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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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TCAG Resource Report Resource Website 50+ mentions |
TCAG (RRID:SCR_001840) | TCAG | biomaterial manufacture, data or information resource, material analysis service, production service resource, material service resource, topical portal, database, analysis service resource, service resource, portal, biomaterial analysis service, training service resource | Service and training support for academic, government, and private sector scientists worldwide in genomics, including laboratory experimentation, statistical analysis, and comprehensive bioinformatics support, including large-scale genome comparisons, algorithm and tools development, and database curation, annotation and hosting. The Centre for Applied Genomics hosts a variety of databases related to ongoing supported projects: *Autism Chromosome Rearrangement Database *Cystic Fibrosis Mutation Database *The Lafora Progressive Myoclonus Epilepsy Mutation and Polymorphism Database *Database of Genomic Variants *The Chromosome 7 Annotation Project *Human Genome Segmental Duplication Database *Non-Human Segmental Duplication Database Healthy control DNA samples from the Ontario Population Genomics Platform are available. The Biobanking and Databasing Facility provides DNA extraction from lymphoblasts, fibroblasts and other cell types, archiving of white cell pellets, preparation and immortalization of cell lines, and comprehensive databasing and tracking of samples and/or cell lines within the facility. | genomics, publication, link, bioinformatics, genome, research, microarray analysis, gene expression, genotyping, biobanking, statistical analysis, genetic analysis, cytogenomics, dna sequencing, dna synthesis, comparative genomic hybridization, karyotyping, fish mapping, human, mouse, gene expression, biobanking, dna, mutation, genomic variant, chromosome 7, FASEB list | is listed by: One Mind Biospecimen Bank Listing | Healthy control, Autism, Cystic fibrosis, Epilepsy, Polymorphism | Free, Freely available | nif-0000-12519 | SCR_001840 | Centre for Applied Genomics, The Centre for Applied Genomics | 2026-08-07 09:25:19 | 84 | ||||||
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Parkinson's Disease Foundation Resource Report Resource Website |
Parkinson's Disease Foundation (RRID:SCR_001832) | data or information resource, narrative resource, training resource, topical portal, training material, service resource, portal, funding resource, disease-related portal | A U.S. organization which funds Parkinson's disease research and provides materials and services to patients. PDF funds research through: research centers at major universities; early-career investigators that devote their talents to the study of Parkinsons; funding independent investigators through the International Research Grants Program; and collaboration with other organizations on innovative projects. | funding resource, patient resource, parkinson's disease, public advocacy, scientific research | is related to: Parkinsons Center at Dartmouth-Hitchcock Medical Center | Parkinson's disease | Free, Freely available | nif-0000-11759, nif-0000-10397, SCR_002025 | SCR_001832 | 2026-08-07 09:25:18 | 0 | ||||||||
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EarLab Resource Report Resource Website 1+ mentions |
EarLab (RRID:SCR_001798) | EarLab | data or information resource, production service resource, software resource, data analysis service, audio track, software application, database, analysis service resource, service resource | Freely-accessible auditory databases as well as custom designed modeling and data analysis software tools. A fully functional online auditory modeling environment is also available, as well as downloadable models in several languages. The models cover many aspects of auditory function and at many different levels of detail ranging from multi-compartment celluar models to high-level abstractions of large portions of the auditory pathway. Currently a few models are available that can be run online and others are available for downloading. EarLab also provides custom cross-platform software for creating your own distributed auditory modeling environment, as well as software for analyzing the results from experimentation. A database of auditory modules is available for online use or download for the distributed auditory modeling environment, as well as instructions and specifications for creating your own modules. All these databases and custom software tools can be used in a wide variety of hearing research applications. This unique resource provides a wealth of information on auditory processing in humans and other animals. Mathematical models are also provided. | audio, hearing, auditory processing, human, non-human animal, model, ear, sound, auditory model, module, cochlea, middle ear, audiogram | has parent organization: Boston University; Massachusetts; USA | NIDCD R01DC004731 | Free | nif-0000-00101 | http://earlab.bu.edu/ | SCR_001798 | EarLab (at) Boston University, EarLab at Boston University, EarLab: A Digital Warehouse of Auditory Models Data, EarLab: A Virtual Hearing Laboratory, A Digital Warehouse of Auditory Models and Data, EarLab: A Digital Warehouse of Auditory Models and Data | 2026-08-07 09:25:18 | 2 | |||||
