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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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KnowledgeSpace Resource Report Resource Website 1+ mentions |
KnowledgeSpace (RRID:SCR_014539) | KS | knowledge environment resource, data or information resource, portal | A community encyclopaedia that links brain research concepts with data, models and literature from around the world. It is an open project where users can participate and contribute to the global research community. | brain, neuron, neuroscience, knowledge environment, global, community | U.S. Department of Health and Human Services ; NIH Blueprint for Neuroscience Research ; NIDA contract HHSN27120080035C |
Public, The research community can contribute to this resource, Beta version | SCR_014539 | Neuroscience Knowledge Space, Knowledge Space | 2026-02-14 02:02:40 | 2 | ||||||||
|
AmoebaDB Resource Report Resource Website 1+ mentions |
AmoebaDB (RRID:SCR_017592) | analysis service resource, data or information resource, production service resource, service resource, database | Integrated genomic and functional genomic database for Entamoeba and Acanthamoeba parasites. Contains genomes of three Entamoeba species and microarray expression data for E. histolytica. Integrates whole genome sequence and annotation and includes experimental data and environmental isolate sequences provided by community researchers. | Genomic, functional, database, Entamoeba, Acanthamoeba, parasite, microarray, expression, data, experimental, isolate, sequence, bio.tools |
is listed by: Debian is listed by: bio.tools is related to: Eukaryotic Pathogen Database Resources |
NIDA ; Department of Health and Human Services ; NIH |
PMID:20974635 | Free, Freely available | biotools:amoebadb, r3d100012457 | https://bio.tools/amoebadb https://doi.org/10.17616/R3PX9Q |
SCR_017592 | 2026-02-14 02:03:27 | 7 | ||||||
|
microMS Resource Report Resource Website 1+ mentions |
microMS (RRID:SCR_017443) | data processing software, software application, image processing software, software resource, image analysis software | Software Python platform for image guided Mass Spectrometry profiling. Provides graphical user interface for automatic cell finding and point based registration from whole slide images. Simplifies single cell analysis with feature rich image processing. | Image, guided, mass, spectrometry, automatic, cell, finding, point, based, registration, whole, slide, image, analysis, processing, BRAIN Initiative |
is recommended by: BRAIN Initiative has parent organization: University of Illinois at Urbana-Champaign; Illinois; USA |
NIDA DA018310; NIMH U01 MH109062; National Science Foundation Graduate Research Fellowship Program ; Springborn Fellowship ; NIGMS T32 GM070421 |
PMID:28593377 | Free, Available for download, Freely available | SCR_017443 | microscopy guided Mass Spectrometry | 2026-02-14 02:03:20 | 1 | |||||||
|
Michigan Imputation Server Resource Report Resource Website 100+ mentions |
Michigan Imputation Server (RRID:SCR_017579) | data access protocol, software resource, web service, service resource | Web server to implement whole genotype imputation workflow for efficient parallelization of computationally intensive tasks. Service for imputation that facilitates access to new reference panels and greatly improves user experience and productivity. Used to find haplotype segments and reference panel of sequenced genomes, assign genotypes at untyped markers, improve genome coverage, facilitate comparison and combination of studies that use different marker panels, increase power to detect genetic association, and guide fine mapping. | Whole, genotype, imputation, workflow, parallelization, task, find, haplotype, segment, reference, panel, sequence, genome, mapping | has parent organization: University of Michigan; Ann Arbor; USA | NHGRI HG007022; NHLBI HL117626; NHGRI HG000376; NIDA R01 DA037904; Austrian Science Fund ; European Community Seventh Framework Programme ; NIA |
PMID:27571263 | Restricted | https://github.com/genepi/imputationserver | SCR_017579 | Next Generation Genotype Imputation Service | 2026-02-14 02:03:29 | 156 | ||||||
|
neurodata Resource Report Resource Website 50+ mentions |
