Searching the RRID Resource Information Network
Are you sure you want to leave this community? Leaving the community will revoke any permissions you have been granted in this community.
SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.
| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
OntoNeuroLOG Resource Report Resource Website |
OntoNeuroLOG (RRID:SCR_008957) | data or information resource, ontology, controlled vocabulary | An ontology for neuroimaging or medical imaging studies based on DOLCE (Descriptive Ontology for Linguistic and Cognitive Engineering), as the foundational ontology. Detailed description from web: Our aim is the design of a common semantic model providing a unified view on all data and tools to be shared between NeuroLOG partners. For this purpose, we built a multi-layered and multi-components formal ontology. We chose a design framework that structures the ontology at different levels of abstraction while respecting common conceptualization choices. At the highest level is a top-level ontology that includes abstract concepts and relationships valid across domains. We adopted DOLCE (Descriptive Ontology for Linguistic and Cognitive Engineering), as the foundational ontology. We then added Core ontologies, which provide generic, basic and minimal concepts and relations in a specific domain. By minimal we mean that core ontologies should include only the most reusable and widely applicable categories. These kinds of ontologies are essential for sharing intended meaning between different domains. We adopted I& DA (Information and Discourse Acts), a core ontology initially built for classifying documents as a function of their content.We use it to model medical images, which we consider as types of documents. Participant Roles is the core ontology we use to describe the modes of image participation in data processing. I& DA and Participant Roles are built according to DOLCE ontological commitments. On the basis of these two layers, we constructed our Domain ontology dedicated to conceptualizing a specific domain, in this case neuroimaging. Obviously, large domains such as neuroimaging can be divided into sub-domains for the sake of modularization. | neuroimaging, medical imaging, dicom term |
is related to: NeuroLOG has parent organization: University of Nice Sophia Antipolis; Nice; France |
PMID:18440282 | nlx_151929 | SCR_008957 | Onto Neuro Log, OntoNeuro LOG | 2026-02-14 02:05:01 | 0 | ||||||||
|
Human Thalamus in 3D Stereotactic Coordinates Resource Report Resource Website 1+ mentions |
Human Thalamus in 3D Stereotactic Coordinates (RRID:SCR_014214) | data or information resource, image collection | A research tool for clinical and experimental neuroscience, which provides images of human thalamus in the stereotactic planes of the coordinate system based on intercommissural line. Images include histological sagittal sections, sagittal maps, coronal maps, horizontal maps, and MRI images all from the same brain. The website also provides materials and methods section, references to the articles and presentations describing research data (on which the maps are based), and a bibliography on the synaptic relationships of subcortical and cortical afferents with projection and local circuit neurons in the motor thalamus. | Thalamic motor nuclei, stereotactic atlas plates, AC-PC coordinates, VIM, thalamic nomenclatures, Nigrothalamic projection zone, Pallidothalamic projection zone, Cerebellothalamic projection zone, Thalamic GABAergic circuits, GAD65 | has parent organization: University of Iowa; Iowa; USA | Register to access original images, Acknowledgement requested | SCR_014214 | human motor thalamus | 2026-02-14 02:04:53 | 1 | |||||||||
|
Cancer Methylome System Resource Report Resource Website 1+ mentions |
Cancer Methylome System (RRID:SCR_012013) | CMS | data or information resource, database | Datbase and web-based system for visualization and analysis of genome-wide methylation data of human cancers. | gene, methylation, visualization |
is listed by: OMICtools has parent organization: University of Texas Health Science Center at San Antonio; Texas; USA |
Cancer, Normal | NCI | PMID:22035855 | Acknowledgement requested | OMICS_01836 | SCR_012013 | 2026-02-14 02:06:21 | 8 | |||||
|
APPRIS Resource Report Resource Website 50+ mentions |
APPRIS (RRID:SCR_012019) | APPRIS | data or information resource, database | A database that houses annotations of human splice isoforms. It adds reliable protein structural and functional data and information from cross-species conservation. A visual representation of the annotations for each gene allows users to easily identify functional changes brought about by splicing events. In addition to collecting, integrating and analyzing reliable predictions of the effect of splicing events, it also selects a single reference sequence for each gene, termed the principal isoform, based on the annotations of structure, function and conservation for each transcript. | isoform, function, annotation, splice, reference sequence, structure, conservation, transcript, FASEB list |