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PhosphoSitePlus: Protein Modification Site Resource Report Resource Website 1000+ mentions |
PhosphoSitePlus: Protein Modification Site (RRID:SCR_001837) | PSP | data or information resource, portal, knowledge environment resource | A freely accessible on-line systems biology resource devoted to all aspects of protein modification, as well as other post-translational modifications. It provides valuable and unique tools for both cell biologists and mass spectroscopists. PhosphoSite is a human- and mouse-centric database. It includes features such as: viewing the locations of modified residues on molecular models; browsing and searching MS2 records by disease, tissue, and cell line; submitting lists of peptides to identify previously reported genes; searching by sub-cellular localization, treatment, tissues, cell types, cell lines and diseases, and protein types and protein domains; searching for experimentally-verified kinase substrates and viewing preferred substrate motifs; and viewing MS2 spectra for peptides and sites not previously published. | portal, mass spectroscopist, molecular model, mouse, post translational, subcellular localization, protein modification, post-translational modification, protein phosphorylation, protein structure, protein function, ubiquitinylation, acetylation, cellular component, cell type, visualization, data repository, bio.tools, FASEB list |
is listed by: bio.tools is listed by: Debian is related to: Cytoscape is related to: ConsensusPathDB has parent organization: Cell Signaling Technology |
NCI ; NIAAA R44 AA014848; NIGMS R43 GM65768 |
PMID:22135298 | Free, Freely available | biotools:phosphositeplus, nif-0000-10399 | https://bio.tools/phosphositeplus | SCR_001837 | PhosphoSitePlus, PhosphoSite | 2026-08-07 09:25:18 | 1003 | ||||
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Kidney and Urinary Pathway Knowledge Base Resource Report Resource Website 1+ mentions |
Kidney and Urinary Pathway Knowledge Base (RRID:SCR_001746) | KUPKB | data or information resource, production service resource, data set, data analysis service, analysis service resource, service resource, storage service resource, data repository | A collection of omics datasets (mRNA, proteins and miRNA) that have been extracted from PubMed and other related renal databases, all related to kidney physiology and pathology giving KUP biologists the means to ask queries across many resources in order to aggregate knowledge that is necessary for answering biological questions. Some microarray raw datasets have also been downloaded from the Gene Expression Omnibus and analyzed by the open-source software GeneArmada. The Semantic Web technologies, together with the background knowledge from the domain's ontologies, allows both rapid conversion and integration of this knowledge base. SPARQL endpoint http://sparql.kupkb.org/sparql The KUPKB Network Explorer will help you visualize the relationships among molecules stored in the KUPKB. A simple spreadsheet template is available for users to submit data to the KUPKB. It aims to capture a minimal amount of information about the experiment and the observations made. | kidney, urinary, urine, pathway, molecule, visualizer, gene, protein, mirna, metabolite, mrna, microarray, ortholog, rdf, renal cell, anatomy, animal model, disease, sparql, proteomics, ontology, biomarker, gene expression, physiology, pathology |
is related to: NIDDK Information Network (dkNET) is related to: Gene Expression Omnibus is related to: Gene Ontology is related to: KEGG has parent organization: University of Manchester; Manchester; United Kingdom has parent organization: National Institute of Health and Medical Research; Rennes; France |
Kidney disease | European Union ; FP7 ; ICT-2007.4.4 e-LICO project |
PMID:21624162 | THIS RESOURCE IS NO LONGER IN SERVICE. | nlx_154134 | http://www.e-lico.eu/kupkb | SCR_001746 | Kidney & Urinary Pathway Knowledge Base | 2026-08-07 09:25:17 | 2 | |||
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ExploreDTI Resource Report Resource Website 100+ mentions |
