投稿論文（技術提供含む）
Evaluation of photoreceptor-directed fibroblasts derived from retinitis pigmentosa patients with defects in the EYS gene: a possible cost-effective cellular model for mechanism-oriented drug. MDContactCom: a tool to identify differences of protein molecular dynamics from two MD simulation trajectories in terms of interresidue contacts Evaluation of photoreceptor-directed fibroblasts derived from retinitis pigmentosa patients with defects in the EYS gene: a possible cost-effective cellular model for mechanism-oriented drug. Multi-Omics Analysis to Generate Hypotheses for Mild Health Problems in Monkeys. Clinicopathological impacts of DNA methylation alterations on pancreatic ductal adenocarcinoma: prediction of early recurrence based on genome-wide DNA methylation profiling. Cooperative participation of epigenomic and genomic alterations in the clinicopathological diversity of gastric adenocarcinomas: significance of cell adhesion and epithelial-mesenchymal transition-related signaling pathways. Establishment of diagnostic criteria for upper urinary tract urothelial carcinoma based on genome-wide DNA methylation analysis. Aberrant DNA methylation results in altered gene expression in non-alcoholic steatohepatitis-related hepatocellular carcinomas. Analysis of O-glycoforms of the IgA1 hinge region by sequential deglycosylation. Serine 298 Phosphorylation in Linker 2 of UHRF1 Regulates Ligand-Binding Property of Its Tandem Tudor Domain Combination of Coarse-Grained Molecular Dynamics Simulations and Small-Angle X-ray Scattering Experiments Establishment of permutation for cancer risk estimation in the urothelium based on genome-wide DNA methylation analysis. Association Between Preanalytical Factors and Tumor Mutational Burden Estimated by Next-Generation Sequencing-Based Multiplex Gene Panel Assay. Ligand binding to human prostaglandin E receptor EP4 at the lipid-bilayer interface. Feasibility of methylome analysis using small amounts of genomic DNA from formalin‐fixed paraffin‐embedded tissue. Epigenome mapping of human normal purified hepatocytes: personal epigenome variation and genome-epigenome correlation. Clinical sequencing using a next-generation sequencing-based multiplex gene assay in patients with advanced solid tumors. Genome-wide DNA methylation analysis during non-alcoholic steatohepatitis-related multistage hepatocarcinogenesis: comparison with hepatitis virus-related carcinogenesis. Genes involved in development and differentiation are commonly methylated in cancers derived from multiple organs: a single-institutional methylome analysis using 1007 tissue specimens. The Effect of Conformational Flexibility on Binding Free Energy Estimation between Kinases and Their Inhibitors M-path: a compass for navigating potential metabolic pathways. Alternative mammalian target of rapamycin (mTOR) signal activation in sorafenib-resistant hepatocellular carcinoma cells revealed by array-based pathway profiling. MicroRNA expression and functional profiles of osteosarcoma. Molecular architecture of the active mitochondrial protein gate. PDGFR-β Plays a Key Role in the Ectopic Migration of Neuroblasts in Cerebral Stroke. Alterations of the spindle checkpoint pathway in clinicopathologically aggressive CpG island methylator phenotype clear cell renal cell carcinomas. Epigenetic clustering of gastric carcinomas based on DNA methylation profiles at the precancerous stage: its correlation with tumor aggressiveness and patient outcome. Epigenetic clustering of lung adenocarcinomas based on DNA methylation profiles in adjacent lung tissue: Its correlation with smoking history and chronic obstructive pulmonary disease. M-path: A Compass for Navigating Potential Metabolic Pathways. Rapid identification of fatty acids and (O-acyl)-ω-hydroxy fatty acids in human meibum by liquid chromatography/high-resolution mass spectrometry. Development of a lipid profiling system using reverse-phase liquid chromatography coupled to high-resolution mass spectrometry with rapid polarity switching and an automated lipid identification software. Diagnostic and Prognostic Significance of the Alternatively Spliced ACTN4 Variant in High-grade Neuroendocrine Pulmonary Tumours. Distinct outcome of stage I lung adenocarcinoma with ACTN4 cell motility gene amplification. Protein Experimental Information Management System (PREIMS) Based on Ontology: Development and Applications. Supercritical fluid chromatography/Orbitrap mass spectrometry based lipidomics platform coupled with automated lipid identification software for accurate lipid profiling. Use of Quantitative Shotgun Proteomics to Identify Fibronectin 1 as a Potential Plasma Biomarker for Clear Cell Carcinoma of the Kidney. Altered Plasma Apolipoprotein Modifications in Patients with Pancreatic Cancer: Protein Characterization and Multi-institutional Validation. Biomarker Discovery of Pancreatic and Gastrointestinal Cancer by 2DICAL: 2-Dimensional Image-Converted Analysis of Liquid Chromatography and