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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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CivicDb Resource Report Resource Website 1+ mentions |
CivicDb (RRID:SCR_028055) | data or information resource, database, knowledge base | Open-access, community-driven knowledgebase designed to crowdsource and curate evidence on the clinical significance of cancer-related genomic variants. It helps researchers and clinicians interpret tumor DNA mutations to guide precision medicine. | clinical significance of cancer-related genomic variants, cancer-related genomic variants, genomic variants, | is related to: ClinGen | NCATS UL1TR002345; NCI K22CA188163; NCI U01CA209936; NCI U24CA237719; NHGRI R00HG007940; NHGRI R00HG010157; NHGRI U41 HG008735 |
PMID:36373660 | Free, Freely available, | SCR_028055 | , Clinical Interpretation of Variants in Cancer, CIViCdb | 2026-09-19 01:01:23 | 5 | |||||||
|
starCAT Resource Report Resource Website 1+ mentions |
starCAT (RRID:SCR_028475) | software resource, software toolkit, source code | Software pipeline that improves T cell characterization by simultaneously quantifying predefined gene expression programs (scRNA-Seq) capturing activation states and cellular subsets. Used to score cells based on a fixed, multidataset catalog of Gene Expression Programs from any tissues or cell-type. | T cell characterization, simultaneously quantifying predefined gene expression programs, gene expression programs, | NHGRI R56HG013083; NHGRI T32HG002295; NHGRI U01HG012009; NIAID P01AI148102; NIAMS R01AR063759; NIAMS T32AR007530 |
PMID:38746317 | Free, Available for download, Freely available | SCR_028475 | starCellAnnoTator, starCellAnnoTator (starCAT) | 2026-09-19 01:01:32 | 1 | ||||||||
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Taiji Resource Report Resource Website 1+ mentions |
Taiji (RRID:SCR_028464) | software resource, software toolkit, source code | Software integrative analysis pipeline for analyzing bulk/single-cell ATAC-seq and RNA-seq data. Integrative multi-omics data analysis framework. It can be used as a standalone pipeline to analyze ATAC-seq, RNA-seq, single cell ATAC-seq or Drop-seq data. Used to integrate diverse datasets and use these information to construct regulatory network and identify candidate driver genes. | integrative analysis, single-cell ATAC-seq data, RNA-seq data, identify driver transcription factors, construct regulatory network, identify candidate driver genes, | is organization facet of: University of California at San Diego; California; USA | NHGRI R01HG009626; NHGRI U54HG006997 |
PMID:30944857 | Free, Available for download, Freely available | https://taiji-pipeline.github.io/ | SCR_028464 | 2026-09-19 01:01:32 | 4 | |||||||
|
presto Resource Report Resource Website |
presto (RRID:SCR_028647) | software resource, software toolkit, source code | Software R package for fast Wilcoxon rank sum test and auROC analysis. | Wilcoxon rank sum test, auROC analysis, | NHGRI U01HG009088; NHGRI U01HG009379; NIAMS R01AR063759; NIAMS T32AR007530; NIAMS UH2AR067677 |
DOI:10.1101/653253 | Free, Available for download, Freely available | SCR_028647 | Presto | 2026-09-19 01:01:36 | 0 | ||||||||
|
HLAthena Resource Report Resource Website |
HLAthena (RRID:SCR_028691) | software resource, web application | Web tool and predictive model used by researchers to identify which small protein fragments (peptides) will be presented by human leukocyte antigen (HLA) proteins on the surface of cells. It is heavily used in the development of cancer immunotherapies and personalized | HLA-I presentation prediction, identify small protein fragments, human leukocyte antigen (HLA) proteins, surface of cells, | NCI 5T32CA009172; NCI R21 CA216772; NCI RO1CA155010; NCI U01 CA214125; NCI U24 CA224331; NCI U24-CA210986; NHGRI T32HG002295; NHLBI R01HL103532 |
PMID:31844290 | Free, Freely available | SCR_028691 | 2026-09-19 01:01:37 | 0 | |||||||||
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CytoVerse Resource Report Resource Website |
CytoVerse (RRID:SCR_028854) | data access protocol, data analysis software, data processing software, data visualization software, software application, software resource, web service | Web application to map single-cell RNA data into AI foundation model spaces. Lets search millions of reference cells and view cell types locally without uploading private data or needing powerful cloud servers. Using ONNX model deployment and compressed IVFPQ indexing, it annotates local datasets against a 23-million-cell reference without server computation, installation, or data upload, and shares embeddings as lightweight files, enabling private, interactive, and collaborative single-cell analysis. | single-cell RNA-seq, foundation models, browser based analysis, WebAssembly, ONNX, scFM, approximate nearest neighbors, latent space collaboration, data privacy, | Brain and Behavior Research Foundation ; California Institute for Regenerative Medicine ; NHGRI RM1HG011543; NIMH U24MH132628; NINDS U24NS146314; NSF ; University of California Office of the President |
PMID:41659670 | Free, Available for download, Freely available | https://github.com/braingeneers/cytoverse | SCR_028854 | 2026-09-19 01:01:41 | 0 |
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