ExploreDTI (RRID:SCR_001643) | ExploreDTI | image processing software, software toolkit, image analysis software, software resource, software application, data processing software | A graphical toolbox developed in Matlab for exploratory diffusion (tensor) MRI and fiber tractography. It includes diffusion reconstruction approaches, analysis and visualization tools for fiber tractography, atlas based segmentation, and connectivity networks. It also provides a wide range of quality assessment and pre-processing tools. Main features: * Visualization of scalar and vector maps of various diffusion tensor properties * Display of principal diffusion vectors, cuboids, and ellipsoids with several color-encodings * Deterministic (streamline) and 'probabilistic' (wild-bootstrap) fiber tractography * Clustering of fiber tracts * Data quality assessment tools * HARDI reconstructions (Q-ball and spherical deconvolution imaging) * Tract-specific measurements * Tract-segment analysis * Motion / distortion correction (with B-matrix rotation!) * Other cool stuff... (see publication link) | diffusion mri, fiber tractography, dti, matlab, visualization, segmentation, connectivity network, quality assessment, pre-processing |
is related to: Diffusion MRI of Traumatic Brain Injury has parent organization: Utrecht University; Utrecht; Netherlands |
Free, Freely Available | nlx_153916 | SCR_001643 | Explore DTI | 2026-08-07 09:25:15 | 320 | |||||||
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Connectome Mapping Toolkit Resource Report Resource Website 10+ mentions |
Connectome Mapping Toolkit (RRID:SCR_001644) | Connectome Mapping Toolkit | data or information resource, software toolkit, image processing software, image analysis software, software resource, software application, data set, data management software, data processing software | A Python-based open source toolkit for magnetic resonance connectome mapping, data management, sharing, visualization and analysis. The toolkit includes the connectome mapper (a full DMRI processing pipeline), a new file format for multi modal data and metadata, and a visualization application. | magnetic resonance, connectome, mapping, data management, data sharing, visualization, analysis, connectome mapper, processing pipeline, python, connectomics, multi-modal, network analysis, neuroimaging, neuroinformatics tool, mri, knowledge-base, semantic, technology, mapping, source code |
is related to: Diffusion MRI of Traumatic Brain Injury has parent organization: University of Lausanne; Lausanne; Switzerland has parent organization: Ecole Polytechnique Federale de Lausanne; Lausanne; Switzerland is parent organization of: Connectome Viewer |
Swiss National Science Foundation 33CM30-124089 | PMID:21713110 | Free, Available for download, Freely available | nlx_153920 | http://www.cmtk.org/, http://www.connectome.ch/ | SCR_001644 | 2026-08-07 09:25:15 | 10 | |||||
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Diffusion Tensor Imaging ToolKit Resource Report Resource Website 10+ mentions |
Diffusion Tensor Imaging ToolKit (RRID:SCR_001642) | DTI-TK | software toolkit, image analysis software, software resource, software application, data processing software | A spatial normalization and atlas construction toolkit optimized for examining white matter morphometry using DTI data with special care taken to respect the tensorial nature of the data. It implements a state-of-the-art registration algorithm that drives the alignment of white matter (WM) tracts by matching the orientation of the underlying fiber bundle at each voxel. The algorithm has been shown to both improve WM tract alignment and to enhance the power of statistical inference in clinical settings. A 2011 study published in NeuroImage ranks DTI-TK the top-performing tool in its class. Key features include: * open standard-based file IO support: NIfTI format for scalar, vector and tensor image volumes * tool chains for manipulating tensor image volumes: resampling, smoothing, warping, registration & visualization * pipelines for WM morphometry: spatial normalization & atlas construction for population-based studies * built-in cluster-computing support: support for open source Sun Grid Engine (SGE) * Interoperability with other popular DTI tools: AFNI, Camino, FSL & DTIStudio * Interoperability with ITK-SNAP: support multi-modal visualization and segmentation | dti, visualization, segmentation, resampling, smoothing, warping, registration, spatial normalization, atlas construction, analysis, atlas application, intersubject, image-to-template, analyze, nifti-1, macos, linux |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: Diffusion MRI of Traumatic Brain Injury is related to: Camino is related to: MRI Studio has parent organization: University of Pennsylvania; Philadelphia; USA has parent organization: SourceForge |
