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 | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
BraTS Resource Report Resource Website 1+ mentions |
BraTS (RRID:SCR_016214) | data or information resource, organization portal, portal | Organization that provides a conference about the methods for the segmentation of brain tumors in magnetic resonance imaging (MRI) scans. Its conferences utilize multi-institutional pre-operative MRI scans and focus on the segmentation of intrinsically heterogeneous (in appearance, shape, and histology) brain tumors, namely gliomas. | brain, neuroscience, tumor, cancer, segmentation, mri, neuroimaging, glioma, patient, conference, event | SCR_016214 | BraTS: Multimodal Brain Tumor Segmentation, Multimodal Brain Tumor Segmentation | 2026-09-02 05:43:44 | 8 | |||||||||||
|
Mouse Connectome Project Resource Report Resource Website |
Mouse Connectome Project (RRID:SCR_017313) | MCP | data or information resource, portal, project portal | Project to create complete mesoscale connectivity atlas of the C57Black/6 mouse brain and to subsequently generate its global neural networks. | mesoscale, connectivity, atlas, C57Black/6, mouse, brain, neural, network |
is used by: BICCN has parent organization: University of Southern California; Los Angeles; USA |
NIH | Free, Freely available | SCR_017313 | The Mouse Connectome Project, Mouse Connectome Project | 2026-09-02 05:43:46 | 0 | |||||||
|
Compilation of Genetics Resource Databases Resource Report Resource Website 50+ mentions |
Compilation of Genetics Resource Databases (RRID:SCR_017501) | data or information resource, portal | Portal provides list of genetic resources such as Brain Atlases and genomes for various species provided by National Institute of Drug Abuse. | Genetic, data, brain, atlas, information, National, Institute, Drug, Abuse, FASEB list | Restricted | SCR_017501 | 2026-09-02 05:43:46 | 61 | |||||||||||
|
HeuDiConv: a heuristic-centric DICOM converter Resource Report Resource Website 10+ mentions |
HeuDiConv: a heuristic-centric DICOM converter (RRID:SCR_017427) | HeuDiConv | data processing software, software application, software resource | Software tool as flexible DICOM converter for organizing brain imaging data into structured directory layouts. | Flexible, DICOM, converter, organizing, brain, image, data, structured, directory, layout | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | http://www.nitrc.org/projects/heudiconv/ | SCR_017427 | heudiconv, heuristic-centric DICOM converter | 2026-09-02 05:43:56 | 34 | ||||||||
|
Mononucleotide Repeat Frameshift Portal Resource Report Resource Website |
Mononucleotide Repeat Frameshift Portal (RRID:SCR_021125) | MORF | data or information resource, organization portal, portal | Portal devoted to suite of MORF reporter mice labels of Cre positive neurons and glia distributed stochastically throughout brain and can be imaged with endogenous fluorescence (mNeonGreen in MORF1 and EGFP in TIGRE-MORF) or stained for multivalent immunoreporter (Spaghetti Monster fluorescent protein V5, or smFP-V5, in MORF3). MORF technology used to label and reconstruct thousands genetically defined cells per brain for large scale, unbiased classification and quantitative analyses of CNS cell types brainwide. | Sparsely label genetically defined neuronal populations, reporter mouse lines, Cre-dependent sparse cell labeling methodology, MORF stochastic translational switch, integrating molecular, morphological properties, connectomic properties, unbiased classification, neuronal cell types, brain | has parent organization: University of California at Los Angeles; California; USA | PMID:32795398 | Free, Freely available | SCR_021125 | MOnonucleotide Repeat Frameshift, MORF portal | 2026-09-02 05:43:59 | 0 | |||||||
|
BAMS Nested Regions Resource Report Resource Website 1+ mentions |
BAMS Nested Regions (RRID:SCR_000238) | BAMS Nested Regions | data or information resource, database | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 7th, 2019. BAMS is an online resource for information about neural circuitry. The BAMS Nested Regions view focuses on the major brain regions and their relationships. | neural circuitry, brain region, brain |
is used by: NIF Data Federation has parent organization: Brain Architecture Management System |
NIMH MH61223; NINDS NS16686; NINDS/NIMH/NIBIB NS50792-01 |
THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-10175 | SCR_000238 | Brain Architecture Management System Nested Regions | 2026-09-02 05:43:58 | 3 | ||||||
|
Brain Evolution in the News Resource Report Resource Website |