is listed by: OMICtools has parent organization: Spanish National Cancer Research Center |
PMID:23161672 | Free | OMICS_01881 | SCR_012019 | APPRIS - A system for annotating alternative splice isoforms | 2026-02-14 02:06:21 | 85 | ||||||
|
Human Transcriptome Database for Alternative Splicing Resource Report Resource Website |
Human Transcriptome Database for Alternative Splicing (RRID:SCR_013305) | H-DBAS | data or information resource, database | A specialized database for human alternative splicing (AS) based on H-Invitational full-length cDNAs. H-DBAS offers unique data and viewer for human Alternative Splicing (AS) analysis. It contains: * Genome-wide representative alternative splicing variants (RASVs) identified from following datasets * H-Inv full-length cDNAs (resource summary): H-Invitational cDNA dataset * H-Inv all transcripts (resource summary): Published human mRNA dataset * Mouse full-length cDNAs (resource summary): Mouse cDNA dataset * RASVs affecting protein functions such as protein motif, GO, subcellular localization signal and transmembrane domain * Conserved RASVs compared with mouse genome and the full-length cDNAs (H-Inv full-length cDNAs only) | alternative splicing, alternative splicing variant, cdna, transcriptome, h-invitational, rna-seq, rna, comparative genomics |
is listed by: OMICtools has parent organization: National Institute of Advanced Industrial Science and Technology |
PMID:19969536 PMID:17130147 |
nif-0000-02935, OMICS_01887 | SCR_013305 | H-DBAS - Human-transcriptome DataBase for Alternative Splicing | 2026-02-14 02:06:24 | 0 | |||||||
|
BTKbase Resource Report Resource Website 10+ mentions |
BTKbase (RRID:SCR_013101) | data or information resource, database | A mutation registry for X-linked agammaglobulinemia (XLA). BTKbase lists mutation entries of 1,111 patients from 973 unrelated families showing 602 unique molecular events. Agammaglobulinemia is characterized by failure to produce mature B lymphocyte cells and is associated with a failure of Ig heavy chain rearrangement. Two thirds of cases are familial, and one third of cases are believed to arise from new mutations. Mutations of the BTK gene are found in approximately 80% of patients with agammaglobulinemia. The localization of the mutations on the gene and protein for BTK can be analyzed by clicking sequences on the web pages. It includes a mutation browser, which gives users access to mutations in Bruton tyrosine kinase (BTK) protein sequences, and XLA fact file, and forms for users to submit mutation to the dataset. | bruton tyrosine kinase, xla, x-linked agammaglobulinemia |
is listed by: 3DVC has parent organization: University of Tampere; Tampere; Finland |
Agammaglobulinemia | nif-0000-02625 | SCR_013101 | BTKbase | 2026-02-14 02:06:48 | 14 | ||||||||
|
doRiNA Resource Report Resource Website 10+ mentions |
doRiNA (RRID:SCR_013222) | doRiNA | data or information resource, database | In animals, RNA binding proteins (RBPs) and microRNAs (miRNAs) post-transcriptionally regulate the expression of virtually all genes by binding to RNA. Recent advances in experimental and computational methods facilitate transcriptome-wide mapping of these interactions. It is thought that the combinatorial action of RBPs and miRNAs on target mRNAs form a post-transcriptional regulatory code. We provide a database that supports the quest for deciphering this regulatory code. Within doRiNA, we are systematically curating, storing and integrating binding site data for RBPs and miRNAs. Users are free to take a target (mRNA) or regulator (RBP and/or miRNA) centric view on the data. We have implemented a database framework with short query response times for complex searches (e.g. asking for all targets of a particular combination of regulators). All search results can be browsed, inspected and analyzed in conjunction with a huge selection of other genome-wide data, because our database is directly linked to a local copy of the UCSC genome browser. At the time of writing, doRiNA encompasses RBP data for the human, mouse and worm genomes. For computational miRNA target site predictions, we provide an update of PicTar predictions. | binding site, rna binding protein, microrna, post-transcription, rna, gene, genome, mammal, population variation, gene expression, transcript, regulator, protein, binding |