NIBIB 1R03EB009321-01 | Free, Available for download, Freely available | nlx_153914 | http://www.nitrc.org/projects/dtitk | SCR_001642 | 2026-08-07 09:25:15 | 25 | ||||||
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Camino Resource Report Resource Website 50+ mentions |
Camino (RRID:SCR_001638) | Camino | image processing software, software toolkit, software resource, software application, data processing software | Free, open-source, object-oriented software package for analysis and reconstruction of Diffusion MRI data, tractography and connectivity mapping. The toolkit implements standard techniques, such as diffusion tensor fitting, mapping fractional anisotropy and mean diffusivity, deterministic and probabilistic tractography. It also contains more specialized and cutting-edge techniques, such as Monte-Carlo diffusion simulation, multi-fibre and HARDI reconstruction techniques, multi-fibre PICo, compartment models, and axon density and diameter estimation. Camino has a modular design to enable construction of processing pipelines that include modules from other software packages. The toolkit is primarily designed for unix platforms and structured to enable simple scripting of processing pipelines for batch processing. Most users use linux, MacOS or a unix emulator like cygwin running under windows. However, the core code is written in Java and thus is simple to call from other platforms and programming environments, such as matlab running under unix or windows. | diffusion mri, reconstruction, processing, dti, tractography, connectivity mapping |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: Diffusion MRI of Traumatic Brain Injury is related to: CAMINO-TRACKVIS is related to: Diffusion Tensor Imaging ToolKit has parent organization: University College London; London; United Kingdom |
Free, Available for download, Freely available | nlx_153907 | http://www.nitrc.org/projects/camino | SCR_001638 | UCL Camino Diffusion MRI Toolkit | 2026-08-07 09:25:15 | 63 | ||||||
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openSNP Resource Report Resource Website 10+ mentions |
openSNP (RRID:SCR_001636) | openSNP | data or information resource, software resource, source code, database, service resource, storage service resource, data repository | Database of raw data from people who have shared their direct-to-customer (DTC) genetic results from 23andMe, deCODEme or FamilyTreeDNA. Logged-In users can search the database for users with specific phenotypes and mass-download all corresponding SNP-datasets. This allows you to get datasets like All genotyping files of openSNP-users that have Alzheimer and the corresponding control group. They are currently working on providing API-access. You can also use JSON to get access to openSNP-data and some other ways: If you want to automate the file-downloads for a given phenotype the RSS-feeds could help you. Inside the RSS-XML there are 2 flags you could use to automatically create correct genotype-groups: gives you the variation of this user at the phenotype you are looking at and gives you the download link. If you were genotyped by 23andMe, deCODEme or FamilyTreeDNA (contact them regarding others) you can upload the raw genotype data which you can download from your DTC test provider. The data will then be openly available for the world to see and download. They also parse these SNPs and annotate them. For annotation they include the manually curated SNPedia and find Open Access primary publications which appear in the journals of The Public Library of Science (PLoS), an Open Access publishing group. Additionally they screen Mendeley, a crowd-sourced repository of scientific publications. You can also publish some of your phenotypes so some day it might get possible to associate some SNPs with phenotypes. You can also share your knowledge about SNPs and phenotypes with other users and can socialize. | SNP, genotype, phenotype, snp, genetic variation, disease, trait, genetics, genome wide association study, crowdsourcing, data set | is related to: MONARCH Initiative | PMID:24647222 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_153904 | SCR_001636 | 2026-08-07 09:25:15 | 17 | |||||||
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Diffusion MRI of Traumatic Brain Injury Resource Report Resource Website |
