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Overview and workflow of the Cyprinidae Expression Database (CyExpDB). (A) ... Open Access
Published: 31 December 2025
Figure 5.
Overview and workflow of the Cyprinidae Expression Database (CyExpDB). (A) Home page providing access to database sections and species selection. (B) Genome overview page displaying species-specific genomic information and data download options, with a selection panel for tissue type and gene class.
Journal Article
CyExpDB: a web-based multi-species tissue-specific gene expression platform for functional genomics in Cyprinidae fish Open Access
Database, Volume 2025, 2025, baaf087, https://doi.org/10.1093/database/baaf087
Published: 31 December 2025
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Three-tier architecture and data structure of CyExpDB. A schematic represen... Open Access
Published: 31 December 2025
Figure 3.
Three-tier architecture and data structure of CyExpDB. A schematic representation of the CyExpDB relational database, showing its three-tier architecture (presentation, application, and data layers) and the integration of tissue-specific gene expression data across Cyprinidae species.
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Histogram showing the distribution of highly specific, intermediate, and ho... Open Access
Published: 31 December 2025
Figure 4.
Histogram showing the distribution of highly specific, intermediate, and housekeeping genes across the five major Cyprinidae species, based on tau (τ) score classification.
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Tissue diversity and sample counts in cyprinid species. Donut charts illust... Open Access
Published: 31 December 2025
Figure 1.
Tissue diversity and sample counts in cyprinid species. Donut charts illustrate the number of BioProjects and the distribution of RNA-seq samples across different tissues for each of the five major Cyprinidae species included in this study. The charts highlight the extensive tissue diversity and sam
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Workflow for the construction of the Cyprinidae Expression Atlas. A schemat... Open Access
Published: 31 December 2025
Figure 2.
Workflow for the construction of the Cyprinidae Expression Atlas. A schematic overview of the analytical pipeline, detailing the key steps from raw RNA-seq data preprocessing, alignment to reference genomes, expression quantification (FPKM/TPM), coding potential estimation, functional annotation, an
Journal Article
The Odonata of China: a data-driven, open-access resource for biodiversity research and conservation Open Access
Database, Volume 2025, 2025, baaf077, https://doi.org/10.1093/database/baaf077
Published: 23 December 2025
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An overview of Odonata of China database. The main data contents and statis... Open Access
in
The Odonata of China: a data-driven, open-access resource for biodiversity research and conservation
Published: 23 December 2025
Figure 2.
An overview of Odonata of China database. The main data contents and statistics including search, identification, photos, and phylogeny.
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Illustration of browse and search interfaces in Odonata of China database. ... Open Access
in
The Odonata of China: a data-driven, open-access resource for biodiversity research and conservation
Published: 23 December 2025
Figure 3.
Illustration of browse and search interfaces in Odonata of China database. (A) The search web interface of Odonata of China database. (B) The introduction web interface. (C) The phylogeny web interface. (D) The identification web interface. (E) The photo display page. (F) Display the page of the pub
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The overall functionality of the database is mainly focused on search, brow... Open Access
in
The Odonata of China: a data-driven, open-access resource for biodiversity research and conservation
Published: 23 December 2025
Figure 1.
The overall functionality of the database is mainly focused on search, browsing, sequence alignment, image display, and contact information. It adopts a front-end and back-end separation technology, with the front-end and back-end respectively paired with the mainstream development frameworks React
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Overview of the KNIME and Python annotation workflows. (a) KNIME pipeline: ... Open Access
Published: 09 December 2025
Figure 4.
Overview of the KNIME and Python annotation workflows. (a) KNIME pipeline: In the workflow, we make use of both PubChem and ChEMBL databases to aggregate all relevant biological and chemical information, (b) Python pipeline: different molecular identifiers (SMILES, InChI, and InChIKey) can be used a
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Annotation-centric information retrieved by the KNIME and Python annotation... Open Access
Published: 09 December 2025
Figure 8.
Annotation-centric information retrieved by the KNIME and Python annotation pipelines (blue and red bars, respectively). The similarity between the two sets was measured using the Jaccard Index (black line). Data from binding and functional assays with a pChEMBL value ≥ 6 and a confidence score ≥ 8
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(a) Most frequently active reported targets in ChEMBL database for the R4A ... Open Access
Published: 09 December 2025
Figure 10.
(a) Most frequently active reported targets in ChEMBL database for the R4A set (i.e. number of pChEMBL values per target); (b) top-ranked targets based on the number of unique compounds. Data from binding and functional assays with a pChEMBL value ≥ 6 and a confidence score ≥ 8 were considered.
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Target space graph plot of domperidone and its analogues generated from the... Open Access
Published: 09 December 2025
Figure 14.
Target space graph plot of domperidone and its analogues generated from the ‘Compound’s analogue space search’ page of the Chemical Biology Atlas.
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Comparison between the R4A set (orange) and Drug Repurposing Hub (yellow). ... Open Access
Published: 09 December 2025
Figure 17.
Comparison between the R4A set (orange) and Drug Repurposing Hub (yellow). (a) Violin plots of Maximum Tanimoto similarity of Drug Repurposing Hub compounds with R4A set using MACCS (blue), Morgan radius 2 (green) and FeatMorgan radius 2 (orange) fingerprints, (b) PCA on physico-chemical properties
Journal Article
From library to landscape: integrative annotation workflows for compound libraries in drug repurposing Open Access
Database, Volume 2025, 2025, baaf081, https://doi.org/10.1093/database/baaf081
Published: 09 December 2025
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Neo4j dashboard. (a) compound search panel, (b) compound’s analogues space ... Open Access
Published: 09 December 2025
Figure 6.
Neo4j dashboard. (a) compound search panel, (b) compound’s analogues space search panel, (c) target search panel.
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Compound-centric information retrieved by the KNIME and Python annotation p... Open Access
Published: 09 December 2025
Figure 7.
Compound-centric information retrieved by the KNIME and Python annotation pipelines (blue and red bars, respectively). The similarity between the two sets was measured using the Jaccard Index (black line). Data from binding and functional assays with a pChEMBL value ≥ 6 and a confidence score ≥ 8 we
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(a) ChEMBL protein family classification from KNIME’s annotation; (b) ChEMB... Open Access
Published: 09 December 2025
Figure 9.
(a) ChEMBL protein family classification from KNIME’s annotation; (b) ChEMBL protein family classification from Python’s annotation. Data from binding and functional assays with a pChEMBL value ≥ 6 and a confidence score ≥ 8 were considered.
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Distribution of compounds from the R4A set indicating the number of targets... Open Access
Published: 09 December 2025
Figure 11.
Distribution of compounds from the R4A set indicating the number of targets in Homo sapiens they are reported to be active against. Data from binding and functional assays with a pChEMBL value ≥ 6 and a confidence score ≥ 8 were considered.