neurodata (RRID:SCR_014264) | data repository, storage service resource, portal, data or information resource, service resource, image repository, software resource, project portal | Project portal dedicated to understand animal and machine intelligence and repository of data and tools. Suite of tools to analyze and graph imaging data. Image and data repository for large, publicly available neuro-specific data files and images. Contains tools for analytics, databases, cloud computing, and Web-services applied to both big neuroimages and big neurographs. | neuroscience, neuroimage, graph explorer, data repository, johns hopkins university, BRAIN Initiative, FASEB list |
is related to: Open Connectome Project has parent organization: Johns Hopkins University; Maryland; USA |
NSF 1707298; NIDA R01 DA036400; NIBIB R01 EB016411; NIH Office of the Director R01 OD19123; NSF ACI-1261715; NSF OCI-1040114; DARPA |
Free, Freely available | https://neurodata.io/tools/ | SCR_014264 | 2026-02-14 02:02:58 | 93 | ||||||||
|
auto-scoring Resource Report Resource Website |
auto-scoring (RRID:SCR_016015) | data visualization software, software resource, data processing software, software application | Visualization software that calculates derived scores for the electronic record system REDCap (Research Electronic Data Capture) to build and manage online surveys and databases. Used in the ABCD-STUDY (Adolescent Brain Cognitive Development - STUDY) report framework. | visual, data, processing, calculate, derived, score, electronic, record, system, data, capture, research | is related to: University of California at San Diego; California; USA | NIDA U24 DA041123 | Free, Available for download | SCR_016015 | 2026-02-14 02:03:11 | 0 | |||||||||
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little-man-task Resource Report Resource Website |
little-man-task (RRID:SCR_016018) | data processing software, data transfer software, data management software, software application, software resource | Software tool to manage data and derived results. It is used for import of derived measures into REDCap (Research Electronic Data Capture). | capture, data, manage, derive, measure, abcd, study | is related to: University of California at San Diego; California; USA | NIDA U24 DA041123 | Free, Available for download | SCR_016018 | 2026-02-14 02:02:57 | 0 | |||||||||
|
Marmoset Brain Connectivity Atlas Resource Report Resource Website 10+ mentions |
Marmoset Brain Connectivity Atlas (RRID:SCR_015964) | data repository, storage service resource, data or information resource, atlas, service resource, database | Brain connectivity atlas to create systematic, digital repository for data on connections between different cortical areas, in primate species. Data repository for connections between different cortical areas in marmoset monkeys. Allows access to data set and enables other interpretations of data, in light of future evolution of knowledge about marmoset cortex. | cortex, marmoset, monkey, cerebral, brain, architecture, primate |
has parent organization: Monash University; Melbourne; Australia has parent organization: Nencki Institute of Experimental Biology; Warsaw; Poland works with: Nencki-Monash template |
Australian Research Council DP140101968; Australian Research Council CE140100007; European Regional Development Fund ; NIDA R01 DA036400; NIMH R01 MH087988; International Neuroinformatics Coordinating Facility |
DOI:10.1038/s41467-020-14858-0 PMID:27099164 |
Free, Freely available | http://marmoset.braincircuits.org, http://analysis.marmosetbrain.org | SCR_015964 | Marmoset Monkey Cerebral Cortex Connectivity Atlas | 2026-02-14 02:02:56 | 26 | ||||||
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redcap-completion Resource Report Resource Website |
redcap-completion (RRID:SCR_016019) | data management software, software resource, software application | Software to measure item level completion in a large REDCap project. It provides a web-interface to review data and it is used in the ABCD project to assess data collection sites for the reached level of completion. | measure, item, level, completion, large, electronic, data, capture, research, review, data, collection |
is related to: University of California at San Diego; California; USA works with: REDCap |
NIDA U24 DA041123 | Free, Available for download | SCR_016019 | 2026-02-14 02:03:11 | 0 | |||||||||
|
timeline-followback Resource Report Resource Website |
