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02. 自己紹介

issaku yamada edited this page Sep 12, 2022 · 1 revision

自己紹介

研究について

研究のキーワード

  • 複合糖質

    • 糖鎖とタンパク質、ペプチド、脂質などの化合物が結合した化合物

表記法

  • Symbol Nomenclature For Glycans (SNFG)
    • The Symbol Nomenclature For Glycans (SNFG) is a community-curated standard for the depiction of simple monosaccharides and complex carbohydrates (glycans) using various colored-coded, geometric shapes, along with defined text additions.

    • 糖鎖科学研究において標準的に用いられている単糖類のシンボル表記

  • Web3 Unique Representation of Carbohydrate Structures (WURCS)
    • Web3 Unique Representation of Carbohydrate Structures (WURCS), a new linear notation for representing carbohydrates for the Semantic Web. In this new format, it is possible to represent any published carbohydrate structure as a linear string, which can be used as a unique identifier for the Semantic Web.

    • 国際糖鎖構造リポジトリGlyTouCanの標準形式

WURCS=2.0/3,5,4/[a2122h-1b_1-5_2*NCC/3=O][a1122h-1b_1-5][a1122h-1a_1-5]/1-1-2-3-3/a4-b1_b4-c1_c3-d1_c6-e1

オントロジー

  • GlycoRDF

    • GlycoRDF is a standard representation for storing Glycomcis data (glycan structures, publication information, biological source information, experimental data) in RDF.

    • 国内外の多くの糖鎖関連データベースで利用されている。

  • GlycoCoO

    • Glycoconjugate Ontology (GlycoCoO) is a standard ontology for glycoconjugate data (glycoprotein/glycolipid structures, publication information, biological source information, experimental data).

    • 国内外の多くの糖鎖関連データベースで利用されている。

ソフトウェアツール

  • GlycanBuilder2-SNFG: GlycanBuilder updated to handle SNFG

    • GlycanBuilder2 is an updated version of GlycanBuilder which supports the building of structures to and from WURCS2.0, drawing cyclic glycans and specifying glycans with cross-linked substituents. It also supports SNFG symbols.

    • 糖鎖科学ポータルGlyCosmosやGlycoNAVIで利用

  • GlycanBuilder2Web

    • A Web app for GlycanBuilder2.

    • 糖鎖科学ポータルGlyCosmosやGlycoNAVIで利用

  • SugarDrawer

    • A Web-Based Database Search Tool with Editing Glycan Structures

    • 糖鎖科学ポータルGlyCosmosやGlycoNAVIで利用

  • PDB2Glycan

    • This software outputs the result of the analysis of glycan information about PDB's mmJSON and mmCIF format data.

    • GlycoNAVIやwwPDB OneDep systemで利用

  • MolWURCS

    • MolWURCS is a software designed to interconvert between WURCS and many file formats used in molecular modeling and computational chemistry and related area.

    • PubChemやGlycoNAVIで利用

  • GlycanFormatConverter

    • GlycanFormatConverter is core library of glycan text conversion tools.

    • 糖鎖科学ポータルGlyCosmosやGlycoNAVIで利用

  • wurcs2pic

    • wurcs2pic is a tool for generating image data from WURCS strings and uses the features of GlycanBuilder.

    • GlycoNAVIやwwPDB OneDep systemで利用

ポータルサイト&データベース

組織?