Brain Evolution in the News (RRID:SCR_000592) | Brain Evolution in the News | blog, data or information resource, narrative resource | Brain Evolution in the News pulls in blogs from a variety of resources on topic. | brain, development, evolution | nlx_144625 | SCR_000592 | 2026-09-02 05:43:58 | 0 | ||||||||||
|
Eide Neurolearning Blog Resource Report Resource Website |
Eide Neurolearning Blog (RRID:SCR_000680) | Eide Neurolearning Blog | blog, data or information resource, narrative resource | Weekly articles related to brain-based learning and learning styles, problem-solving and creativity, kids, families, and parenting, gifted and visual learners, dyslexia, attention deficit disorders, autism, and more. | learning, brain, learning style, problem-solving, creativity, child, family, parenting, gifted learner, visual learner, dyslexia, attention deficit disorder, autism, human, working memory | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_144589 | SCR_000680 | 2026-09-02 05:43:59 | 0 | |||||||||
|
Kymata Atlas Resource Report Resource Website 1+ mentions |
Kymata Atlas (RRID:SCR_000269) | atlas, data or information resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 31,2025. An online atlas of neural function, maintained by Cambridge University and the MRC Cognition and Brain Sciences Unit (CBSU). | data visualization software, database, adult human, brain, function, computational model, sensory information, post-synaptic dendritic current |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University of Cambridge; Cambridge; United Kingdom has parent organization: MRC Cognition and Brain Sciences Unit |
THIS RESOURCE IS NO LONGER IN SERVICE | nlx_158115 | http://www.nitrc.org/projects/kymata_atlas | SCR_000269 | 2026-09-02 05:44:09 | 1 | ||||||||
|
Neurocarta Resource Report Resource Website |
Neurocarta (RRID:SCR_000617) | Neurocarta | data or information resource, database | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 23,2022. Neurocarta is a knowledgebase that consolidates information on genes and phenotypes across multiple resources and allows tracking and exploring of the associations. The system enables automatic and manual curation of evidence supporting each association, as well as user-enabled entry of their own annotations. Phenotypes are recorded using controlled vocabularies such as the Disease Ontology to facilitate computational inference and linking to external data sources. The gene-to-phenotype associations are filtered by stringent criteria to focus on the annotations most likely to be relevant. Neurocarta is constantly growing and currently holds more than 30,000 lines of evidence linking over 6,800 genes to 1,800 different phenotypes. Neurocarta is a one-stop shop for researchers looking for candidate genes for any disorder of interest. In Neurocarta, they can review the evidence linking genes to phenotypes and filter out the evidence they're not interested in. In addition, researchers can enter their own annotations from their experiments and analyze them in the context of existing public annotations. Neurocarta's in-depth annotation of neurodevelopmental disorders makes it a unique resource for neuroscientists working on brain development. | gene, phenotype, curation, annotation, candidate gene, neuroscientist, brain development, brain, tool |
is related to: Human Phenotype Ontology is related to: MPO is related to: Human Disease Ontology has parent organization: Gemma |
Neurodevelopmental disease | PMID:23442263 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_151502 | SCR_000617 | 2026-09-02 05:44:10 | 0 | ||||||
|
Sullivan Lab Evidence Project Resource Report Resource Website 1+ mentions |
Sullivan Lab Evidence Project (RRID:SCR_000753) | SLEP | data or information resource, database | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 23,2022. Database of genetic and gene expression data from the published literature on psychiatric disorders. Users can search the accumulated data to find the evidence in support of the involvement of a particular genomic region with a set of important psychiatric disorders, ADHD, autism, bipolar disorder, eating disorder, major depressive disorder, schizophrenia, and smoking behavior. It contains findings from manual reviews of 144 papers in psychiatric genetics, 136 primary reports and 8 meta-analyses. Disorders covered include schizophrenia (44 papers), autism (24 papers), bipolar disorder (24 papers), smoking behavior (24 papers), major depressive disorder and neuroticism (14 papers), ADHD (8 papers), eating disorders (3 papers), and a combined schizophrenia-bipolar phenotype (3 papers). The unbiased searches integrated into SLEP include genomewide linkage (117 papers), genomewide association (15 papers), copy number variation (9 papers), and gene expression studies of post-mortem brain tissue (3 meta-analyses