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Dynamic, interactive tables displaying neomer profiles across genes and can... Open Access
Published: 12 February 2026
Figure 3
Dynamic, interactive tables displaying neomer profiles across genes and cancer types. (A) Conceptual overview of the neomerDB database interface. Coloured cursor symbols match the colour of their corresponding outlined view. (B–C) Interactive table and customizable query interfaces for (B) neomers a
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Interface of the visualizations offered by neomerDB. (A) Pie chart displayi... Open Access
Published: 12 February 2026
Figure 4
Interface of the visualizations offered by neomerDB. (A) Pie chart displaying the number of neomers identified per cancer type and (inset) across different k -mer lengths for a specific cancer type. (B) Heatmap displaying the Jaccard similarity index values representing the overlap between neomer s
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Performance of neomer biomarkers in cfDNA and cfRNA from liquid biopsies fo... Open Access
Published: 12 February 2026
Figure 5
Performance of neomer biomarkers in cfDNA and cfRNA from liquid biopsies for glioblastoma detection. (A–B) Unique neomer counts and total neomer counts found in (A) cfDNA (Mann–whitney U- test, P -value = .27, .002) and (B) cfRNA (Mann–Whitney U -test, P -value = .002, .007). (C) ROC-AUC curves
Journal Article
neomerDB: a comprehensive database of neomer biomarkers in cancer Open Access
Database, Volume 2026, 2026, baag006, https://doi.org/10.1093/database/baag006
Published: 12 February 2026
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Overview of neomerDB. The database integrates neomers derived from two diff... Open Access
Published: 12 February 2026
Figure 1
Overview of neomerDB. The database integrates neomers derived from two different approaches: (1) 2658 whole genome sequencing tumour-normal paired samples and (2) 10 000 whole exome sequencing tumour-normal paired samples. Neomers identified from germline variants, from 76 215 whole genomes and 730
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Statistics of neomerDB. (A) Sankey plot depicting the flow of exome neomers... Open Access
Published: 12 February 2026
Figure 2
Statistics of neomerDB. (A) Sankey plot depicting the flow of exome neomers across 26 organs, 26 cancer types, and 16 variant classifications. Results are shown for neomers of 16 bp. In parentheses next to the tissue type, cancer type, and mutation category, the total number of nullomers detected is
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Usage of ProteoformDB. (A) On the ‘Information Search’ page, users can perf... Open Access
Published: 09 February 2026
Figure 2
Usage of ProteoformDB. (A) On the ‘Information Search’ page, users can perform the search of proteoforms and genes through multiple keywords search or batch search. The search results provide access to gene and proteoform information pages, allowing users to explore detailed information. Additionall
Journal Article
ProteoformDB: an integrative database for functional roles of proteoforms Open Access
Database, Volume 2026, 2026, baag005, https://doi.org/10.1093/database/baag005
Published: 09 February 2026
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Framework overview of ProteoformDB. (A) Basic data of ProteoformDB include ... Open Access
Published: 09 February 2026
Figure 1
Framework overview of ProteoformDB. (A) Basic data of ProteoformDB include data from genes to proteoforms, Clusters of Orthologous Groups, domain–domain interactions, post-translational modifications, intrinsically disordered regions, and proteoform-disease associations. The data storage is powered
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Functional consistency and divergence profiles across species. The bar plot... Open Access
Published: 09 February 2026
Figure 3
Functional consistency and divergence profiles across species. The bar plot displays the proportion of proteoforms of genes exhibiting consistent versus divergent functions for 30 representative species selected from the extremities and mid-range of the functional divergence spectrum. Species are gr
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predicTox homepage. A screenshot of the homepage, which provides searchable... Open Access
Published: 02 February 2026
Figure 1.
predicTox homepage. A screenshot of the homepage, which provides searchable DrugTox summary cards and gene summary Cards. The homepage also provides clickable links to various pages that list data sets and other downloadable materials.
Journal Article
predicTox: an integrated database of clinical risk frequencies and human gene expression signatures for cardiotoxic drugs Open Access
Database, Volume 2026, 2026, baag003, https://doi.org/10.1093/database/baag003
Published: 02 February 2026
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DrugTox summary card for pazopanib. DrugTox summary cards provide a concise... Open Access
Published: 02 February 2026
Figure 2.
DrugTox summary card for pazopanib. DrugTox summary cards provide a concise summary of the drug class, its cardiotoxic potential from FAERS ranking and literature summary, ranked list of genes and pathways affected by the drug in the indicated human iPSC cardiomyocyte lines and potential genomic var
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Pathways predicted to be associated with TKI-induced cardiotoxicity. (A) Th... Open Access
Published: 02 February 2026
Figure 3.
Pathways predicted to be associated with TKI-induced cardiotoxicity. (A) The top 25 up- and downregulated pathways that were predicted to be associated with TKI-induced cardiotoxicity can be queried on the ‘Drug-induced pathways associated with cardiotoxicity’ page. This page can be opened by select
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Genomic variants that are potentially associated with a drug’s cardiotoxici... Open Access
Published: 02 February 2026
Figure 4.
Genomic variants that are potentially associated with a drug’s cardiotoxicity by interfering with the drug’s PD or PK. Note that some genomic variants can map to multiple genes. This page can be opened by selecting the ‘Bulk transcriptomic datasets—Metadata’ button on the main page, and then ‘Predic
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Schematic representation of four cysteine PTMs described in the CysDuF data... Open Access
Published: 23 January 2026
Figure 1
Schematic representation of four cysteine PTMs described in the CysDuF database.
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Schematic representations of Cys-PTMs in different pathways curated from li... Open Access
Published: 23 January 2026
Figure 6
Schematic representations of Cys-PTMs in different pathways curated from literature, (a) ETC, (b) Fe–S cluster biogenesis, (c) glutathione biosynthesis, (d) fatty acid biosynthesis, (e) Kreb’s cycle, (f) pentose phosphate pathways. The amino acids and protein structures were depicted using VMD softw
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Web application for (a) DeepCys—structure-based prediction tool and (b) Cys... Open Access
Published: 23 January 2026
Figure 11
Web application for (a) DeepCys—structure-based prediction tool and (b) CysDUF database.
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Steps of DUF data curation. (i) Extract and download a list of PFAM ID/DUF ... Open Access
Published: 23 January 2026
Figure 2
Steps of DUF data curation. (i) Extract and download a list of PFAM ID/DUF ID/SCOPe ID using search criteria, (a) pathway names and (b) catalytic cysteines [ 6, 7 ] (ii) filter the downloaded list using SCOPe superfamily resulting enzyme names from 7 biochemical pathways studied here; (iii) search S
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Depiction of cysteine (Cys22), part of a disulfide bridge (PDB ID:8PCH). Pr... Open Access
Published: 23 January 2026
Figure 3
Depiction of cysteine (Cys 22), part of a disulfide bridge (PDB ID:8PCH). Protein microenvironment (4.5 Å radius) around Cys22 is depicted, in stick representation. The protein background is shown as cartoon representation. The figure was generated using VMD software.