Diffusion MRI of Traumatic Brain Injury (RRID:SCR_001637) | Diffusion MRI of TBI | data or information resource, portal, topical portal | Project to define a roadmap for diffusion MR imaging of traumatic brain imaging and design an infrastructure to implement the recommendations and tested to ensure feasibility, disseminate results, and facilitate deployment and adoption. The research roadmap and infrastructure development will concentrate on three areas: 1) standardization of diffusion imaging methodology, 2) trial design and patient selection for acute or chronic therapy, and 3) development of multi-center collaborations and repositories for evaluating whether advanced diffusion imaging does improve decision making and TBI patients' outcomes. # DTI MRI reproducability: One of the major areas of investigation in this project is to study the reproducibility of data acquisition and image analysis algorithms. Understanding reproducibility defines a base level of deviation from which scans can be analyzed with statistical significance. As part of this work they are also developing site qualification criteria with the intention of setting limits on the MR system minimal performance for acceptable use in TBI evaluation. # Infrastructure for image storage, analysis and visualization: There is a continuing need to refine and extend software methods for diffusion MRI data analysis and visualization. Not only to translate tools into clinical practice, but also to encourage continuation of the innovation and development of new tools and techniques. To deliver upon these goals they are designing and implementing a storage and computational infrastructure to provide access to shared datasets and intuitive interfaces for analysis and visualization through a variety of tools. A strong emphasis has been placed on providing secure data sharing and the ability to add community defined common data elements. The infrastructure is built upon a Software-as-a-Service model, in which tools are hosted and managed remotely allowing users access through well-defined interfaces. The final service will also facilitate composition or orchestration of workflows composed of different analysis and processing tasks (for example using LONI or XNAT pipelines) with the ultimate goal of providing automated no-click evaluations of diffusion MRI data. # Tool development: The final aspect of this project aims to facilitate and encourage tool development and contribution. By providing access to open datasets, they will create a platform on which tool developers can compare and improve and their tools. When tools are sufficiently mature they can be exposed in the infrastructure mentioned above and used by researchers and other developers. | diffusion tensor imaging, diffusion mri, standard specification, image repository, analysis, visualization, data sharing, common data element, service resource, data set |
is related to: vIST/e is related to: Camino is related to: DTI and Fibertools Software Package is related to: Diffusion Tensor Imaging ToolKit is related to: ExploreDTI is related to: Connectome Mapping Toolkit is related to: TORTOISE is related to: MITK Diffusion is related to: MRtrix is related to: MIPAV: Medical Image Processing and Visualization is related to: DTI Blog is related to: FSL has parent organization: University of Chicago; Illinois; USA |
Traumatic brain injury | NINDS | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_153906 | SCR_001637 | 2026-08-07 09:25:15 | 0 | ||||||
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Phelan-McDermid Syndrome Foundation Resource Report Resource Website 10+ mentions |
Phelan-McDermid Syndrome Foundation (RRID:SCR_001707) | PMSF | data or information resource, community building portal, topical portal, portal, funding resource, disease-related portal | The Phelan-McDermid Syndrome Foundation, established in 2002, is a 501(c)3 nonprofit group that provides support services for those who have family members affected by 22q13 Deletion Syndrome / Phelan-McDermid Syndrome. It also raises money to further awareness of the syndrome through research and sponsoring an international conference every two years that brings together families, researchers and therapists. The Foundation facilitates connections between families through networking, communications and support services. We also build alliances with other rare diseases groups to expand our reach and exposure. The syndrome, which affects families worldwide, is a rare genetic occurrence and is the result of a damaged or missing protein on the 22nd chromosome. Our Foundation works with researchers who are looking into the cause and possible cure for the syndrome. PMSF's grants and fellowships program is intended to encourage research projects that will advance the development of treatments and cures for PMS. Our mission is to bring together everyone affected by 22q13 Deletion Syndrome/Phelan-McDermid Syndrome to help them through the challenges they face every day and to raise awareness in the medical and research communities. | 22q13 deletion syndrome, phelan-mcdermid syndrome, rare disease, genetic, meeting, child, chromosome 22, treatment, therapy, research, grant, fellowship | is parent organization of: Phelan-McDermid Syndrome International Registry | Phelan-McDermid Syndrome | Free, Freely Available | nif-0000-10203 | SCR_001707 | 2026-08-07 09:25:17 | 33 | |||||||
