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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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University of Arkansas at Little Rock MidSouth Bioinformatics Center Core Facility Resource Report Resource Website |
University of Arkansas at Little Rock MidSouth Bioinformatics Center Core Facility (RRID:SCR_017168) | MidSouth Bioinformatics Center, MBC | access service resource, core facility, service resource, software resource | Core provides bioinformatics consulting, training, technical assistance, and access to computational infrastructure for faculty, students, and researchers in region with their bioscience computational needs. Offers private sessions, workshops and training on specialty topics. Computing resources including software, computing cluster, technical advice. | bioinformatics, assistance, consulting, training, analysis, omic, data | has parent organization: University of Arkansas; Arkansas; USA | Open | SCR_017168 | Bioinformatics Center, , University of Arkansas, UA, Core Facility, MBC, UALR, MidSouth, Little Rock | 2026-09-12 01:02:17 | 0 | ||||||||
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HmtVar Resource Report Resource Website 10+ mentions |
HmtVar (RRID:SCR_017288) | data or information resource, database, service resource | Manually curated database offering variability and pathogenicity information about mtDNA variants. Human mitochondrial variants data of healthy and diseased subjects.Data and text mining pipeline to annotate human mitochondrial variants with functional and clinical information. | manually, curated, data, variability, mitochondria, pathogenicity, mtDNA, variant, human, bio.tools |
uses: HmtDB - Human Mitochondrial DataBase uses: 1000 Genomes Project and AWS uses: MITOMAP - A human mitochondrial genome database uses: MutPred uses: SNPsandGO is listed by: Debian is listed by: bio.tools is affiliated with: University of Bologna; Bologna; Italy has parent organization: University of Bari; Bari; Italy |
DHOMOS Worldwide Cancer Research ; DISCO TRIP ; Italian Ministry of Health ; Rosa Maria Massari fellowship from the Italian Association for Cancer Research |
PMID:30371888 PMID:31821723 |
Free, Freely available | biotools:HmtVar | https://bio.tools/HmtVar | SCR_017288 | 2026-09-12 01:02:17 | 12 | ||||||
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EPSD Eukaryotic Phosphorylation Site Database Resource Report Resource Website 1+ mentions |
EPSD Eukaryotic Phosphorylation Site Database (RRID:SCR_016514) | EPSD | data or information resource, database | Software tool as an annotated database of protein phosphorylation sites in eukaryotes. Contains experimentally identified and conserved p-sites which were collected from phosphoproteomic studies. | protein, phosphorylation, site, eukaryotes, phosphoproteomic, data | has parent organization: Huazhong University of Science and Technology; Wuhan; China | Special Project on Precision Medicine under the National Key R&D Program 2017YFC0906600; the Fundamental Research Funds for the Central Universities 2017KFXKJC001; the Natural Science Foundation of China 31671360 |
Free, Freely available | SCR_016514 | Eukaryotic Phosphorylation Site Database, EPSD | 2026-09-12 01:02:17 | 1 | |||||||
|
fiddle Resource Report Resource Website 1+ mentions |
fiddle (RRID:SCR_017327) | FIDDLE | service resource, software application, software resource | Software interactive tool to help researchers to identify most appropriate publication format for their dataset that may be hard to publish in traditional journals. Formats include data repositories, micropublications, preprints, data journals, publishing platforms and journals that are open to null results. Users can search for publication format that meets their needs, compare and contrast formats, and find links to publishers. Open source tool to combat publication bias by getting research out of file drawer and into scientific community. | identify, publication, format, dataset, , result, file, drawer, data, liberation, effort | DOI:10.31219/osf.io/6mcu3 | Free, Freely available | https://github.com/quest-bih/FIDDLE | SCR_017327 | file drawer data liberation effort, fiddle | 2026-09-12 01:02:18 | 2 | |||||||
|
KEGG PATHWAY Database Resource Report Resource Website 1000+ mentions |
KEGG PATHWAY Database (RRID:SCR_018145) | data or information resource, database, service resource | Reference database for pathway mapping in KEGG Mapper. Collection of manually drawn pathway maps representing knowledge on molecular interaction, reaction and relation networks for metabolism, genetic information processing, environmental information processing, cellular processes, organisms systems, human diseases, drug development. | Pathway mapping, reference database, KEGG Mapper, molecular interaction, reaction and relation network, metabolism, genetic information processing, cellular process, organism system, human disease, drug development, data | is related to: KEGG | Free, Freely available | SCR_018145 | KEGG PATHWAY | 2026-09-12 01:02:18 | 1224 | |||||||||
|
CellPhoneDB Resource Report Resource Website 100+ mentions |