Mass Spectrometry. Carbonic Anhydrase I as a New Plasma Biomarker for Prostate Cancer. Combined Functional Genome Survey of Therapeutic Targets for Clear Cell Carcinoma of the Kidney. Identification of Adipophilin as a Potential Plasma Biomarker for Colorectal Cancer Using Label-free Quantitative Mass Spectrometry and Protein Microarray. Plasma Biomarker Discovery and Validation for Colorectal Cancer by Quantitative Shotgun Mass Spectrometry and Protein Microarray. Reduced Plasma Level of CXC Chemokine Ligand 7 in Patients with Pancreatic Cancer. SAHG, a comprehensive database of predicted structures of all human proteins. Genome-wide germline analyses on cancer susceptibility and GeMDBJ database: Gastric cancer as an example. Payao: a community platform for SBML pathway model curation. Reduced Argininosuccinate Synthetase Is a Predictive Biomarker for the Development of Pulmonary Metastasis in Patients with Osteosarcoma. Survival Prediction for Pancreatic Cancer Patients Receiving Gemcitabine Treatment. GEM-TREND: a web tool for gene expression data mining toward relevant network discovery. Identification of a predictive biomarker for hematologic toxicities of gemcitabine. Large-scale quantitative clinical proteomics by label-free liquid chromatography and mass spectrometry. Development of a Data-mining System for Differential Profiling of Cell Glycoproteins Based on Lectin Microarray. Use of a library of mutated Maackia amurensis hemagglutinin for profiling the cell lineage and differentiation. Genetic variation in PSCA is associated with susceptibility to diffuse-type gastric cancer. CellDesigner 3.5: A Versatile Modeling Tool for Biochemical Networks. The H-Invitational Database (H-InvDB), a comprehensive annotation resource for human genes and transcripts. Distinct gene expression-defined classes of gastrointestinal stromal tumor. “CellDesigner: A Modeling Tool for Biochemical Networks.”, IEEE Special Issue on Computational Melina II: a web tool for comparisons among several predictive algorithms to find potential motifs from promoter regions Hyaline cartilage formation and enchondral ossification modeled with KUM5 and OP9 chondroblasts. Strategy for simulation of CID spectra of N-linked oligosaccharides toward glycomics. Molecular cloning and characterization of a novel human beta1,3-glucosyltransferase, which is localized at the endoplasmic reticulum and glucosylates O-linked fucosylglycan on thrombospondin type 1 repeat domain. Label-free quantitative proteomics using large peptide data sets generated by nanoflow liquid chromatography and mass spectrometry. A strategy for identification of oligosaccharide structures using observational multistage mass spectral library. The carbohydrate sequence markup language (CabosML): an XML description of carbohydrate structures. Estimating immunoregulatory gene networks in human herpesvirus type 6-infected T cells. Global analysis of the regulatory network structure of gene expression in Saccharomyces cerevisiae. An integrated comprehensive workbench for inferring genetic networks: voyagene. Molecular cloning and characterization ofbeta1,4-N-acetylgalactosaminyltransferases IV synthesizing N,N'-diacetyllactosediamine. A novel human b1,3-N-acetylgalactosaminyltransferase which synthesizes a unique carbohydrate structure, GalNAcb1-3GlcNAc. Molecular cloning and characterization of a human multisubstrate specific nucleotide-sugar transporter homologous to Drosophila fringe connection. Discovery of Novel Transcription Control Relationships with Gene Regulatory Networks Generated from Multiple-disruption Full Genome Expression Libraries. Initiation of O-glycan synthesis in IgA1 hinge region is determined by a single enzyme, UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 2. Cloning and characterization of a novel UDP-GalNAc:polypeptide N-acetylgalactosaminyltransferase, pp-GalNAc-T14. Molecular cloning and identification of 3'-phosphoadenosine 5'-phosphosulfate transporter. Characterization of a heparan sulfate 3-O-sulfotransferase-5, an enzyme synthesizing a tetrasulfated disaccharide. Chondroitin sulfate synthase-2. Molecular cloning and characterization of a novel human glycosyltransferase homologous to chondroitin sulfate glucuronyltransferase, which has dual enzymatic activities. Chondroitin sulfate synthase-3. Molecular cloning and characterization. Comparison of glycosyltransferase families using the profile hidden Markov model. Molecular cloning and characterization of a novel human beta 1,4-N-acetylgalactosaminyltransferase, beta 4GalNAc-T3, responsible for the synthesis of N,N'-diacetyllactosediamine, galNAc beta 1-4GlcNAc. Enzymatic synthesis of chondroitin with a novel chondroitin sulfate N-acetylgalactosaminyltransferase that transfers N-acetylgalactosamine to glucuronic acid in initiation and elongation of chondroitin sulfate synthesis. Development of a System for the Inference of Large Scale Genetic Networks. Cross Talk of Prolyl Isomerases, Pin1/Ess1 and Cyclophilin A.
