iab.keio.ac.jp

pepbase.iab.keio.ac.jp

Pepbase -Comprehensive Peptide MS/MS Spectra Database for Proteomics Applications

Mol Cell. Proteomics. Phosphopeptide Enrichment by Aliphatic Hydroxy Acid-Modified Metal Oxide Chromatography for NanoLC-MS/MS in Proteomics Applications. Database searching against SwissProt 54.0 was performed using the dataset reported in the original publication. Automated Phosphoproteome Analysis for Cultured Cancer Cells by Two-Dimensional NanoLC-MS using a Calcined Titania/C18 Biphasic Column. Large-scale phosphorylation mapping reveals the extent of tyrosine phosphorylation in Arabidopsis.

oryzapg.iab.keio.ac.jp

OryzaPG-DB:: The Rice Proteogenomics Database

Proteogenomics (PG) is a recent research trend aiming to utilize the proteome information in the discovery of new genomic features in both eukaryotic and prokaryotic organisms. The proteome information is an incomparable source of translation evidence of the genes. While, the MS/MS based proteomics provides high-throughput peptides-based proteome data. Thus, the MS/MS based peptides-based proteomics became the technology-of-choice for many proteogenomics projects. The information are provides in three fl...

nls-mapper.iab.keio.ac.jp

NLS Mapper

Prediction of importin α-dependent nuclear localization signals. Input or paste a single amino acid sequence in the box below:. Characters except alphabet are ignored). Or select a file (fasta or row format):. Select a cut-off score:. Protein regions searched for bipartite NLSs with a long linker (13-20 aa):. Within terminal 60-amino-acid regions. This program is based on [. 2009) PNAS 106, 10171-10176. If you use results from this analysis for publication, please cite the above reference.

metabolome.iab.keio.ac.jp

metabolomics-lab

Welcome to IAB Metabolomics Lab! Profile and Research Interest. Tomoyoshi Soga, Ph.D. Institute for Advanced Biosciences (IAB). School of Medicine, Keio University. Human Metabolome Technologies, Inc. In April 2001. He is a pioneer in the development of CE-MS technologies and his research interests include development of CE-MS methods for metabolome analysis, understanding cancer metabolism, and biomarker discovery. He co-founded Human Metabolome Technologies. Cancer Metabolism, Biomarker discovery.

megu.iab.keio.ac.jp

M E G U

Institute for Advanced Biosciences. Publication (Click here to proceed). Our manuscript describing this online resource is published by In Silico. Biology journal with the title, "MEGU: Pathway mapping web-service based on KEGG and SVG". Click the above "Publication" to view the full-text of the manuscript. Pathway Visualization Web Application (Click here to proceed). Sample Data (click on the image link to SVG file):. Original Data: available at GenoBase.

mathdamp.iab.keio.ac.jp

MathDAMP - Mathematica Package for Differential Analysis of Metabolite Profiles

Institute for Advanced Biosciences. Mathematica package for differential analysis of metabolite profiles. MathDAMP facilitates the visualization of differences between metabolite profiles acquired by hyphenated mass spectrometry techniques. Differences are highlighted by applying arithmetic operations to all corresponding signal intensities from whole raw (automatically preprocessed and normalized) datasets on a datapoint-by-datapoint basis. The results are visualized using density plots. More. Descripti...

empai.iab.keio.ac.jp

emPAI Calc ( Estimate in vivo Protein Amounts from Identification Data )

EmPAI Calc. (Click here to proceed). A short introduction (which appeared in Bioinformatics. Introduction to emPAI algorithm in proteomic data analysis with an emphasis on dynamic range and linearity. EmPAI (exponentially modified protein abundance index), developed by Ishihama et al. Max upload size: 15 megabytes (and counting). Maximum number of upload slots: 15. Data Format: Mascot (ver. 2.1) Peptide Summary Report. In HTML / Xome Peptide List / CSV. JavaScript must be enabled on all browsers.

ecoli.iab.keio.ac.jp

Multi-omics database of Escherichia coli - Institute for Advanced Biosciences, Keio University

Presented by the Institute for Advanced Biosciences, Keio University. To understand the highly complex nature of living systems, a comprehensive knowledge of the quantitative information regarding the inner molecular components of cells is necessary. Here at the Institute for Advanced Biosciences, Keio University located in Tsuruoka city of Japan, we are dedicated to a collaborative grand challenge to gather multi-omics data of the model organism Escherichia coli. Please cite the following manuscript:.

ecell3d.iab.keio.ac.jp

E-Cell Simulation Environment 3D

Cell simulation realizes theoretical experiments in silico. To enhance our understanding of dynamic cellular activities through integrative systems biology approaches. E-Cell 3D introduces a whole new dimension for the understanding of dynamic behaviors of complex cellular systems, with dazzling visualization using cutting-edge 3D graphics. This visualization approach allows the user to capture the entire system at a glance, and aids the heuristics of system biologists in the process of modeling. The Ins...

cancer-metabolism2013.iab.keio.ac.jp

がんと代謝シンポジウム2013

平成25年1月17日 木 13:00 1月18日 金 18:00. TEL: 0235-29-0528, FAX: 0235-29-0574. E-mail cancer-metabolism2013at iab.keio.ac.jp.