CellPhoneDB (RRID:SCR_017054) | data or information resource, database | Collection of publicly available data of curated receptors, ligands and their interactions. Integrates existing datasets that pertain to cellular communication and new manually reviewed information. Used to search for particular ligand or receptor or to interrogate single cell transcriptomics data. | collection, publicly, available, data, curated, receptor, ligand, interaction, heterometric, complex, dataset, cellular, transcriptomic, FASEB list |
has parent organization: Wellcome Trust Sanger Institute; Hinxton; United Kingdom works with: UniProt works with: Ensembl works with: Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) works with: IMEx - The International Molecular Exchange Consortium works with: International Union of Basic and Clinical Pharmacology |
PMID:30429548 | Free, Available for download, Freely available | https://github.com/Teichlab/cellphonedb | SCR_017054 | 2026-09-12 01:02:17 | 469 | ||||||||
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Database of Open Chromatin Regions Resource Report Resource Website 1+ mentions |
Database of Open Chromatin Regions (RRID:SCR_016614) | data or information resource, database | Collection of open chromatin regions from sequencing data. Metadata as entire curated DNase-I hypersensitive sites (DHS) on the whole genome datasets and data specific to each chromosome. | collection, open, chromatin, region, sequencing, data, metadata, dataset | Free, Available for download, Freely available | SCR_016614 | 2026-09-12 01:02:17 | 3 | |||||||||||
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Database of genes related to Repeat Expansion Diseases Resource Report Resource Website 1+ mentions |
Database of genes related to Repeat Expansion Diseases (RRID:SCR_018086) | DRED | data or information resource, database, service resource | Database of genes related to Repeat Expansion Diseases, as comprehensive manually curated database that covers all reported repeat expansion diseases included in PubMed and OMIM. Detailed information about each repeat and its related genes/diseases can be found in database, links to OMIM, NCBI and Ensembl are also provided. Provides list of predicted genes containing unstable tandem repeats that may cause diseases via abnormal repeat expansion by support vector machine and random forest. | Gene, repeat expansion disease, unstable tandem repeat, abnormal repeat expansion, data |
works with: OMIM works with: NCBI works with: Ensembl |
Repeat Expansion Diseases | Free, Freely available | SCR_018086 | Database of genes related to Repeat Expansion Diseases | 2026-09-12 01:02:18 | 1 | |||||||
|
mqtldb Resource Report Resource Website 10+ mentions |
mqtldb (RRID:SCR_018002) | mqtldb | data or information resource, database | Data collection of large scale genome wide DNA methylation analysis of 1,000 mother-child pairs at serial time points across life course (ARIES). | Data, large scale, genome, DNA methylation, analysis, mother-child pair, serial time point, life course, aeries, methylation, quantitative trait loci, database | DOI:10.1186/s13059-016-0926-z | SCR_018002 | methylation quantitative trait loci database | 2026-09-12 01:02:18 | 47 | |||||||||
|
PostgreSQL Resource Report Resource Website 100+ mentions |
PostgreSQL (RRID:SCR_021067) | data or information resource, database | Open source object relational database system that uses and extends SQL language combined with many features that safely store and scale the most complicated data workloads. PostgreSQL runs on all major operating systems. | Object relational database system, SQL language, data storage, data, database system |
uses: pgAdmin is listed by: SoftCite has parent organization: University of California at Berkeley; Berkeley; USA |
Free, Available for download, Freely available | SCR_021067 | Postgres | 2026-09-12 01:02:19 | 166 | |||||||||
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Scopus Resource Report Resource Website 500+ mentions |
Scopus (RRID:SCR_022559) | data or information resource, database | Abstract and indexing database with full text links that is produced by Elsevier Co. Combines expertly curated abstract and citation database with enriched data and linked scholarly literature across wide variety of disciplines. | Elsevier Co, abstract and citation database, data, scholarly literature, abstract and indexing database, full text links | is listed by: SoftCite | PMID:16522216 | SCR_022559 | 2026-09-12 01:02:20 | 788 | ||||||||||
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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 | 2026-09-12 01:02:20 | 1 | |||||||
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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 | 2026-09-12 01:02:21 | 295 | |||||||||||
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CLC Main Workbench Resource Report Resource Website 10+ mentions |
CLC Main Workbench (RRID:SCR_000354) | CLC Main Workbench | software resource, software toolkit | A suite of software for DNA, RNA and protein sequence data analysis. The software allows for the analysis and visualization of Sanger sequencing data as well as gene expression analysis, molecular cloning, primer design, phylogenetic analyses, and sequence data management. | sequencing, analysis, cloning, data, management, molecular, gene, genome, dna, rna |
is listed by: OMICtools is listed by: SoftCite |
Restricted | OMICS_01813 | SCR_000354 | 2026-09-12 01:02:23 | 31 | ||||||||
