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Journal Article
CancerMHL: the database of integrating key DNA methylation, histone modifications and lncRNAs in cancer
Database, Volume 2024, 2024, baae029, https://doi.org/10.1093/database/baae029
Published: 12 April 2024
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The interface of the browse module for CancerMHL. (A) The interface of the ...
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CancerMHL: the database of integrating key DNA methylation, histone modifications and lncRNAs in cancer
Published: 12 April 2024
Figure 1.
The interface of the browse module for CancerMHL. (A) The interface of the search modules; (B) search result page for MYD88 with detailed information; (C) module interface for analyzing results based on DNA methylation and histone modification data; (D) the interface of the tool modules. Alt text
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A systematic methodology of the data collection and data processing of STRI...
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STRIDE-DB: a comprehensive database for exploration of instability and phenotypic relevance of short tandem repeats in the human genome
Published: 11 April 2024
Figure 1.
A systematic methodology of the data collection and data processing of STRIDE-DB.
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A systematic outline of the front-end and back-end architecture of STRIDE-D...
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STRIDE-DB: a comprehensive database for exploration of instability and phenotypic relevance of short tandem repeats in the human genome
Published: 11 April 2024
Figure 2.
A systematic outline of the front-end and back-end architecture of STRIDE-DB.
Journal Article
STRIDE-DB: a comprehensive database for exploration of instability and phenotypic relevance of short tandem repeats in the human genome
Database, Volume 2024, 2024, baae020, https://doi.org/10.1093/database/baae020
Published: 11 April 2024
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An example view of a query gene and an STR search in STRIDE-DB. ( A ) The r...
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STRIDE-DB: a comprehensive database for exploration of instability and phenotypic relevance of short tandem repeats in the human genome
Published: 11 April 2024
Figure 3.
An example view of a query gene and an STR search in STRIDE-DB. ( A ) The resultant page of gene-wise search in STRIDE-DB for PPP2R2B gene. ( B ) Describing the selected STR from the PPP2R2B gene with genome browser visualization, population-wise repeat distribution, GWAS, ClinVar, Alu elements
Journal Article
Towards building a trustworthy pipeline integrating Neuroscience Gateway and Open Science Chain
Database, Volume 2024, 2024, baae023, https://doi.org/10.1093/database/baae023
Published: 03 April 2024
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Each NIC module (green) has its own distinct set of metadata requirements t...
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Towards building a trustworthy pipeline integrating Neuroscience Gateway and Open Science Chain
Published: 03 April 2024
Figure 1.
Each NIC module (green) has its own distinct set of metadata requirements to generate output.
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Scatter plots of homology classes for a patient (persistence diagrams) corr...
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Towards building a trustworthy pipeline integrating Neuroscience Gateway and Open Science Chain
Published: 03 April 2024
Figure 3.
Scatter plots of homology classes for a patient (persistence diagrams) corresponding to asleep, awake, seizure one onset and seizure two onset states.
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Data and metadata stored in the blockchain.
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Towards building a trustworthy pipeline integrating Neuroscience Gateway and Open Science Chain
Published: 03 April 2024
Figure 4.
Data and metadata stored in the blockchain.
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NIC module execution on NSG and passing on the metadata to OSC.
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Towards building a trustworthy pipeline integrating Neuroscience Gateway and Open Science Chain
Published: 03 April 2024
Figure 2.
NIC module execution on NSG and passing on the metadata to OSC.
Journal Article
A data browsing application for accessing gene and module-level blood transcriptome profiles of healthy pregnant women from high- and low-resource settings
Database, Volume 2024, 2024, baae021, https://doi.org/10.1093/database/baae021
Published: 02 April 2024
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Fingerprint grid plot representation. This fingerprint grid plot represents...
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A data browsing application for accessing gene and module-level blood transcriptome profiles of healthy pregnant women from high- and low-resource settings
Published: 02 April 2024
Figure 2.
Fingerprint grid plot representation. This fingerprint grid plot represents changes in blood transcript abundance in samples collected during the third trimester of pregnancy (‘Third’) from women recruited in the MSP study, relative to transcript abundance in samples collected from the same donors 3
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Group-level fingerprint heatmap representation. This heatmap represents cha...
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A data browsing application for accessing gene and module-level blood transcriptome profiles of healthy pregnant women from high- and low-resource settings
Published: 02 April 2024
Figure 3.
Group-level fingerprint heatmap representation. This heatmap represents changes in transcript abundance for individual modules (rows) belonging to a given aggregate (A33 in this example), across MSP and PROMISSE study groups (columns). Groups here are formed according to the sampling time point (fir
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CoMentG main interface with the input form. In this example, the user is lo...
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CoMentG: comprehensive retrieval of generic relationships between biomedical concepts from the scientific literature
Published: 02 April 2024
Figure 1.
CoMentG main interface with the input form. In this example, the user is looking for relationships between ‘Alzheimer’s disease’ (DOID: 10652) and clinical signs (HPO), gene/protein functions (GO), cell types (CL) and chemical compounds (HMDB). Alt text: CoMentG main interface with the input form
Journal Article
CoMentG: comprehensive retrieval of generic relationships between biomedical concepts from the scientific literature
Database, Volume 2024, 2024, baae025, https://doi.org/10.1093/database/baae025
Published: 02 April 2024
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Individual-level fingerprint heatmap representation. This heatmap represent...
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A data browsing application for accessing gene and module-level blood transcriptome profiles of healthy pregnant women from high- and low-resource settings
Published: 02 April 2024
Figure 4.
Individual-level fingerprint heatmap representation. This heatmap represents changes in transcript abundance for individual modules (rows) belonging to multiple aggregates (A27, A1, A35, A36 and A38 in this example), across individual MSP samples (columns). Columns are arranged according to the stud
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BloodGen3 application user interface. Users navigate the user interface pri...
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A data browsing application for accessing gene and module-level blood transcriptome profiles of healthy pregnant women from high- and low-resource settings
Published: 02 April 2024
Figure 1.
BloodGen3 application user interface. Users navigate the user interface primarily through the tabs on the left that provide access to different information and visual representations of the results. Parameters can be adjusted via drop-down menus and sliders to customize the plots. The latter can the
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Module activity profiles. The boxplots represent activity profiles measured...
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A data browsing application for accessing gene and module-level blood transcriptome profiles of healthy pregnant women from high- and low-resource settings
Published: 02 April 2024
Figure 5.
Module activity profiles. The boxplots represent activity profiles measured as ‘percentage of response’ (proportion of constitutive transcripts for which abundance levels are significantly different compared to post-partum baseline). T1, T2 and T3 = first, second and third trimesters of pregnancy, r
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Table with the relationships found for ‘Alzheimer’s disease’. (A) Top of th...
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CoMentG: comprehensive retrieval of generic relationships between biomedical concepts from the scientific literature
Published: 02 April 2024
Figure 2.
Table with the relationships found for ‘Alzheimer’s disease’. (A) Top of the table. The list of 11 PubMed entries co-mentioning Alzheimer’s disease and the biological process ‘amyloid precursor protein biosynthesis’ (GO: 0042983) is shown. (B) Table with the relationships with cell types (CL) only.
