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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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ClinWiki Resource Report Resource Website 1+ mentions |
ClinWiki (RRID:SCR_021297) | data or information resource, database | Clinical trials database. | Clinical trials, data, Wikidata | is related to: Wikidata | William Hoos | Free, Freely available | Wikidata_Q96777166 | https://www.wikidata.org/wiki/Q96777166 | SCR_021297 | 2026-08-15 11:29:34 | 1 | |||||||
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Seattle Alzheimer Disease Brain Cell Atlas Resource Report Resource Website 10+ mentions |
Seattle Alzheimer Disease Brain Cell Atlas (RRID:SCR_023110) | SEA-AD | data or information resource, atlas | Open atlas based on single cell profiling technologies with quantitative neuropathology and deep clinical phenotyping from middle temporal gyrus from neurotypical reference brains and brains from SEA-AD aged cohort that span spectrum of Alzheimer’s disease. Produced via collaboration between Allen Institute for Brain Science, University of Washington Alzheimer Disease Research Center and Kaiser Permanente Washington Health Research Institute. | Alzheimer’s disease, single cell profiling, quantitative neuropathology, deep clinical phenotyping, middle temporal gyrus, neurotypical reference brains, SEA-AD aged cohort brains, |
is related to: BRAIN Initiative is related to: Allen Institute for Brain Science is related to: University of Washington; Seattle; USA |
Alzheimer’s disease | NIA U19AG060909 | Free, Freely available | SCR_023110 | 2026-08-15 11:29:34 | 17 | |||||||
|
White Adipose Atlas Resource Report Resource Website 1+ mentions |
White Adipose Atlas (RRID:SCR_023625) | data or information resource, atlas | Single cell atlas of human and mouse white adipose tissue. | white adipose tissue, adipose tissue, human, mouse | NIDDK RC2 DK116691; NIDDK 5P30 DK057521; NIDDK F32 DK124914; Italian Ministry of University ; Novo Nordisk Foundation ; Lundbeck Foundation ; NIDDK UM1 DK126185; Sarnoff Cardiovascular Research Foundation Fellowship ; NHGRI 1K08 HG010155; NHGRI 1U01 HG011719; NIDDK P30 DK046200 |
PMID:35296864 | Free, Freely available | SCR_023625 | 2026-08-15 11:29:24 | 8 | |||||||||
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FASTGenomics Resource Report Resource Website 1+ mentions |
FASTGenomics (RRID:SCR_022898) | analysis service resource, service resource, data analysis service, production service resource | Open online platform for single cell RNA-seq. Provides data management and analytics. Used to analyze public and private datasets and you can choose between several best practices workflows and browse existing analyses. | single cell RNA-seq, data management, data analytics, analyze public and private datasets, best practices workflows | German Federal Ministry of Economic Affairs and Energy | Free, Freely available | https://github.com/FASTGenomics | SCR_022898 | 2026-08-15 11:29:37 | 9 | |||||||||
|
Repbase Resource Report Resource Website 500+ mentions |
Repbase (RRID:SCR_021169) | data or information resource, database | Database of repetitive DNA elements.Database of prototypic sequences representing repetitive DNA from different eukaryotic species. Used in genome sequencing projects worldwide as reference collection for masking and annotation of repetitive DNA. | repetitive DNA elements, prototypic sequences, eukaryotic species, repetitive DNA masking, repetitive DNA annotation, reference collection, FASEB list | is used by: RepeatMasker | SCR_021169 | 2026-08-15 11:29:34 | 942 | |||||||||||
|
BrainRegionMarkers Resource Report Resource Website |
BrainRegionMarkers (RRID:SCR_023836) | source code, software toolkit, software resource | Software R package provides matrix of predefined set of marker genes for many regions of the human brain, using data from the Allen Human Brain Atlas. | Allen Human Brain Atlas, predefined set of marker genes matrix, human brain regions, human brain, | is related to: Allen Institute for Brain Science | Free, Freely available | SCR_023836 | 2026-08-15 11:29:35 | 0 | ||||||||||
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GCEA_FalsePositives Resource Report Resource Website |
GCEA_FalsePositives (RRID:SCR_023835) | source code, software toolkit, software resource | Software toolbox for gene category enrichment analysis false positives available. Used for analysis of statistical biases in Gene Set Enrichment Analysis applied to transcriptomic atlas data. | Allen Mouse Brain Atlas, Allen Human Brain Atlas, Gene Set Enrichment Analysis, GSEA, gene category enrichment analysis, transcriptomic atlas data, analysis false positives, statistical biases, | is related to: Allen Institute for Brain Science | Free, Available for download, Freely available | SCR_023835 | 2026-08-15 11:29:24 | 0 | ||||||||||
|
Polygenic Score Catalog Resource Report Resource Website 100+ mentions |