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Cross Validation Resource Report Resource Website |
Cross Validation (RRID:SCR_000702) | service resource, training service resource | A model evaluation method for training someone to read data. There are three methods: the holdout method, K-fold cross validation, and leave-one-out cross validation. | model, modeling, training, data, holdout, k fold, cross, validation | has parent organization: Carnegie Mellon University; Pennsylvania; USA | nlx_19901 | SCR_000702 | 2026-09-12 01:02:24 | 0 | ||||||||||
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TFFACTOR Resource Report Resource Website |
TFFACTOR (RRID:SCR_000519) | data or information resource, data set |
THIS RESOURCE IS NO LONGER IN SERVICE, documented on July 13, 2016. A dataset about transcriptional regulation in eukaryotic cells, including data such as transcription factors and their binding sites and profiles. Resource is in Chinese. |
data, transcription, regulation, eukaryotic, binding, site |
is related to: TFSEARCH: Searching Transcription Factor Binding Sites has parent organization: Computational Biology Research Center Core Facility |
PMID:9399875 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_39049 | SCR_000519 | 2026-09-12 01:03:09 | 0 | ||||||||
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University of Delaware CBCB Bioinformatics Data Science Core Facility Resource Report Resource Website 10+ mentions |
University of Delaware CBCB Bioinformatics Data Science Core Facility (RRID:SCR_017696) | access service resource, core facility, service resource | CBCB Bioinformatics Data Science Core builds upon infrastructure of the Center for Bioinformatics and Computational Biology. Delaware Biotechnology Institute , Delaware Data Science Institute, and Protein Information Resource. Core helps with planning your research or analyzing your current data. Services:Consultation and Collaboration, Proposal Assistance,Training, Bioinformatics Software, Computational Hardware, Database and Web Services, Next Gen Analysis, Custom Analysis. | ABRF, USEDit, CBCB, Bioinformatics, core, Delaware, Biotechnology, Institute, data, analyzing, service, data science |
is listed by: ABRF CoreMarketplace is related to: USEDit has parent organization: University of Delaware; Delaware; USA |
NIGMS P20GM103446; NIH Office of the Director S10OD028725 |
Open | SCR_017712, ABRF_82 | SCR_017696 | Center for Bioinformatics and Computational Biology Bioinformatics Core, CBCB Bioinformatics Core | 2026-09-12 01:04:00 | 46 | |||||||
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Albany University RNA Epitranscriptomics and Proteomics Resource Core Facility Resource Report Resource Website |
Albany University RNA Epitranscriptomics and Proteomics Resource Core Facility (RRID:SCR_017695) | REPR | access service resource, core facility, service resource | Resource offers range of mass spectrometry instrumentation, expertise in analysis of RNA, RNA modifications, and proteins involved in RNA metabolism/regulation, supports projects involving analysis of biomolecules, metabolites, and small synthetic molecules, provides consulting on experimental design, sample preparation and data interpretation, whole project development and grant writing contributions. | Mass, spectrometry, instrument, analysis, RNA, protein, biomolecule, data, grant, project, service, core | Open | ABRF_113, SCR_017715 | SCR_017695 | RNA Epitranscriptomics and Proteomics Resources | 2026-09-12 01:04:00 | 0 | ||||||||
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Idaho University IBEST Computational Resources Core Facility Resource Report Resource Website |
Idaho University IBEST Computational Resources Core Facility (RRID:SCR_017734) | CRC | access service resource, core facility, service resource | Provides evolutionary and computational biology investigators with computing and large data storage capacity for use in analyzing and managing large volumes of research data. Core contains advanced mix of high performance computing clusters, servers and data storage components, knowledge and technical skills required to compress years of analysis into days. | Evolutionary, computational, biology, data, storage, analysis, service, core | Restricted | ABRF_188 | SCR_017734 | IBEST Computational Resources Core | 2026-09-12 01:04:00 | 0 | ||||||||
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Stanford Diabetes Research Center Diabetes Clinical and Translational Core Resource Report Resource Website 1+ mentions |
Stanford Diabetes Research Center Diabetes Clinical and Translational Core (RRID:SCR_016212) | DCTC, SDRC-DCTC | access service resource, core facility, service resource | With the following services from the Diabetes Clinical and Translational Core (DCTC), members will receive training in biospecimen preservation, study design, data analysis, data management, use of statistical software and clinical trial conduct. | diabetes, clinical, translation, specimen, study, design, data, statistic |
is related to: Stanford Diabetes Research Center Diabetes Genomics Analysis Core is organization facet of: Stanford Diabetes Research Center |
NIDDK P30 DK116074 | SCR_016212 | Diabetes Clinical and Translational Core, Clinical and Translational Core, SDRC Diabetes Clinical and Translational Core | 2026-09-12 01:03:59 | 1 |
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