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wikiCancer Resource Report Resource Website 1+ mentions |
wikiCancer (RRID:SCR_001824) | wikiCancer | data or information resource, topical portal, patient-support portal, portal, disease-related portal | A place where people connected to cancer can share real-life experiences -- fears, insights, stories, and advice. Adding perspectives is easy, and every contribution builds the site into a more valuable and unique community resource. Content, resources, and support on wikiCancer: * Just been diagnosed with cancer? * Living with cancer * For cancer survivors * How to support someone with cancer * Connect with other cancer patients, survivors, family and caregivers | wiki | Cancer | Free, Freely available | nlx_15428 | SCR_001824 | 2026-08-07 09:25:18 | 2 | ||||||||
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Diabetes Disease Portal Resource Report Resource Website |
Diabetes Disease Portal (RRID:SCR_001660) | Diabetes Disease Portal | data or information resource, data set, topical portal, portal, disease-related portal | An integrated resource for information on genes, QTLs and strains associated with diabetes. The portal provides easy acces to data related to both Type 1 and Type 2 Diabetes and Diabetes-related Obesity and Hypertension, as well as information on Diabetic Complications. View the results for all the included diabetes-related disease states or choose a disease category to get a pull-down list of diseases. A single click on a disease will provide a list of related genes, QTLs, and strains as well as a genome wide view of these via the GViewer tool. A link from GViewer to GBrowse shows the genes and QTLs within their genomic context. Additional pages for Phenotypes, Pathways and Biological Processes provide one-click access to data related to diabetes. Tools, Related Links and Rat Strain Models pages link to additional resources of interest to diabetes researchers. | gene, quantitative trait locus, strain, diabetic complication, genome, gviewer, genomic, phenotype, pathway, biological process, chromosome, visualization, molecular function, cellular component, synteny |
is related to: NIDDK Information Network (dkNET) is related to: Gene Ontology has parent organization: Rat Genome Database (RGD) |
Type 1 diabetes, Type 2 diabetes, Diabetes, Obesity, Hyperlipidemia, Metaboic disease, Hypertension | Free, Freely Available | nlx_153942 | http://rgd.mcw.edu/rgdCuration/?module=portal&func=show&name=diabetes | SCR_001660 | 2026-08-07 09:25:15 | 0 | ||||||
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National VA Parkinson's Disease Consortium Resource Report Resource Website |
National VA Parkinson's Disease Consortium (RRID:SCR_002024) | data or information resource, narrative resource, topical portal, training material, portal, organization portal, disease-related portal | A consortium created to support the provision of optimal care and education for veterans diagnosed with Parkinson's disease and related movement disorders through professional education, collaboration and advocacy. | parkinson's disease, patient care, therapy, treatment center, pd, professional education, disease related portal | is affiliated with: U.S. Department of Veterans Affairs | Parkinson's disease | Public | nif-0000-11756 | SCR_002024 | The National VA Parkinson's Disease Consortium | 2026-08-07 09:25:22 | 0 | |||||||
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NeuroMorpho.Org Resource Report Resource Website 100+ mentions |
NeuroMorpho.Org (RRID:SCR_002145) | data or information resource, database, service resource, storage service resource, data repository | Centrally curated inventory of digitally reconstructed neurons associated with peer-reviewed publications that contains some of the most complete axonal arborizations digitally available in the community. Each neuron is represented by a unique identifier, general information (metadata), the original and standardized ASCII files of the digital morphological reconstruction, and a set of morphometric features. It contains contributions from over 100 laboratories worldwide and is continuously updated as new morphological reconstructions are collected, published, and shared. Users may browse by species, brain region, cell type or lab name. Users can also download morphological reconstructions for research and analysis. Deposition and distribution of reconstruction files ultimately prevents data loss. Centralized curation and annotation aims at minimizing the effort required by data owners while ensuring a unified format. It also provides a one-stop entry point for all available reconstructions, thus maximizing data visibility and impact. | neuron, morphological reconstruction, morphometry, axonal arborization, digital neuronal reconstruction, neuronal reconstruction, neuronal morphology, data sharing, annotation, brain region, neocortex, digital reconstruction, neurogenetics, neurochemistry, neuroscience, neurology, FASEB list |