timeline-followback (RRID:SCR_016017) | data processing software, data acquisition software, software application, software resource, standalone software | Software to capture subject information about substance use using local copies of external files provided by the abcd-report framework of ABCD. No connection to REDCap is attempted to get events and participant names but local files are read in to supply this information. | capture, subject, information, drug, abuse, local, copy, event, abcd, participant | is related to: University of California at San Diego; California; USA | NIDA U24 DA041123 | Free, Available for download | SCR_016017 | 2026-02-14 02:03:08 | 0 | |||||||||
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aux-file-upload Resource Report Resource Website |
aux-file-upload (RRID:SCR_016026) | data processing software, data transfer software, data management software, software application, software resource | Software application to upload functional MR imaging runs produce auxilary data that can be collected centrally. Connects to a subject database research electronic data capture (REDCap). | upload, data, transmitted, addition, basic, calculation, subject, database, research, electronic, capture, imaging, session, abcd |
is related to: University of California at San Diego; California; USA works with: ABCD Study works with: REDCap |
NIDA U24 DA041123 | Free, Available for download | SCR_016026 | 2026-02-14 02:02:56 | 0 | |||||||||
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FIONA-QC-PHANTOM Resource Report Resource Website 1+ mentions |
FIONA-QC-PHANTOM (RRID:SCR_016024) | data analysis software, software resource, data processing software, software application | Software for online quality control operations performed on Phantom MRI data. It checks the accuracy and reproducibility of data. | application, quality, control, operation, phantom, MRI, data, accurate, reproducible, online, qc |
is related to: University of California at San Diego; California; USA is related to: ABCD Study works with: Diffusion MRI - In-vivo and Phantom Data |
NIDA U24 DA041123 | Free, Available for download | SCR_016024 | 2026-02-14 02:03:11 | 1 | |||||||||
|
nih-ipad-app-end-point Resource Report Resource Website |
nih-ipad-app-end-point (RRID:SCR_016029) | data processing software, data acquisition software, data storage software, software application, software resource | Data collection software for centrally and securely storing data from the NIH iPad application. It allows users to capture results from multiple iPads at a central location. | abcd, collect, tool, central, storing, data, NIH, iPad, application, secure, capture, result, multiple, location | is related to: University of California at San Diego; California; USA | NIDA U24 DA041123 | Free, Available for download | SCR_016029 | 2026-02-14 02:02:57 | 0 | |||||||||
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redcap-to-nda Resource Report Resource Website |
redcap-to-nda (RRID:SCR_016008) | data processing software, data transfer software, data management software, software application, software resource | Software for metadata-driven electronic data capture to export REDCap data dictionaries and data to the NIMH National Data Archive (NDA). Prepares data submissions as csv formatted spreadsheets for data dictionary spreadsheets and for data spreadsheets. | metadata, spreadsheet, format, electronic, capture, export, dictionary, bioinformatic |
is related to: Vanderbilt University; Tennessee; USA is related to: University of California at San Diego; California; USA |
NCRR ; NIDA U24 DA041123 |
Free, Available for download, Freely available | SCR_016010, SCR_016009 | SCR_016008 | Redcap: Research electronic data capture | 2026-02-14 02:02:56 | 0 | |||||||
|
LRPath Resource Report Resource Website 1+ mentions |
LRPath (RRID:SCR_018572) | web service, analysis service resource, production service resource, service resource, data access protocol, software resource | Web tool to perform gene set enrichment testing. Used to test for predefined biologically relevant gene sets that contain more significant genes from experimental dataset than expected by chance. Logistic regression approach for identifying enriched biological groups in gene expression data. | Gene, map, gene set, gene set testing, identifying enriched biologically group, gene expression data, gene expression, data, bio.tools |
is listed by: bio.tools is listed by: Debian |
NIEHS P30 ES06096; NIEHS U01 ES015675; NHGRI R01 HG003749; NLM R01 LM008106; NIDA U54 DA021519 |
PMID:19038984 | Free, Freely available | biotools:lrpath | https://bio.tools/lrpath | SCR_018572 | 2026-02-14 02:03:39 | 4 | ||||||
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CRISPR-ERA Resource Report Resource Website 10+ mentions |
