induced by hyperosmotic, high salinity, and oxidative stress and abscisic acid treatment in Arabidopsis cell culture using a full-length cDNA microarray
Transcriptional regulation in response to hyperosmotic, high-salinity and oxidative stress, and abscisic acid (ABA) treatment in Arabidopsis suspension-cultured cell line T87 was investigated with a cDNA microarr...
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Chapter and Conference Paper
A Parallel Method for Large Sparse Generalized Eigenvalue Problems by OmniRPC in a Grid Environment
In this paper we present a parallel method for finding several eigenvalues and eigenvectors of a generalized eigenvalue problem A x = λB x, where A and B are ...
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Chapter and Conference Paper
A Hybrid Parallel Method for Large Sparse Eigenvalue Problems on a Grid Computing Environment Using Ninf-G/MPI
In the present paper, we propose a hybrid parallel method for large sparse eigenvalue problems in a grid computing environment. A moment-based method that finds several eigenvalues and their corresponding eige...
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Chapter and Conference Paper
Performance Improvement by Data Management Layer in a Grid RPC System
A grid RPC system provides a useful and intuitive programming interface for master-worker type applications in a grid environment. In many grid applications, such as parameter search programs, both master and ...
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Article
Open AccessA flexible representation of omic knowledge for thorough analysis of microarray data
In order to understand microarray data reasonably in the context of other existing biological knowledge, it is necessary to conduct a thorough examination of the data utilizing every aspect of available omic k...
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Article
Monitoring expression profiles of Arabidopsis genes during cold acclimation and deacclimation using DNA microarrays
A comparative analysis of gene expression profiles during cold acclimation and deacclimation is necessary to elucidate the molecular mechanisms of cold stress responses in higher plants. We analyzed gene expre...
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Chapter and Conference Paper
A Master-Worker Type Eigensolver for Molecular Orbital Computations
We consider a parallel method for solving generalized eigenvalue problems that arise from molecular orbital computations. We use a moment-based method that finds several eigenvalues and their corresponding eig...
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Article
Open AccessIdentification of plant promoter constituents by analysis of local distribution of short sequences
Plant promoter architecture is important for understanding regulation and evolution of the promoters, but our current knowledge about plant promoter structure, especially with respect to the core promoter, is ...
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Article
Open AccessFunctional annotation of 19,841 Populus nigra full-length enriched cDNA clones
Populus is one of favorable model plants because of its small genome. Structural genomics of Populus has reached a breakpoint as nucleotides of the entire genome have been determined. Reaching the post genome era...
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Article
Open AccessSequencing analysis of 20,000 full-length cDNA clones from cassava reveals lineage specific expansions in gene families related to stress response
Cassava, an allotetraploid known for its remarkable tolerance to abiotic stresses is an important source of energy for humans and animals and a raw material for many industrial processes. A full-length cDNA li...
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Chapter and Conference Paper
On Single Precision Preconditioners for Krylov Subspace Iterative Methods
Large sparse linear systems Ax= b arise in many scientific applications. Krylov subspace iterative methods are often used for solving such linear systems. Preconditioning techniques are efficient to reduce the nu...
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Article
Open AccessTriMEDB: A database to integrate transcribed markers and facilitate genetic studies of the tribe Triticeae
The recent rapid accumulation of sequence resources of various crop species ensures an improvement in the genetics approach, including quantitative trait loci (QTL) analysis as well as the holistic population ...
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Article
Open AccessLarge-scale collection and annotation of full-length enriched cDNAs from a model halophyte, Thellungiella halophila
Thellungiella halophila (also known as Thellungiella salsuginea) is a model halophyte with a small plant size, short life cycle, and small genome. It easily undergoes genetic transformation by the floral dip** ...
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Article
Open AccessGenome sequence of the palaeopolyploid soybean
Soybean (Glycine max) is one of the most important crop plants for seed protein and oil content, and for its capacity to fix atmospheric nitrogen through symbioses with soil-borne microorganisms. We sequenced the...