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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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OKCAM: Ontology-based Knowledgebase for Cell Adhesion Molecules Resource Report Resource Website |
OKCAM: Ontology-based Knowledgebase for Cell Adhesion Molecules (RRID:SCR_010696) | OKCAM | data or information resource, database, knowledgebase | OKCAM (Ontology-based Knowledgebase for Cell Adhesion Molecules) is an online resource for human genes known or predicted to be related to the processes of cell adhesion. These genes include members of the cadherin, immunoglobulin/FibronectinIII (IgFn), integrin, neurexin, neuroligin, and catenin families. Totally 496 human CAM genes were compiled and annotated. We have mapped these genes onto a novel cell adhesion molecule ontology (CAMO) that provides a hierarchical description of cell adhesion molecules and their functions. It is intended to provide a means to facilitate better and better understanding of the global and specific properties of CAMs through their genomic features, regulatory modes, expression patterns and disease associations become clearer. You may browse by CAM ontology, Chromosomes and Full Gene list. | cell adhesion molecule, gene, cell adhesion, molecule, cadherin, immunoglobulin, fibronectiniii, integrin, neurexin, neuroligin, catenin, chromosome |
has parent organization: Peking University; Beijing; China is parent organization of: CAMO - Cell Adhesion Molecule Ontology |
China Scholarship Council ; NCI P50CA/DA84718; NIDA P50CA/DA84718; China National High-tech 863 Programs 2006AA02A312; China National High-tech 863 Programs 2006AA02Z334; China National High-tech 973 Programs 2007CB946904 |
PMID:18790807 | nlx_81469 | SCR_010696 | OKCAM: Ontology-based Knowledgebase for Human Cell Adhesion Molecules | 2026-08-03 09:34:48 | 0 | ||||||
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Mouse Thalamic Projectome Dataset Resource Report Resource Website |
Mouse Thalamic Projectome Dataset (RRID:SCR_015702) | data or information resource, data set | Data set of thalamo-centric mesoscopic projection maps to the cortex and striatum. The maps are established through two-color, viral (rAAV)-based tracing images and high throughout imaging. | jpeg image data set, projection map, thalamocortical map, viral (rAAV)-based tracing, thalamo-centric mesoscopic projection map | NIH DP2 OD008425; NINDS R01 NS081071; NIDDK T32 DK007680; NINDS P30 NS069305; NIDA R01 DA008163; NINDS U01 NS094247 |
PMID:25086607 PMID:27892854 |
Free | https://github.com/BJHunnicutt/anatomy | SCR_015702 | 2026-08-03 09:36:23 | 0 | ||||||||
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ABCD Study Resource Report Resource Website 500+ mentions |
ABCD Study (RRID:SCR_015769) | ABCD | data or information resource, data set | Long-term study of brain development and child health in the United States. The study tracks subjects' biological and behavioral development through adolescence into young adulthood to determine how childhood experiences (such as sports, videogames, social media, unhealthy sleep patterns, and smoking) interact with each other and with a child’s changing biology to affect brain development and social, behavioral, academic, health, and other outcomes. | clinical study, adolescent, development, research, neuroimaging, brain development |
is related to: DEAP - Data Exploration and Analysis Portal works with: geocoding |
NIDA U24 DA041123; NIDA U24 DA041147; NIDA U01 DA041120; NIDA U01 DA041022; NIDA U01 DA041025; NIDA U01 DA041093; NIDA U01 DA041028; NIDA U01 DA041048; NIDA U01 DA041106; NIDA U01 DA041134; NIDA U01 DA041148; NIDA U01 DA041156; NIDA U01 DA041174; NIDA U24DA041123; NIDA U01 DA041117 |
PMID:29051027 | Available to the scientific community | SCR_015769 | The Adolescent Brain Cognitive Development Study | 2026-08-03 09:36:25 | 670 | ||||||
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Subcellular Location Image Finder Resource Report Resource Website 1+ mentions |
Subcellular Location Image Finder (RRID:SCR_006723) | SLIF | data or information resource, database, image | SLIF finds fluorescence microscope images in on-line journal articles, and indexes them according to cell line, proteins visualized, and resolution. Images can be accessed via the SLIF Web database. SLIF takes on-line papers and scans them for figures that contain fluorescence microscope images (FMIs). Figures typically contain multiple FMIs, to SLIF must segment these images into individual FMIs. When the FMI images are extracted, annotations for the images (for instance, names of proteins and cell-lines) are also extracted from the accompanying caption text. Protein annotation are also used to link to external databases, such as the Gene Ontology DB. The more detailed process includes: segmentation of images into panels; panel classification, to find FMIs; segmentation of the caption, to find which portions of the caption apply to which panels; text-based entity extraction; matching of extracted entities to database entries; extraction of panel labels from text and figures; and alignment of the text segments to the panels. Extracted FMIs are processed to find subcellular location features (SLFs), and the resulting analyzed, annotated figures are stored in a database, which is accessible via SQL queries. | fluorescence, annotation, cell, journal, microscope, protein, subcellular, image, cell line, fluorescence microscope, information retrieval, data mining |