is used by: NIF Data Federation is used by: BICCN is recommended by: National Library of Medicine is recommended by: NIDDK Information Network (dkNET) is recommended by: NIDDK - National Institute of Diabetes and Digestive and Kidney Diseases is listed by: re3data.org is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: DONE: Detection of Outlier NEurons is related to: NIF Literature is related to: Computational Neurobiology and Imaging Center is related to: Integrated Manually Extracted Annotation is related to: xyz2swc is related to: Allen Institute for Brain Science has parent organization: George Mason University; Virginia; USA is parent organization of: NeuroMorpho.Org species ontology is parent organization of: NeuroMorpho.Org species ontology old |
NINDS R01 NS39600; MURI ONR N000141010198 |
PMID:17728438 PMID:16552417 PMID:18949582 |
Free, Available for download, Freely available | nif-0000-00006, r3d100010107 | http://www.nitrc.org/projects/neuromorpho_org, http://neuromorpho.org/, https://doi.org/10.17616/R3WW2K | SCR_002145 | Neuro Morpho, NeuroMorpho.org, NeuroMorpho | 2026-08-07 09:25:22 | 123 | |||||
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openADAM Resource Report Resource Website |
openADAM (RRID:SCR_002018) | openADAM | data management software, software resource, software application | A web-based database management system for the large amount of genotype data generated from the Affymetrix GeneChip Mapping Array and Genome-Wide Human SNP Array platforms. | php, perl, front end, affymetrix genechip mapping array, affymetrix genome-wide human snp array, data management, affymetrix, snp, genome-wide association |
is listed by: OMICtools has parent organization: SourceForge |
PMID:19117518 | Free, Available for download, Freely available | OMICS_01921 | SCR_002018 | 2026-08-07 09:25:20 | 0 | |||||||
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SurfRelax Resource Report Resource Website 1+ mentions |
SurfRelax (RRID:SCR_002139) | SurfRelax | image processing software, image analysis software, software resource, software application, data processing software | Set of programs and Tk/Tcl scripts, with a GUI wrapper, for extracting the inner and outer cortical surfaces from a T1-weighted MR image of the human brain. It is based on the TFI C++ library and is written for a Unix-based environment (specifically 64-bit and 32-bit versions of Ubuntu). As a courtesy to Apple users a version for Apple/X11 is maintained but the OS X version will always lag the Linux version; also, because some of the third-party libraries SurfRelax relies on may not be supported in or compatible with future versions of OS X, there is no guarantee that the OS X version will be supported indefinitely. Although in principle SurfRelax could be run under Windows (using Cygwin), because of the difficulties of maintaining multiple platforms and the limited support libraries available under Cygwin, there will no longer be support for SurfRelax on this platform. The surfaces are guaranteed to be topologically equivalent to a sphere, thereby obviating the need for handle removal. SurfRelax requires no user intervention, although minor manual editing is recommended for optimal results (normally less than 10 minutes per hemisphere). SurfRelax has several properties that compare favorably with other software packages for surface reconstruction: * Free software - The binaries (written in C++ and Tcl/Tk) are in the public domain. The source code will be released once legacy code issues have been resolved (i.e. replacing with GPL code). * Uses standard public file formats: Analyze file format (SPM/FSL-compatible) for volumes and OOGL OFF binary format for surfaces (see www.geomview.org (http://www.geomview.org/docs/html/geomview_26.html#OOGLRef)) * Combines advantages of volumetric and surface-based methods for surface generation * Correct topology of output surface guaranteed * Requires little or no user intervention - no need for manual handle removal * Relatively robust to noise - multi-scale method compensates for partial volume effects and intensity inhomogeneities * Relatively fast (an entire brain is segmented, extracted and unfolded in less than 2 hours of CPU time) * Powerful editing and visualization tools for volumes and surfaces * Readily extendable - for instance for use with monkey brains or children's brains * Can be used to visualize functional data from SPM or FSL * Includes tools for integration with Stanford's VISTASOFT tools for FMRI data analysis (white.stanford.edu) | brain, mri, anatomical mri, cortical surface model, functional, segmentation, surface analysis, visualization, volume, surface reconstruction, child, adult, t1-weighted mr image |