courtesy of the Stanley Foundation). In total, SLEP captures 3,741 findings from these 144 papers. SLEP also contains over 70,000 SignPosts. These annotations derive from many different sources and are designed to try to capture current state of knowledge about disease associations in the human genome. SignPosts can be searched simultaneously with the psychiatric genetics literature in order to integrate these two bodies of knowledge. The SignPosts include: accumulated GWAS findings from the human genetics literature, the OMIM database, candidate gene association study literature, CNV location and frequency data, SNPs that influence gene expression in brain, genes expressed in brain, genes with evidence of imprinting and random monoalleleic expression, genes mutated in breast or colorectal cancer, and pathway data from BioCyc. | eating disorder, gene, gene expression, adhd, autism, bipolar disorder, brain, breast, cancer, colorectal, combined schizophrenia-bipolar, disease, genomic region, imprinting, major depressive disorder, meta-analysis, monoalleleic, mutation, neuroticism, post-mortem, psychiatric disorder, schizophrenia, smoking behavior, tissue, molecular neuroanatomy resource | Eating disorder, Bipolar disorder, Brain, Breast cancer, Colorectal cancer, Combined schizophrenia-bipolar disease, Genomic region, Imprinting, Major depressive disorder, schizophrenia, Smoking behavior, Autism, Attention deficit-hyperactivity disorder | NIMH MH097281 | PMID:18548508 | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-10439 | SCR_000753 | 2026-09-02 05:44:00 | 3 | ||||||
|
BodyMap-Xs Resource Report Resource Website 1+ mentions |
BodyMap-Xs (RRID:SCR_001147) | BodyMap-Xs | data or information resource, database | THIS RESOURCE IS NO LONGER IN SERVICE, documented on July 17, 2013. A taxonomical and anatomical database of latest cross species animal EST data, clustered by UniGene and inter connected by Inparanoid. Users can search by Unigene, RefSeq, or Entrez Gene ID, or search for Gene Name or Tissue type. Data is also sortable and viewable based on qualities of normal, Neoplastic, or other. The last data import appears to be from 2008 | expressed sequence tag, comparative genomics, anatomy, taxonomy, brain, blood, connective, reproductive, muscular, alimentary, lung, liver, urinary, endocrine, exocrine, embryo, homology, gene expression, ortholog, paralog | has parent organization: DNA DataBank of Japan (DDBJ) | Neoplasm, Normal | Japanese Ministry of Education Culture Sports Science and Technology MEXT ; New Energy and Industrial Technology Development Organization |
PMID:16381946 PMID:11125076 PMID:10592203 |
THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-02617 | http://bodymap.jp/, http://bodymap.ims.u-tokyo.ac.jp/ | SCR_001147 | BodyMap-Xs: anatomical and taxonomical breakdown of animal EST, BodyMap, BodyMap- human and mouse gene expression database, BodyMap: human and mouse gene expression database, BodyMap-cross species, BodyMap-Xs(cross species) | 2026-09-02 05:44:01 | 1 | |||
|
TissueNet - The Database of Human Tissue Protein-Protein Interactions Resource Report Resource Website 10+ mentions |
TissueNet - The Database of Human Tissue Protein-Protein Interactions (RRID:SCR_002052) | TissueNet | data or information resource, database | Database of human tissue protein-protein interactions (PPIs) that associates each interaction with human tissues that express both pair mates. This was achieved by integrating current data of experimentally detected PPIs with extensive data of gene and protein expression across 16 main human tissues. Users can query TissueNet using a protein and retrieve its PPI partners per tissue, or using a PPI and retrieve the tissues expressing both pair mates. The graphical representation of the output highlights tissue-specific and tissue-wide PPIs. Thus, TissueNet provides a unique platform for assessing the roles of human proteins and their interactions across tissues. | protein-protein interaction, protein, tissue, adipose, adrenal, brain, breast, colon, heart, kidney, liver, lung, lymph node, ovary, prostate, skeletal muscle, testis, thyroid, white blood cell, protein expression, dna-microarray |
is listed by: OMICtools is related to: Biological General Repository for Interaction Datasets (BioGRID) is related to: Database of Interacting Proteins (DIP) is related to: IntAct is related to: MINT has parent organization: Ben-Gurion University of the Negev; Beer-Sheva; Israel |
PMID:23193266 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_01913 | SCR_002052 | 2026-09-02 05:44:04 | 27 | |||||||
|
StimVision Resource Report Resource Website 1+ mentions |
