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Journal Article
Goals and strategies for the indexing of publication types and study designs
Database, Volume 2026, 2026, baag039, https://doi.org/10.1093/database/baag039
Published: 14 July 2026
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Screenshot of NORG: When adding a sample to the database, the cursor is di...
Published: 11 July 2026
Figure 4
Screenshot of NORG: When adding a sample to the database, the cursor is directly in the ID field, enabling the user to scan a barcode with the ID. The other information must be selected manually. A checkbox at the end needs to be confirmed to ensure all information are correct. For image descrip
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Remove samples: It lists all samples that have been removed from the syste...
Published: 11 July 2026
Figure 7
Remove samples: It lists all samples that have been removed from the system with detailed information of the responsible person, when the sample was stored and when it was removed. For image description, please refer to the figure legend and surrounding text.
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Screenshot of NORG: Selecting a free position in the storage system is ver...
Published: 11 July 2026
Figure 3
Screenshot of NORG: Selecting a free position in the storage system is very convenient in NORG. Red locations are fully occupied. A progress bar at the top of the container shows the overall filling. For image description, please refer to the figure legend and surrounding text.
Journal Article
NORG - Nitrogen ORGanizer: a novel web-based system for cryopreservation and freezer management
Database, Volume 2026, 2026, baag037, https://doi.org/10.1093/database/baag037
Published: 11 July 2026
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Database architecture of NORG: The sample Table contains the essential info...
Published: 11 July 2026
Figure 1
Database architecture of NORG: The sample Table contains the essential information of the stored sample. The ‘storage tank’ Table and its adjacent Table ‘tank model’ describe the storage that can be a nitrogen tank or anything similar. Users may have roles and can store, send and remove samples, but
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Screenshot of NORG: Viewing the samples in the database as a list. From he...
Published: 11 July 2026
Figure 2
Screenshot of NORG: Viewing the samples in the database as a list. From here it is possible to ship samples or remove them permanently from the database. One may also see the exact location of the sample, as well as the person who was responsible for the sample and when the sample was stored. Fo
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Screenshot of NORG: This menu lists all samples that have been send away a...
Published: 11 July 2026
Figure 5
Screenshot of NORG: This menu lists all samples that have been send away and are currently not available in the local storage. One can conveniently remove them if they will not be sent back. For image description, please refer to the figure legend and surrounding text.
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Screenshot of NORG: Selecting a free position in the storage system and re...
Published: 11 July 2026
Figure 6
Screenshot of NORG: Selecting a free position in the storage system and restore samples back on place. For image description, please refer to the figure legend and surrounding text.
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Manage storages: This page is designed to manage storages that are in use....
Published: 11 July 2026
Figure 8
Manage storages: This page is designed to manage storages that are in use. One can create a pattern for a certain storage model that can be used later for easily setting up new storages that are used in the laboratory. The storages can be deleted, in case they are empty. For image description, p
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Manage users: The user management is a key feature of the administrator. H...
Published: 11 July 2026
Figure 9
Manage users: The user management is a key feature of the administrator. Here, newly registered users are shown and can be accepted. Passwords can be changed by the administrator and users can be removed from the system. For image description, please refer to the figure legend and surrounding te
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Manage material: The users may add new material types to the database, sim...
Published: 11 July 2026
Figure 10
Manage material: The users may add new material types to the database, simply by typing their names. A material can only be removed, if necessary, when no sample of that type is stored anymore. For image description, please refer to the figure legend and surrounding text.
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FHIR mapping: This diagram illustrates the integration of FHIR resources w...
Published: 11 July 2026
Figure 11
FHIR mapping: This diagram illustrates the integration of FHIR resources within the NORG System. The location resource is used to represent physical storage locations and their attributes, such as operational status, managing organization, and virtual service endpoints. Users can manage samples, in
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The framework and available function modules of IBDkb. (a) Schematic workfl...
Published: 10 July 2026
Figure 1
The framework and available function modules of IBDkb. (a) Schematic workflow illustrating the construction of the IBDkb knowledge base. (b) System architecture and core functionalities of the IBDkb platform. For image description, please refer to the figure legend and surrounding text.
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Overview of curated data in IBDkb. (a) Core information displayed in each m...
Published: 10 July 2026
Figure 2
Overview of curated data in IBDkb. (a) Core information displayed in each module of IBDkb. (b) Distribution of therapeutic strategies among investigational IBD drugs. (c) Top 12 drug targets identified in approved and unapproved IBD drugs, respectively. For each group, target frequencies were calcul
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Structure-aware drug comparison and repositioning. (a) The workflow of stru...
Published: 10 July 2026
Figure 5
Structure-aware drug comparison and repositioning. (a) The workflow of structure-aware comparative analysis of investigational drugs for IBD and NAFLD based on molecular embeddings. (b) UMAP visualization of MolFormer-derived molecular embeddings for IBD- and NAFLD-associated drugs, with a UMAP-base
Journal Article
IBDkb: an AI-enhanced integrative knowledge base for inflammatory bowel disease research and drug discovery
Database, Volume 2026, 2026, baag038, https://doi.org/10.1093/database/baag038
Published: 10 July 2026
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Utility of the IBDkb platform. (a) Categorized display of global search res...
Published: 10 July 2026
Figure 3
Utility of the IBDkb platform. (a) Categorized display of global search results. (b) Interactive visualization of data distribution within a selected module, exemplified by the Investigational Drugs module. (c) Advanced search functionality within the Research Articles module. (d) 2D and 3D molecula
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AI-assisted knowledge acquisition in IBDkb. (a) Line chart showing the annu...
Published: 10 July 2026
Figure 4
AI-assisted knowledge acquisition in IBDkb. (a) Line chart showing the annual publication trend (2022–2025) for the search term ‘5-Hydroxytryptophan’. (b) Pie chart illustrating the journal distribution of literature in the same search results (2022–2025, ‘5-Hydroxytryptophan’). (c) AI-based intelli
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The overview of GIDISdb. GIDISdb workflow: (a) Retrieve raw RNA-seq data fr...
Published: 09 July 2026
Figure 1
The overview of GIDISdb. GIDISdb workflow: (a) Retrieve raw RNA-seq data from whole blood of infectious disease patients using open-access repositories (search query: ‘Infection disease’ AND whole blood AND RNA-seq). (b) Generate standardized expression matrices through uniform processing pipelines.