is related to: UCSC Genome Browser has parent organization: Max Delbruck Center for Molecular Medicine; Berlin; Germany |
MDC Systems Biology Network ; BMBF ; Senate of Berlin; Berlin; Germany ; DFG |
PMID:22086949 | nlx_151321 | SCR_013222 | 2026-02-14 02:06:49 | 15 | |||||||
|
aGEM Resource Report Resource Website 10+ mentions |
aGEM (RRID:SCR_013349) | aGEM | data or information resource, database | Database platform of an integrated view of eight databases (mouse gene expression resources: EMAGE, GXD, GENSAT, BioGPS, ABA, EUREXPRESS; human gene expression databases: HUDSEN, BioGPS and Human Protein Atlas) that allows the experimentalist to retrieve relevant statistical information relating gene expression, anatomical structure (space) and developmental stage (time). Moreover, general biological information from databases such as KEGG, OMIM and MTB is integrated too. It can be queried using gene and anatomical structure. Output information is presented in a friendly format, allowing the user to display expression maps and correlation matrices for a gene or structure during development. An in-depth study of a specific developmental stage is also possible using heatmaps that relate gene expression with anatomical components. This is a powerful tool in the gene expression field that makes easy the access to information related to the anatomical pattern of gene expression in human and mouse, so that it can complement many functional genomics studies. The platform allows the integration of gene expression data with spatial-temporal anatomic data by means of an intuitive and user friendly display., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | gene, anatomy, gene expression, anatomical structure, developmental stage, functional genomics, genomics |
is related to: EMAGE Gene Expression Database is related to: Gene Expression Database is related to: Gene Expression Nervous System Atlas is related to: BioGPS: The Gene Portal Hub is related to: Allen Mouse Brain Reference Atlas is related to: Eurexpress is related to: HUDSEN is related to: The Human Protein Atlas is related to: OMIM is related to: KEGG has parent organization: Autonomous University of Madrid; Madrid; Spain |
National Institute for Bioinformatics ; AMIT Programme CDTI CEN-20101014; RESOLVE UE CE:FP7-202047; Ministerio de Ciencia e Innovacion BIO2010-16566; Biostruct-X FP7-Infrastructures-2011-1; Centrosoma 3D CSD2006-00023 |
PMID:22106336 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_152022 | SCR_013349 | anatomic Gene Expression Mapping | 2026-02-14 02:06:18 | 12 | |||||
|
Death Domain database Resource Report Resource Website 1+ mentions |
Death Domain database (RRID:SCR_013231) | DD database | data or information resource, database | A manually curated database of protein-protein interactions for Death Domain Superfamily. The Death Domain Database provides a detailed summary of PPI data, which fits into 3 categories: interaction, characterization, and functional role. Users can find in-depth information specified in the literature on relevant analytical methods, structural information. The DD superfamily currently comprises four subfamilies: * Death domain (DD) subfamily * Death effector domain (DED) subfamily * Caspase recruitment domain (CARD) subfamily * Pyrin domain (PYD) subfamily | protein interaction, death domain superfamily, death domain, protein-protein interaction, apoptosis, inflammation, immune cell signaling pathway, cellular signaling pathway, interaction, bio.tools |
is listed by: 3DVC is listed by: Debian is listed by: bio.tools has parent organization: Yeungnam University; North Gyeongsang; South Korea has parent organization: Seoul National University College of Medicine; Seoul; South Korea has parent organization: Myongji University; Gyeonggi-do; South Korea |
Korean Ministry of Education Science and Technology 2011-0003406; Korean Ministry of Education Science and Technology 2011-0025697; Korean Ministry of Education Science and Technology 2008-05943; Korean Ministry of Education Science and Technology 2011-0022437 |
PMID:22135292 | nlx_149482, biotools:deathdomain | https://bio.tools/deathdomain | SCR_013231 | DeathDomain.org/, DeathDomain Database, Death Domain database: A manually curated database of protein-protein interactions for Death Domain Superfamily | 2026-02-14 02:06:49 | 2 | |||||
|
KAVIAR Resource Report Resource Website 10+ mentions |
KAVIAR (RRID:SCR_013737) | data or information resource, database | A database containing a compilation of SNVs, indels, and complex variants observed in humans, designed to facilitate testing for the novelty and frequency of observed variants. | SNV, single nucleotide variant, database, indel, bio.tools |
is listed by: Debian is listed by: bio.tools has parent organization: Institute for Systems Biology; Washington; USA |