StimVision (RRID:SCR_017457) | data processing software, data visualization software, software application, software resource | Software tool to facilitate tractography based deep brain stimulation (DBS) electrode targeting within patient specific stereotactic coordinate system used in operating room. | Tractography, deep, brain, stimulation, BRAIN Initiative | is recommended by: BRAIN Initiative | NIMH R01 MH102238; NIMH R01 MH106173 |
PMID:28653482 | SCR_017457 | Stim Vision, StimVision | 2026-09-02 05:41:49 | 1 | ||||||||
|
BrainMaker Resource Report Resource Website 1+ mentions |
BrainMaker (RRID:SCR_017666) | 3d visualization software, data processing software, data visualization software, image analysis software, image reconstruction software, software application, software resource | Software tool to automatically align sections to visualize brains in 3D. Assists with cell mapping, cytoarchitectonics and other areas requiring characterization of neuronal circuitry to create comprehensive anatomical reference. Automatically creates full resolution, 3D reconstructions of entire brain or any organ from serial sections of whole slide images. Allows to view cells, structures, and lesions, locate neurons expressing particular gene or visualize axonal projections of specific neurons with full anatomical context. | BMF Bioscience, align, section, visualize, brain, 3D, cell, mapping, cytoarchitectonics, neural, circuitry, anatomical, reference, brain, organ, serial, slide, image | Restricted | SCR_017666 | 2026-09-02 05:42:05 | 1 | |||||||||||
|
Allen Software Development Kit Resource Report Resource Website 10+ mentions |
Allen Software Development Kit (RRID:SCR_018183) | AllenSDK | data analysis software, data processing software, software application, software resource | Software tool as code for processing and analyzing data in Allen Brain Atlas. Source code for reading and processing Allen Brain Atlas data. Allen SDK focuses on Allen Brain Observatory, Cell Types Database, and Mouse Brain Connectivity Atlas. | Data analysis, data processing, Allen Brain Atlas, data, brain |
is related to: Allen Brain Atlas is organization facet of: BICCN |
Free, Freely available | SCR_018192 | https://allensdk.readthedocs.io/en/latest/ | SCR_018183 | 2026-09-02 05:41:56 | 35 | |||||||
|
Center for Computational Biology at UCLA Resource Report Resource Website |
Center for Computational Biology at UCLA (RRID:SCR_000334) | CCB, UCLA CCB, USC CCB | data or information resource, organization portal, portal | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on August 31, 2022. Center focused on the development of computational biological atlases of different populations, subjects, modalities, and spatio-temporal scales with 3 types of resources: (1) Stand-alone computational software tools (image and volume processing, analysis, visualization, graphical workflow environments). (2) Infrastructure Resources (Databases, computational Grid, services). (3) Web-services (web-accessible resources for processing, validation and exploration of multimodal/multichannel data including clinical data, imaging data, genetics data and phenotypic data). The CCB develops novel mathematical, computational, and engineering approaches to map biological form and function in health and disease. CCB computational tools integrate neuroimaging, genetic, clinical, and other relevant data to enable the detailed exploration of distinct spatial and temporal biological characteristics. Generalizable mathematical approaches are developed and deployed using Grid computing to create practical biological atlases that describe spatiotemporal change in biological systems. The efforts of CCB make possible discovery-oriented science and the accumulation of new biological knowledge. The Center has been divided into cores organized as follows: - Core 1 is focused on mathematical and computational research. Core 2 is involved in the development of tools to be used by Core 3. Core 3 is composed of the driving biological projects; Mapping Genomic Function, Mapping Biological Structure, and Mapping Brain Phenotype. - Cores 4 - 7 provide the infrastructure for joint structure within the Center as well as the development of new approaches and procedures to augment the research and development of Cores 1-3. These cores are: (4)Infrastructure and Resources, (5) Education and Training, (6) Dissemination, and (7) Administration and Management. The main focus of the CCB is on the brain, and specifically on neuroimaging. This area has a long tradition of sophisticated mathematical and computational techniques. Nevertheless, new developments in related areas of mathematics and computational science have emerged in recent years, some from related application areas such as Computer Graphics, Computer Vision, and Image Processing, as well as from Computational Mathematics and the Computational Sciences. We are confident that many of these ideas can be applied beneficially to neuroimaging. | functional, genetic, biological system, brain, clinical, computational, computational mathematic, disease, health, image processing, physiological, population, structural, neuroimaging, computational neuroscience, imaging genomics, magnetic resonance, pet, spect |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: National Centers for Biomedical Computing has parent organization: Laboratory of Neuro Imaging |