is listed by: Biositemaps has parent organization: University of London; London; United Kingdom |
THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-00347 | http://www.cns.nyu.edu/~jonas/software.html | SCR_002139 | 2026-08-07 09:25:22 | 6 | |||||||
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National Parkinson Foundation Resource Report Resource Website 10+ mentions |
National Parkinson Foundation (RRID:SCR_002017) | data or information resource, topical portal, portal, funding resource, disease-related portal | The mission of the National Parkinson Foundation is to improve the quality of care for people with Parkinson's disease through research, education and outreach. NPF funds research through four main programs: the Centers of Excellence Network, which focuses on clinical studies of new therapeutic approaches; the Parkinson's Outcomes Project, a large clinical study of Parkinson's disease; the Grants/Clinical Research Fund, which provides funding to individual researchers; and fellowship awards, which are used to train neurologists in the movement disorder specialty. | parkinson's disease, parkinson's disease online community, parkinson's disease organization, pd, disease related portal, funding resource | Parkinson's Disease | Public, Funding available to researchers | nif-0000-11702 | SCR_002017 | NPF | 2026-08-07 09:25:20 | 35 | ||||||||
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AutDB Resource Report Resource Website 50+ mentions |
AutDB (RRID:SCR_001872) | AutDB | data or information resource, database, service resource, storage service resource, data repository | Curated public database for autism research built on information extracted from the studies on molecular genetics and biology of Autism Spectrum Disorders (ASD). The genetic information includes data from linkage and association studies, cytogenetic abnormalities, and specific mutations associated with ASD. New gene submissions are welcome. Modules: * Human Gene: thoroughly annotated list of genes that have been studied in the context of autism, with information on the genes themselves, relevant references from the literature, and the nature of the evidence. Uniquely, SFARI Gene incorporates information on both common and rare variants. * Animal Model: information about lines of genetically modified mice that represent potential models of autism. This information includes the nature of the targeting construct, the background strain and, most importantly, a thorough summary of the phenotypic features of the mice that are most relevant to autism. * Protein Interaction (PIN): compilation of all known direct protein interactions for those gene products implicated in autism. It presents both graphical and tabular views of interactomes, highlighting connections between autism candidate genes. Each protein interaction is manually verified by consultation with the primary reference. * Copy Number Variant (CNV): a parallel resource providing genetic information about all known copy number variants linked to autism. * Gene Scoring: includes a "score" for each autism candidate gene, based on an assessment of the strength of human genetic evidence. | duplication, gene, genetic syndrome, genetic variation, allelic, autism, autism spectrum disorder, deletion, molecular function, molecular genetics, single-gene disruption, genetic association, genetic variation, allelic variant, copy number variant, cytogenetic, disruption, idiopathic asd, monogenic, mutation, polymorphism, human, animal model, mouse, protein interaction, sfari gene, phenotype, protein interaction, gene scoring, systems biology |
is listed by: NIF Data Federation is listed by: 3DVC is related to: Integrated Manually Extracted Annotation has parent organization: SFARI - Simons Foundation Autism Research Initiative |
Autism Spectrum Disorder, Autism | MindSpec: Informatics for Neurodevelopmental Conditions | PMID:19015121 | Free, Freely available | nif-0000-02587 | http://www.mindspec.org/products/autdb/, https://gene.sfari.org/autdb/ | http://autism.mindspec.org/autdb/ | SCR_001872 | AutDB - An Interface to Autism Research, Simons Foundation Autism Research Initiative Gene: Autism Database, SFARI Gene: AutDB, SFARI Gene, AutDB: a Genetic Database for Autism Spectrum Disorders | 2026-08-07 09:25:18 | 64 |
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