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Achieving accurate, comprehensive, and fast offline similar sequence search optimal for safety assessment of nucleic acid drugs.

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Providing related services aimed at shortening drug development time for nucleic acid drugs.

Rational design of CRISPR/Cas target

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comprehensive support for nucleic acid drugs, from design to safety evaluation.

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小見出し

ここをクリックして表示したいテキストを入力してください。テキストは「右寄せ」「中央寄せ」「左寄せ」といった整列方向、「太字」「斜体」「下線」「取り消し線」、「文字サイズ」「文字色」「文字の背景色」など細かく編集することができます。
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Overview

High-speed search for short base sequences

Nucleic acid drugs often have short sequences of around 20 bases, allowing for efficient safety evaluation.

Accurate mismatch, indel and fuzzy search

This enables accurate and easy searches that are essential for safety evaluation of nucleic acid drugs.

Trusted and proven in the safety evaluation of nucleic acid drugs

This can be used as reliable search results for approval applications for nucleic acid drugs.

小見出し

ここをクリックして表示したいテキストを入力してください。テキストは「右寄せ」「中央寄せ」「左寄せ」といった整列方向、「太字」「斜体」「下線」「取り消し線」、「文字サイズ」「文字色」「文字の背景色」など細かく編集することができます。
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Searchable offline

​Because it runs on USB (SSD), confidential information will not be leaked to the outside.

Relaxing search restrictions

Search restrictions have been relaxed to reduce the burden on the server, allowing for efficient searches.

Highlighting of interesting genes

You can easily extract only the important information from a huge number of search results.

​Search support scripts for easy bulk searches

Operations such as performing multiple searches at once can be performed from the UI screen, allowing anyone to search efficiently.

小見出し

ここをクリックして表示したいテキストを入力してください。テキストは「右寄せ」「中央寄せ」「左寄せ」といった整列方向、「太字」「斜体」「下線」「取り消し線」、「文字サイズ」「文字色」「文字の背景色」など細かく編集することができます。
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Update in 2026 edition

The ability to set an upper limit on the number of search results has been added, enabling shorter search times during batch searches and better load control during search processing.
When the target database for searching is fixed, a feature has been added to keep the database resident in memory, further reducing search time.



Database

GGGenome Drug Discovery Basic Pack 2026 Edition
Search Data (9 species, 42 databases)
D3G / RefSeq are all the latest versions

D3G was established by the Kawai Group of the AMED Genomic Drug Discovery Foundation Promotion Research Project (FY2017-FY2022) and is currently maintained by the Kawaji Group's "Research on establishing a foundation for the exploration of new drug discovery targets using genomic information" (FY2023-). It is widely used in nucleic acid drug discovery and pharmaceutical affairs, and can also be searched on the GGGenome web version.

Database Options

  • Optional databases: You can add databases that are searchable on the web version of GGGenome published by DBCLS.
  • Custom database: You can also add your own sequence database.
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Operating environment

  • This product is compatible with 64-bit versions of Windows.
  • Windows 11 Pro version 21H2 or later, or Enterprise/Education version 21H2 or later
  • Windows 10 Pro 21H1 or later, or Enterprise/Education 20H2 or later
  • Enable Hyper-V (may be exclusive with virtualization software such as VMWare)
  • Memory: 16GB or more (Docker for Windows must allocate at least 8GB)
  • ここをクリックして表示したいテキストを入力してください。



Interviews / Case studies

We interviewed DBCLS Project Assistant Professor Yuki Naito, the developer of GGGenome, about the background and thoughts behind the development, and what he thinks GGGenome will mean for the future of life science research.
We have introduced the "GGGenome Package Edition" provided by Retrieva for in silico analysis, which is one of the evaluation menus for the contracted test "Evaluation of off-target effects of nucleic acid drugs."
Retrieva's "GGGenome package version" is being introduced for the safety evaluation function of the open genome editing support platform that is being developed for official launch in 2023.
The GGGenome package version has been introduced to evaluate the off-target risk of antisense nucleic acids in an artificial nucleic acid screening project.
小見出し
ここをクリックして表示したいテキストを入力してください。テキストは「右寄せ」「中央寄せ」「左寄せ」といった整列方向、「太字」「斜体」「下線」「取り消し線」、「文字サイズ」「文字色」「文字の背景色」など細かく編集することができます。
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実際の公開ページでは回答部分が閉じた状態で表示されます。


FAQ

  • What updates will be included in the 2026 edition ?

    The following features have been updated in GGGenome 2026:

    1. Setting a limit on the number of search results Setting a limit on the number of search results shortens the search time during batch searches and controls the load during search processing. As a result, faster candidate sequence screening, faster iterative design, and pipeline stabilization can be expected.

    2. Always-on search DB selection function (memory-resident) When the target database for searching is fixed, a specification has been added that allows it to reside in memory, shortening the search time. As a result, faster candidate sequence screening, faster iterative design, and pipeline stabilization can be expected.

    3. Exon/Intron specification in Biorettool The Exon/Intron specification search function, which was implemented in the previous GGGenomeUI (beta version), can now be used in batch searches. As a result, improved accuracy in evaluating the functional effects of off-target genes, rapid determination of whether or not there is an effect on the protein translation region, and early screening of safety risks can be expected.

  • What is the difference between the web version and the packaged version ?

    The differences between the web version and the package version of GGGenome are as follows:

    ・Confidentiality of query base sequence
    ・Relaxed search tolerance
    ・Relaxed search restrictions from API
    ・Relaxed search timeout time
    ・Use of convenient tools
       Bulk genome sequence search function, continuous genome sequence search function, unspliced/spliced merge function, spliced DB search, single DB search

    ・Featured gene highlighting function
    ・Display and output of gene meta method

  • What is the scope of use?

    The product itself (USB) can be connected to any device and used. There is no limit to the number of users. The product itself (USB) can also be plugged into a different device or used by a different person.

  • How should I handle the output results?

    We do not claim any intellectual property rights regarding the product's search results output. The results obtained with this product can be used in pharmaceutical application documents, etc. However, we do not guarantee the search results.

  • Will the search sequences I enter be stored in a log?

    The search sequence is temporarily stored on the system but is not saved in the USB memory. The stored information is deleted when the system is shut down.

  • Is it possible to add a database other than that included in the Drug Discovery Basic Pack?

    As an option for GGGenome, you can add databases that are searchable on the web version of GGGenome published by DBCLS (https://gggenome.dbcls.jp/ja/help.html#db_list) as optional databases.
    Additional fees apply. Please specify at the time of quotation. If you add a database after placing an order, we will send it back to you.

  • Can I add my own sequence database?

    You can add your own base sequence database as a custom index for the GGGenome option. Additional fees apply. Please specify at the time of quotation. If you would like to add it after delivery, we will provide a new product that includes the added database in exchange for the old product.

  • Is it possible to update?

    The search program and search database are consistent and packaged so that the search results are the same as the web version. For the one-time purchase plan, updates are not made, and the offer is based on the premise that you will purchase additional versions. For the subscription plan, updates within the contract period will be made free of charge, and a new device (USB) containing the updated packaged version will be sent to you. If you would like to update the database, etc., please purchase additional versions of the one-time purchase plan or sign up for a subscription plan.

  • ここをクリックして表示したいテキストを入力してください。

    ここをクリックして表示したいテキストを入力してください。テキストは「右寄せ」「中央寄せ」「左寄せ」といった整列方向、「太字」「斜体」「下線」「取り消し線」、「文字サイズ」「文字色」「文字の背景色」など細かく編集することができます。



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