CRISPR-ERA (RRID:SCR_018710) | data access protocol, software resource, web service, service resource | Software comprehensive design tool for CRISPR mediated gene editing, repression and activation. Fast and comprehensive guide RNA design tool for genome editing, repression and activation. Used for automated genome wide sgRNA design. | Design tool, CRISPR mediated gene editing, gene repression, gene activation, guide RNA design, genome, automated genome, sgRNA design, bio.tools |
is listed by: Debian is listed by: bio.tools has parent organization: Stanford University; Stanford; California |
NIH Office of The Director ; NIDCR ; NSFC ; FANEDD ; NIH Office of the Director OD017887; NIDA R01 DA036858 |
PMID:26209430 | Free, Freely available | biotools:CRISPR-ERA | https://bio.tools/CRISPR-ERA | SCR_018710 | CRISP-Editing, Repression and Activation | 2026-02-14 02:03:38 | 10 | |||||
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ProSight Lite Resource Report Resource Website 10+ mentions |
ProSight Lite (RRID:SCR_016908) | data analysis software, software resource, data processing software, software application | Software application for matching a single candidate protein sequence and its modifications against a set of mass spectrometric observations. Used to analyze top-down mass spectrometry data. | matching, single, protein, sequence, proteomics, top-down proteomics, mass, spectrometric, data, bio.tools |
is listed by: bio.tools is listed by: Debian has parent organization: Northwestern University; Illinois; USA is provided by: National Resource for Translational and Developmental Proteomics |
NIGMS R01 GM067193; NIDA P30 DA018310 |
DOI:10.1002/pmic.201400313 | Free, Available for download, Freely available | biotools:prosigh_lite | https://bio.tools/prosight_lite | SCR_016908 | 2026-02-14 02:03:11 | 14 | ||||||
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PrediXcan Resource Report Resource Website 10+ mentions |
PrediXcan (RRID:SCR_016739) | data analysis software, software resource, data processing software, software application | Software tool to detect known and novel genes associated with disease traits and provide insights into the mechanism of these associations. Used to test the molecular mechanisms through which genetic variation affects phenotype. | detect, gene, disease, associate, trait, mechanism, molecular, variation, phenotype | NCI K12 CA139160; NCI F32CA165823; NIMH T32 MH020065; NIMH R01 MH101820; NIMH R01 MH090937; NIGMS U01 GM61393; NIMH P50 MH094267; NIGMS U01 GM092691; NHLBI U19 HL065962; NIDA P50 DA037844; NIDDK P30 DK20595; NIDDK P60 DK20595 |
PMID:26258848 | Free, Available for download, Freely available | SCR_016739 | 2026-02-14 02:03:16 | 23 | |||||||||
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Community Epidemiology Work Group Resource Report Resource Website |
Community Epidemiology Work Group (RRID:SCR_002751) | CEWG | training resource, knowledge environment, data or information resource, book, report, narrative resource, meeting resource | A network composed of researchers from major metropolitan areas of the United States and selected foreign countries which meet semiannually to discuss the current epidemiology of drug abuse. The primary mission of the Work Group is to provide ongoing community-level surveillance of drug abuse through analysis of quantitative and qualitative research data. Through this program the CEWG provides current descriptive and analytical information regarding the nature and patterns of drug abuse, emerging trends, characteristics of vulnerable populations and social and health consequences. Reports Reports are available from the biannual meetings at which the network members discuss current and emerging problems of substance abuse. At the meetings, CEWG members present data on drug abuse from a variety of city, State, Federal, and other sources. These data are enhanced with information gathered through ethnographic research, focus groups, interviews, and other qualitative methods. This integration of quantitative with qualitative data provides invaluable insight into emerging drug use trends. Book In 1998, the National Institute on Drug Abuse (NIDA) published the first edition of Assessing Drug Abuse Within and Across Communities: Community Epidemiology Surveillance Networks on Drug Abuse to share information on establishing drug abuse epidemiology networks at community and State levels. Its purpose is to provide guidelines for establishing epidemiology networks to monitor and assess drug abuse patterns