Inova Translational Medicine Institute | PMID:21965822 | Free, Public | biotools:kaviar | https://bio.tools/kaviar | SCR_013737 | queryable database of known variants, Known VARiants | 2026-02-14 02:06:20 | 17 | |||||
|
BloodSpot Resource Report Resource Website 50+ mentions |
BloodSpot (RRID:SCR_015563) | data or information resource, database | Database that provides gene expression profiles of genes and gene signatures in healthy and malignant hematopoiesis and includes data from both humans and mice. In addition to the default plot, which displays an integrated expression plot, two additional levels of visualization are available: an interactive tree showing the hierarchical relationship between the samples, and a Kaplan-Meier survival plot. The database is sub-divided into several datasets that are accessible for browsing. | human gene signature, mouse gene signature, human gene database, mouse gene database, hematopoiesis, blood cell database, FASEB list | has parent organization: University of Copenhagen; Copenhagen; Denmark | Danish Research Council for Strategic Research ; NovoNordisk Foundation |
DOI:10.1093/nar/gkv1101 | Open source | SCR_015563 | 2026-02-14 02:06:23 | 85 | ||||||||
|
COMPARTMENTS Subcellular localization database Resource Report Resource Website 1+ mentions |
COMPARTMENTS Subcellular localization database (RRID:SCR_015561) | data or information resource, database | Web resource that integrates evidence on protein subcellular localization from manually curated literature, high-throughput screens, automatic text mining, and sequence-based prediction methods. All evidence is mapped to common protein identifiers and Gene Ontology terms, and further unify it by assigning confidence scores that facilitate comparison of the different types and sources of evidence and visualize these scores on a schematic cell. | subcellular localization database | EMBL International PhD Programme 295–2012; Luxembourg Centre for Systems Biomedicine ; Novo Nordisk Foundation Center for Protein Research ; CSIRO Office of the Chief Executive ; CSIRO Computation and Simulation Sciences |
SCR_015561 | COMPARTMENTS, Compartments Database | 2026-02-14 02:06:29 | 7 | ||||||||||
|
ProteomicsDB Resource Report Resource Website 100+ mentions |
ProteomicsDB (RRID:SCR_015562) | data or information resource, database | Database for the identification of the human proteome and its use across the scientific community. Users can browse proteins and chromosomes and contribute to the data repository. | human proteome, human proteomics, proteomics database, human proteomics database, bio.tools, FASEB list |
is listed by: Debian is listed by: bio.tools is related to: ProteomeTools has parent organization: Technical University of Munich; Bavaria; Germany |
PMID:24870543 | The research community can contribute to this resource | r3d100013408, biotools:proteomicsdb | https://bio.tools/proteomicsdb https://doi.org/10.17616/R31NJMU8 |
SCR_015562 | 2026-02-14 02:06:53 | 149 | |||||||
|
MicrocircuitDB Resource Report Resource Website |
MicrocircuitDB (RRID:SCR_014577) | data or information resource, database | A database for storing and efficiently retrieving realistic computational models of brain microcircuits and networks. The focus is on microcircuits that are based on experimentally demonstrated properties of neurons and their connectivity. | database, microcircuit, micro circuit, brain, neuron, connectivity |
works with: ModelDB works with: NeuronDB |
Researchers may contribute to this resource | SCR_014577 | 2026-02-14 02:06:52 | 0 | ||||||||||
|
NIH Toolbox Regional Taste Intensity Test Resource Report Resource Website |
NIH Toolbox Regional Taste Intensity Test (RRID:SCR_003637) | material resource, assessment test provider | Assessment test that measures the perceived intensity of quinine (a bitter tastant) and salt administered in liquid solutions. The tastants are applied to the tip of the tongue as well as the whole mouth and rated on a generalized labeled magnitude scale (ranging from no sensation at all to strongest sensation of any kind). The test is recommended for administration to participants ages 12-85 and takes approximately six minutes to administer. | sensation, taste, quinine, salt | has parent organization: NIH Toolbox - Assessment of Neurological and Behavioral Function | nlx_157788 | SCR_003637 | Regional Taste Intensity Test | 2026-02-14 02:07:03 | 0 | |||||||||
|
NIH Toolbox Pain Intensity Survey Resource Report Resource Website |
