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Journal Article
MASH-GA: a manually curated cross-species transcriptomic database for metabolic-associated steatohepatitis Open Access
Database, Volume 2026, 2026, baag013, https://doi.org/10.1093/database/baag013
Published: 02 April 2026
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Differential expression and functional enrichment analyses across disease s... Open Access
Published: 02 April 2026
Figure 4
Differential expression and functional enrichment analyses across disease stages. (a, b) Differential expression volcano plot (a) and GO Biological Process enrichment bubble plot (b) for obese vs. normal. (c, d) Differential expression volcano plot (c) and GO Biological Process enrichment bubble plo
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Analysis of cell-type composition and rewired cell–cell communication (CCC)... Open Access
Published: 02 April 2026
Figure 3
Analysis of cell-type composition and rewired cell–cell communication (CCC) ligand–receptor interaction (LRI) pairs between eight major brain cell types in comparative analysis from BDCD. (a) Cell type proportions of sc/snRNA-seq datasets across eight disease conditions, including four subtypes of A
Journal Article
BDCD: a comprehensive Brain Disease Cell-cell communication Database Open Access
Database, Volume 2026, 2026, baag017, https://doi.org/10.1093/database/baag017
Published: 02 April 2026
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Multilevel assessment of COL1A1 expression and coexpression in MASH-GA. (a)... Open Access
Published: 02 April 2026
Figure 3
Multilevel assessment of COL1A1 expression and coexpression in MASH-GA. (a) COL1A1 increases stepwise from normal controls (NC) to obese and NAFLD and peaks in NASH (human cohort, P < .001). (b) Across 10 independent datasets, COL1A1 rises with fibrosis stage, F0 → F4. (c) Cross-cohort comparis
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Functional characterization and validation of dysregulated LRIs. (a) Distri... Open Access
Published: 02 April 2026
Figure 4
Functional characterization and validation of dysregulated LRIs. (a) Distribution of protein class of ligand/receptor genes in sc/snRNA-seq datasets. (b) Distribution of protein class of ligand/receptor genes in spatial transcriptomics datasets. (c) KEGG pathway enrichment of rewired ligand/receptor
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Overview of the MASH-GA dataset composition. (a) Countries contributing hum... Open Access
Published: 02 April 2026
Figure 1
Overview of the MASH-GA dataset composition. (a) Countries contributing human datasets (n = 17). (b) Dataset counts per country. (c) Year-by-year accrual of studies (2010–2025 H1). (d) Proportion of NGS (n = 138) versus microarray (n = 28) datasets. (e) Distribution of sequencing platforms among
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Overview of the MASH-GA pipeline and analysis modules. GEO datasets are cur... Open Access
Published: 02 April 2026
Figure 2
Overview of the MASH-GA pipeline and analysis modules. GEO datasets are curated into the MASH-GA database, which is served through an R Shiny web interface. The Human module offers six analytical views, whereas the Mouse module visualizes gene expression across eight NASH models. Two functionally
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Overview of data collection, computational analysis, and downstream annotat... Open Access
Published: 02 April 2026
Figure 1
Overview of data collection, computational analysis, and downstream annotation of BDCD. AD: Alzheimer’s disease. ST: spatial transcriptomics. CCC: cell–cell communication. LRI: ligand–receptor interaction. GWAS: genome-wide association studies. LR: ligand receptor. SNP: single nucleotide polymorphis
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Overview of BDCD web interface. BDCD portal offers an intuitive interface t... Open Access
Published: 02 April 2026
Figure 2
Overview of BDCD web interface. BDCD portal offers an intuitive interface to explore brain disease-related cell–cell communication (CCC) data. Users can browse CCC data by brain region (a), dataset (b), or cell type (c). The platform offers interactive views of ligand–receptor interactions (LRI) (d)
Journal Article
IsoProDB: an integrated map of human protein isoforms for accelerated research Open Access
Database, Volume 2026, 2026, baag015, https://doi.org/10.1093/database/baag015
Published: 26 March 2026
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The schematic illustrates the methods and resources used for the developmen... Open Access
Published: 26 March 2026
Figure 1
The schematic illustrates the methods and resources used for the development of IsoProDB. Schematic representation of the workflow, methods, and data sources involved in the development of IsoProDB.
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The figure illustrates the isoform-specific exploration of ABCC4. The searc... Open Access
Published: 26 March 2026
Figure 2
The figure illustrates the isoform-specific exploration of ABCC4. The search bar navigates to the summary page, where (A) the transcript table lists all the transcripts and isoforms of ABCC4 along with the protein information. (B) Topology section shows the number of TMRs in all protein isoforms alo
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The figure illustrates the conservation analysis of PTM sites in ABCC4. (A)... Open Access
Published: 26 March 2026
Figure 3
The figure illustrates the conservation analysis of PTM sites in ABCC4. (A) The ABCC4 is reported with a total of five PTMs, and the user can select any of them for conservation analysis. The selection of ubiquitination lists the number of reported ubiquitinated sites across the protein isoforms of
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Overview of the variant analysis and database implementation workflow for P... Open Access
Published: 24 March 2026
Figure 1
Overview of the variant analysis and database implementation workflow for P. aeruginosa . For image description, please refer to the figure legend and surrounding text.
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Year-wise counts of P. aeruginosa genomes retrieved from BV-BRC (Bacterial ... Open Access
Published: 24 March 2026
Figure 2
Year-wise counts of P. aeruginosa genomes retrieved from BV-BRC (Bacterial and Viral Bioinformatics Resource Center). For image description, please refer to the figure legend and surrounding text.
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The proportion of genomes resistant to the different antibiotics in the 234... Open Access
Published: 24 March 2026
Figure 4
The proportion of genomes resistant to the different antibiotics in the 2342 genomes of P. aeruginosa shows that meropenem constitutes the highest percentage of resistance cases (16.4%), followed by ceftazidime (12.5%), amikacin (10.0%), and levofloxacin, which represents 9.9%. For image descri
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PaVarDB is organized using a relational database schema, implemented in SQL... Open Access
Published: 24 March 2026
Figure 5
Pa VarDB is organized using a relational database schema, implemented in SQLite. For image description, please refer to the figure legend and surrounding text.
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The search schema for the web-based interface of PaVarDB (P. aeruginosa var... Open Access
Published: 24 March 2026
Figure 6
The search schema for the web-based interface of Pa VarDB (P. aeruginosa variant database) is organized into two primary categories: Region-based search and phenotype-based search. For image description, please refer to the figure legend and surrounding text.
Journal Article
PaVarDB: a database and web platform for missense variant analysis in Pseudomonas aeruginosa using an end-to-end BVbase pipeline Open Access
Database, Volume 2026, 2026, baag014, https://doi.org/10.1093/database/baag014
Published: 24 March 2026