and trends and emerging drug problems at community and State levels to provide a foundation of information for public health response. The second edition differs from the first in format. For each data source, there is a description of the source and database, followed by guidelines on how to access the data (including Web sites) and what to request, and examples of how the data have been used by epidemiology work groups or Federal agencies. NIDA hopes that this revised guide is helpful to agencies, organizations, and researchers that are involved in or wish to establish epidemiology networks in their communities or States. | emerging trend, epidemiology, health consequence, social consequence, substance-related disorder, vulnerable population, work group, drug abuse, pattern, trend, characteristic, population, social, health |
is related to: NIDA Networking Project: Facilitating information exchange and research collaboration has parent organization: National Institute on Drug Abuse |
Drug use disorder | NIDA | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-24121 | SCR_002751 | Community Epidemiology Work Group (CEWG) | 2026-02-14 02:00:26 | 0 | |||||
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Neuroscience Information Framework Resource Report Resource Website 100+ mentions |
Neuroscience Information Framework (RRID:SCR_002894) | NIF | data repository, storage service resource, portal, software development tool, data or information resource, service resource, software application, systems interoperability software, software resource, database | Framework for identifying, locating, relating, accessing, integrating, and analyzing information from neuroscience research. Users can search for and add neuroscience-related resources at NIF portal and receive and RRID to track and cite resources within scientific manuscripts. | neuroscience, bioinformatics, data sharing, metadata standard, ontology, resource, registry, literature, grant, service, software, neuinfo, cerebral circulation, neuron, antibody diversity, neuroanatomy, atlas, bio.tools, bio.tools |
uses: UBERON recommends: Resource Identification Portal is recommended by: National Library of Medicine is listed by: FORCE11 is listed by: OMICtools is listed by: re3data.org is listed by: National Institute of Mental Health is listed by: Debian is listed by: bio.tools is related to: NIDDK Information Network (dkNET) is related to: SciCrunch is related to: SenseLab is related to: Linked Neuron Data is related to: Whole Brain Catalog is related to: FAIR Data Informatics Laboratory is related to: Atlas Ontology Model has parent organization: University of California at San Diego; California; USA is parent organization of: ModelRun is parent organization of: NIF Web Services is parent organization of: NIF Blog is parent organization of: Integrated is parent organization of: Drug Related Gene Database is parent organization of: DISCO is parent organization of: NIF Data Federation is parent organization of: BioMarkers for SMA Data Portal is parent organization of: SciCrunch Registry is parent organization of: NIF Literature is parent organization of: NeuroLex is parent organization of: NIFSTD is parent organization of: Antibody Registry is parent organization of: ConceptMapper is parent organization of: NIF Dysfunction Ontlogy is parent organization of: NIF Subcellular Ontology is parent organization of: OntoQuest is parent organization of: One Mind Biospecimen Bank Listing is parent organization of: ResearchCrossroads is parent organization of: Neuroscience Gateway is parent organization of: NIF Registry Automated Crawl Data |
NIH Blueprint for Neuroscience Research ; NIDA HHSN27120080035C |
PMID:18946742 PMID:22434839 |
Free, Freely available | nif-0000-25673, OMICS_01190, biotools:neuroscinfframework, r3d100010106 | https://www.force11.org/node/4695 https://bio.tools/neuroscinfframework https://bio.tools/neuroscinfframework https://doi.org/10.17616/R31P4H |
SCR_002894 | neuinfo, NIF, neuinfo.org | 2026-02-14 02:00:27 | 128 |
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The NIDDK Information Network (dkNET) serves the needs of basic and clinical investigators by providing seamless access to large pools of data and research resources relevant to the mission of The National Institute of Diabetes Digestive and Kidney Diseases (NIDDK). dkNET is hosted at University of California San Diego, and is supported by NIH NIDDK grant 2U24DK097771-09.
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