NIH Toolbox Pain Intensity Survey (RRID:SCR_003636) | material resource, assessment test provider | A measure that consists of a single item measuring immediate (i.e., acute) pain in adults. As part of Toolbox, a single pain intensity item measures immediate (a.k.a. acute) pain for use in adults. It takes less than one minute to administer and is recommended for ages 18-85. | sensation, pain, adult human | has parent organization: NIH Toolbox - Assessment of Neurological and Behavioral Function | nlx_157787 | SCR_003636 | Pain Intensity Survey | 2026-02-14 02:06:44 | 0 | |||||||||
|
NIH Toolbox Pain Interference Survey Resource Report Resource Website |
NIH Toolbox Pain Interference Survey (RRID:SCR_003635) | material resource, assessment test provider | A self-report scale that measures the degree to which pain interferes with other activities in life in adults. Pain interference items were developed as part of the NIH PROMIS. This measure is administered as a computer-adaptive test and takes approximately three minutes. It is recommended for ages 8-85. | sensation, pain | has parent organization: NIH Toolbox - Assessment of Neurological and Behavioral Function | nlx_157786 | SCR_003635 | Pain Interference Survey | 2026-02-14 02:06:57 | 0 | |||||||||
|
Autism-Spectrum Quotient Resource Report Resource Website |
Autism-Spectrum Quotient (RRID:SCR_003639) | AQ | material resource, assessment test provider | A 50 question psychological assessment that measures the symptoms of autism in adults, children and adolescents. | adult human, child, adolescent | Autism | Free | nlx_157818 | SCR_003639 | Autism Spectrum Quotient (AQ) | 2026-02-14 02:06:34 | 0 | |||||||
|
Social Phobia Inventory Resource Report Resource Website 1+ mentions |
Social Phobia Inventory (RRID:SCR_003673) | SPIN | material resource, assessment test provider | A 17-item self-administered assessment questionnaire developed by the Psychiatry and Behavioral Sciences Department at Duke University effective in screening for and measuring the severity of social anxiety disorder. Each question is answered with one of 5 responses ranging from Not at All to Extremely. Each response is assigned a score and then totaled at the end. Scoring: * 0-20 Little or No Anxiety * 21-30 Mild Anxiety * 31-40 Moderate Anxiety * 41-50 Severe Anxiety * 51-68 Very Severe Anxiety | questionnaire | Social anxiety disorder | Free | nlx_157827 | SCR_003673 | 2026-02-14 02:06:35 | 1 | ||||||||
|
Panic Disorder Severity Scale - Self-Report Resource Report Resource Website |
Panic Disorder Severity Scale - Self-Report (RRID:SCR_003671) | PDSS-SR | material resource, assessment test provider | A self-administered assessment used to detect possible symptoms of panic disorder and suggest the need for a formal diagnostic assessment. It consists of seven items (which are rated from 0-4). The items assess panic frequency, distress during panic, panic-focused anticipatory anxiety, phobic avoidance of situations, phobic avoidance of physical sensations, impairment in work functioning, and impairment in social functioning. The overall assessment is made by a total score, which is calculated by summing the scores for all seven items. The total scores range from 0 to 28. The PDSS-SR is used for screening and the scores 9 and above suggest the need for a formal diagnostic assessment. (Adapted from Wikipedia) | questionnaire | Panic Disorder | Free | nlx_157825 | SCR_003671 | Panic Disorder Severity Scale - Self rated, Panic Disorder Severity Scale (PDSS) Self-report | 2026-02-14 02:06:45 | 0 |
Can't find your Tool?
We recommend that you click next to the search bar to check some helpful tips on searches and refine your search firstly. Alternatively, please register your tool with the SciCrunch Registry by adding a little information to a web form, logging in will enable users to create a provisional RRID, but it not required to submit.
Welcome to the RRID Resources search. From here you can search through a compilation of resources used by RRID and see how data is organized within our community.
You are currently on the Community Resources tab looking through categories and sources that RRID has compiled. You can navigate through those categories from here or change to a different tab to execute your search through. Each tab gives a different perspective on data.
If you have an account on RRID then you can log in from here to get additional features in RRID such as Collections, Saved Searches, and managing Resources.
Here is the search term that is being executed, you can type in anything you want to search for. Some tips to help searching:
If you are logged into RRID you can add data records to your collections to create custom spreadsheets across multiple sources of data.
Here are the facets that you can filter the data by.
If you have any further questions please check out our FAQs Page to ask questions and see our tutorials. Click this button to view this tutorial again.