Polygenic Score Catalog (RRID:SCR_023558) | data or information resource, database | Open database of polygenic scores and relevant metadata required for accurate application and evaluation. Used for reproducibility and systematic evaluation. | polygenic scores and relevant metadata, reproducibility and systematic evaluation, | UK Medical Research Council ; British Heart Foundation ; National Institute for Health Research ; Health Data Research UK ; Munz Chair of Cardiovascular Prediction and Prevention ; NHGRI U41HG007823; European Molecular Biology Laboratory ; Canadian Institutes of Health Research postdoctoral fellowship |
PMID:33692568 | Free, Freely available, | SCR_023558 | The Polygenic Score (PGS) Catalog | 2026-08-15 11:29:37 | 139 | ||||||||
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ABAnnotate Resource Report Resource Website |
ABAnnotate (RRID:SCR_023833) | source code, software toolkit, software resource | Software toolbox for ensemble-based multimodal gene-category enrichment analysis of human neuroimaging data.Performs ensemble-based gene-category enrichment analysis on volumetric human neuroimaging data via brain-wide gene expression patterns derived from Allen Human Brain Atlas. Utilizes nonparametric method using spatial autocorrelation-corrected phenotype null maps for estimation of gene-category null ensembles. | Allen Human Brain Atlas, human neuroimaging data analysis, gene expression patterns, volumetric human neuroimaging data, gene-category null ensembles estimation, | is related to: Allen Institute for Brain Science | Free, Available for download, Freely available | SCR_023833 | 2026-08-15 11:29:37 | 0 | ||||||||||
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Common Metabolic Disease Genome Atlas Resource Report Resource Website 1+ mentions |
Common Metabolic Disease Genome Atlas (RRID:SCR_022983) | CMDGA | data or information resource, atlas | Component of Accelerating Medicines Partnership Common Metabolic Diseases being developed at University of California San Diego as part of larger consortium of academic, industry and non-profit institutions worldwide. Resource is based on software developed by ENCODE DCC at Stanford University. Atlas provides epigenomics and other functional genomics data to promote understanding of genetic basis of common metabolic diseases. | AMP-CMD, Accelerating Medicines Partnership, Common Metabolic Diseases, epigenomics, functional genomics data, metabolic diseases |
is related to: Common Metabolic Diseases Knowledge Portal is related to: University of California at San Diego; California; USA |
metabolic diseases | Free, Freely available | SCR_022983 | 2026-08-15 11:29:34 | 9 | ||||||||
|
Atlas Densities Resource Report Resource Website |
Atlas Densities (RRID:SCR_023839) | source code, software toolkit, software resource | Software tools to compute densities in context of brain atlases. Used to create BBP Cell Atlas, using Allen Mouse Brain Atlas and collected literature density values.Provides list of volumetric files that provides cell type density estimates for each voxel of mouse brain volume. | Allen Mouse Brain Atlas, compute densities in context of brain atlases, create BBP Cell Atlas, collected literature density values, list of volumetric files, mouse brain volume, | is related to: Allen Institute for Brain Science | Free, Available for download, Freely available | SCR_023839 | 2026-08-15 11:29:37 | 0 | ||||||||||
|
AllFam Resource Report Resource Website 1+ mentions |
AllFam (RRID:SCR_021276) | data or information resource, database | Database for classifying allergenic proteins into protein families.You can browse lists of allergen families restricted by allergen source (plants, animals, fungi, bacteria) and route of exposure (inhalation, ingestion etc.) or search for specific allergens, sources or protein families. Every allergen family entry is linked to description of biochemical properties and allergological significance of family members as well as list of key references related to this family. | Allergen families, allergenic proteins, protein families, allergen source | Free, Freely available | SCR_021276 | AllFam database of allergen families | 2026-08-15 11:29:23 | 4 | ||||||||||
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trinetx Resource Report Resource Website 100+ mentions |
trinetx (RRID:SCR_022760) | data or information resource, database | Network of healthcare organizations, together with data partners in Brazil, South Korea, and Japan, to bring clinical facts on more than 250 million patients around the world. Federated model so users of this data are ensured new patients, observations, and results every day, all harmonized to standard terminology like ICD-10 and LOINC without any data wrangling required at the point of care. The raw data is not available to authors of papers and papers in medicine are being retracted. | Data, medical data, clinical facts, patients around the world, raw data is not available to authors, papers in medicine are being retracted | Restricted | SCR_022760 | 2026-08-15 11:29:34 | 295 | |||||||||||
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OncoboxPD Resource Report Resource Website 1+ mentions |