NCRR U54 RR021813 | PMID:22081221 | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-10492 | http://ccb.loni.ucla.edu/ | http://www.nitrc.org/projects/ccb, http://cms.loni.ucla.edu/CCB/ | SCR_000334 | CCB at UCLA, Center for Computational Biology | 2026-09-02 05:43:27 | 0 | |||
|
International Brain Research Organization Resource Report Resource Website 1+ mentions |
International Brain Research Organization (RRID:SCR_007406) | IBRO | data or information resource, funding resource, organization portal, portal | A central organization that develops, supports, co-ordinates and promotes scientific research in all fields concerning the brain; promotes international collaboration and interchange of scientific information on brain research throughout the world; and provides for and to assist in education and the dissemination of information relating to brain research by all available means. IBRO represents the interests of more than 50,000 neuroscientists around the globe. Over the years, IBRO has set up a number of program to stimulate international contacts in brain research. Symposia and workshops are sponsored on the basis of competitive applications. Under its Publications Programme, IBRO publishes the journal Neuroscience and the annual newsletter IBRO News. IBRO offers post-doctoral fellowships and travel grants to students from less-developed countries. It has run a Neuroscience Schools Programme, organized by the committees of IBROs six Regions, aimed at forming interactive networks among students and teachers during training courses in Africa, Asia, Central and Eastern Europe, Latin America, Western Europe, and the US and Canada. With just three schools in 1999, expansion has been rapid - in 2007 there were 22 schools around the world. | neuroscience, brain | nif-0000-00471 | SCR_007406 | l''Organisation internationale de recherche sur le cerveau | 2026-09-02 05:43:27 | 2 | |||||||||
|
Visible Human Transverse Section Through the Head Resource Report Resource Website |
Visible Human Transverse Section Through the Head (RRID:SCR_001966) | atlas, data or information resource, portal | Portal for learning resources about the brain. It includes information and interactive images of transverse brain sections. | brain, imaging, education, learning | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-10547 | SCR_001966 | 2026-09-02 05:43:30 | 0 | ||||||||||
|
Connectir Resource Report Resource Website 1+ mentions |
Connectir (RRID:SCR_000863) | Connectir | data processing software, image analysis software, software application, software resource | An R-based package to conduct brain connectivity analyses with a focus on a novel approach to conducting Connectome-Wide Association Studies (CWAS) using functional connectivity. | console (text based), magnetic resonance, r, connectivity, brain, connectome-wide association study, functional connectivity | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | Free, Available for download, Freely available | nlx_155729 | http://www.nitrc.org/projects/connectir | SCR_000863 | 2026-09-02 05:43:40 | 1 |
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 NIF Resources search. From here you can search through a compilation of resources used by NIF and see how data is organized within our community.
You are currently on the Community Resources tab looking through categories and sources that NIF 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 NIF then you can log in from here to get additional features in NIF 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 NIF 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.
Welcome to the Neuroscience Information Framework Project, designed to serve the biomedical research community. NIF maintains the largest searchable collection of neuroscience data, the largest catalog of biomedical resources, and the largest ontology for neuroscience on the web. We welcome all feedback and suggestions and are actively looking for resource providers to make their resources accessible through NIF. Learn about the tools available to help you share your data and discover a dynamic inventory of Web-based neuroscience resources.