OncoboxPD (RRID:SCR_023723) | data or information resource, database | Structured curated collection of protein based and of metabolic human molecular pathways. Human molecular pathways database with tools for activity calculating and visualization.All pathways are functionally classified according to GO terms enrichment patterns. All pathway participants, their interactions and reactions are uniformly processed and annotated, and are ready for numeric analysis of experimental expression data.For every comparison graph is generated summarizing top up and down regulated pathways. | Gene Ontology terms enrichment patterns, human molecular pathways, curated collection, GO terms enrichment patterns, experimental expression data analysis, |
is related to: oncoboxlib is related to: Gene Ontology |
Russian Science Foundation ; National Natural Science Foundation of China ; Qingdao Key Research Project ; Qingdao Key Health Discipline Development Fund |
PMID:35615022 | Free, Freely available | SCR_023723 | Oncobox Pathway Databank | 2026-08-15 11:29:24 | 8 | |||||||
|
Atlas Alignment Meter Resource Report Resource Website |
Atlas Alignment Meter (RRID:SCR_023843) | source code, software toolkit, software resource | Software Python CLI and library to measure jaggyness of brain parcellation volume. Used to measure slice-to-slice jaggedness of volumetric dataset, only in form of NRRD file. | Allen Mouse Brain Atlas, measure jaggyness of brain parcellation volume, volumetric dataset, volumetric dataset jaggedness, | is related to: Allen Institute for Brain Science | Free, Available for download, Freely available | SCR_023843 | 2026-08-15 11:29:37 | 0 | ||||||||||
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VDJbase Resource Report Resource Website 10+ mentions |
VDJbase (RRID:SCR_022599) | data or information resource, database | Open source adaptive immune receptor genotype and haplotype database. Core collection is inferred from immune receptor repertoire sequences and genomically derived material. Provides customisable reports, which allow users to study gene and allele usage in various ways. | Adaptive immune receptor genes, genotypes and haplotypes, immune receptor repertoire sequences, customisable reports, gene and allele | European Union ; NIAID R01AI127877; NIAID R01AI125567; NIAID R01AI130398 |
DOI:10.1093/nar/gkz872 | Free, Freely available | SCR_022599 | 2026-08-15 11:29:37 | 11 | |||||||||
|
IQAS Resource Report Resource Website |
IQAS (RRID:SCR_023146) | iqas, IQAS | software application, text extraction software, software resource | Modeling document labels using Latent Dirichlet Allocation is component tool under Integrated Quality Assurance System of Camarines Sur Polytechnic Colleges which categorizes text of particular document and use it for auto-tagging. | Camarines Sur Polytechnic Colleges, Modeling document labels, Latent Dirichlet Allocation, document labelling; auto-tagging; latent dirichlet allocation; | Free, Available for download, Freely available | DOI:10.5281/zenodo.7507492 | SCR_023146 | Integrated Quality Assurance System Modeling document labels using Latent Dirichlet Allocation Component Resources, Integrated Quality Assurance System MDL-LDA Component Resources, IQAS:MDL-LDA Component Resources | 2026-08-15 11:29:23 | 0 | ||||||||
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BnTIR Resource Report Resource Website 10+ mentions |
BnTIR (RRID:SCR_023021) | data or information resource, database | Searchable database of Brassiceae genomic data hosted on the website. | Brassica napus, transcriptome information, Brassiceae genomic data | National Key Research and Development Plan of China | Free, Freely available | SCR_023021 | Brassica napus Transcriptome Information Resource | 2026-08-15 11:29:37 | 23 | |||||||||
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Kinase Associated Neural Phospho Signaling Resource Report Resource Website 1+ mentions |
Kinase Associated Neural Phospho Signaling (RRID:SCR_023659) | KANPHOS | data or information resource, database | Database system that provides phosphorylated sites and information about which substrates are phosphorylated by specific kinase and which extracellular stimuli activate or inhibit protein phosphorylation via intracellular signaling cascades. | Fujita Health University, Toyoake, Japan, phosphorylated sites, substrates, phosphorylation, kinase, protein phosphorylation, intracellular signaling cascades, |
works with: Allen Brain Atlas works with: HuGE Navigator - Human Genome Epidemiology Navigator works with: UniProtKB |
Free, Freely available | SCR_023659 | 2026-08-15 11:29:24 | 1 | |||||||||
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Brassicaceae Database Resource Report Resource Website 100+ mentions |
Brassicaceae Database (RRID:SCR_023019) | BRAD | data or information resource, database | Database includes newly released genome sequences of Brassiceae species and published genomic data of most other Brassicaceae species.Data can be browsed in JBrowse or searched in BLAST. Offers service of searching for syntenic genes, which are generated based on their syntenic relationships to genes in Arabidopsis thaliana. Regularly updated with newly released reference genomes. | genome sequences, Brassiceae species, published genomic data, syntenic genes, | National Programon Key Research Project ; National Natural Science Foundation of China |
DOI:10.1093/nar/gkab1057 | Free, Freely available | SCR_023019 | 2026-08-15 11:29:34 | 400 |
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