is listed by: Biositemaps has parent organization: Carnegie Mellon University; Pennsylvania; USA |
Commonwealth of Pennsylvania Tobacco Settlement Fund ; National Center for Integrative Biomedical Informatics ; NIGMS R01 GM078622; NIDA U54 DA021519 |
PMID:17990497 | nif-0000-10308 | SCR_006723 | SLIF - Subcellular Location Image Finder | 2026-08-03 09:33:08 | 1 | ||||||
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Harmonized DRG and TG Reference Atlas Resource Report Resource Website |
Harmonized DRG and TG Reference Atlas (RRID:SCR_025720) | reference atlas, atlas, source code, data or information resource, software resource | Harmonized cell atlases using sc/snRNA-seq data obtained from dorsal root ganglia and trigeminal ganglio mammalian datasets. | Harmonized cell atlas, peripheral nervous system, RNA-Seq, dorsal root ganglion, trigeminal ganglia, | is related to: NIH PRECISION Human Pain Network | Pain | Burroughs Wellcome Fund ; Rita Allen Foundation ; Migraine Research Foundation ; Edwards PhD Studentship in Pain Research ; Barry Family Harvard Stem Cell Institute Award ; NINDS U19NS130617; NINDS R01NS119476; NINDS U19NS130608; NINDS U19NS130607; NIDA DP1DA054343; NEI U01EY034709; Teva Pharmaceuticals ; BWH Women’s Brain Initiative ; BWH Neurotechnology Studio ; MGB Gene and Cell Therapy Institute |
DOI:10.1126/sciadv.adj9173 | Free, Freely available | https://github.com/Renthal-Lab/harmonized_atlas | SCR_025720 | 2026-08-03 09:38:36 | 0 | ||||||
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GSEApy Resource Report Resource Website 100+ mentions |
GSEApy (RRID:SCR_025803) | software toolkit, software resource, source code | Software Python package for performing gene set enrichment analysis. Used for characterizing gene expression changes by analysis of large single-cell datasets. | gene set enrichment analysis, characterizing gene expression changes, large single-cell datasets, | NIDA 5U01DA04439902 | PMID:36426870 | Free, Available for download, Freely available | https://github.com/zqfang/GSEApy | SCR_025803 | Gene Set Enrichment Analysis python | 2026-08-03 09:39:12 | 127 | |||||||
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hdWGCNA Resource Report Resource Website 1+ mentions |
hdWGCNA (RRID:SCR_027496) | software toolkit, software resource, source code | Software R package for performing weighted gene co-expression network analysis in high dimensional transcriptomics data such as single-cell RNA-seq or spatial transcriptomics. | weighted gene co-expression network, high dimensional transcriptomics data, single-cell RNA-seq, transcriptomics | NIA 1RF1AG071683; NINDS P01NS084974; NIDA 1U01DA053826; NIA U54 AG054349; NIA 3U19AG068054 |
PMID:37426759 | Free, Available for download, Freely available | SCR_027496 | hd Weighted Gene Co-expression Network Analysis | 2026-08-03 09:39:11 | 6 | ||||||||
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Baby Open Brains Resource Report Resource Website |
Baby Open Brains (RRID:SCR_027836) | data or information resource, data set | Open source resource of manually curated and expert reviewed infant brain segmentations hosted on OpenNeuro.org. and OSF.io. Anatomical MRI data was segmented from 71 infant imaging visits across 51 participants, using both T1w and T2w images per visit. Images showed dramatic differences in myelination and intensities across 1–9 months, emphasizing the need for densely sampled gold-standard segmentations across early life. This dataset provides a benchmark for evaluating and improving pipelines dependent upon segmentations in the youngest populations. As such, this dataset provides a vitally needed foundation for early-life large-scale studies such as HBCD. | MRI, image, dataset of infant brain segmentations, infant brain, brain segmentation, manually curated infant brain segmentations, | uses: OpenNeuro | Bill & Melinda Gates Foundation ; NIMH R01 MH104324; NIMH U01 MH110274; NINDS T32 NS109604; NIDA U01DA041148; NIDA U24DA055330; NIMH R01MH096773; NIMH R01MH125829; NIMH R37MH125829 |
PMID:40813378 | Free, Freely available, | SCR_027836 | , BOBs, Baby Open Brains (BOBs) Dataset | 2026-08-03 09:39:19 | 0 | |||||||
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Patient-Reported Outcomes Measurement Information System Resource Report Resource Website 1000+ mentions |
Patient-Reported Outcomes Measurement Information System (RRID:SCR_004718) | PROMIS | material resource, assessment test provider | Repository of person centered measures that evaluates and monitors physical, mental, and social health in adults and children. | adult, child, assessment, clinical, anger, pain, fatigue, physical function, depression, anxiety, social function, patient reported outcome, health, measure |
is recommended by: National Library of Medicine has parent organization: University of Washington; Seattle; USA |
NCCIH ; NCI ; NHLBI ; NIA ; NIAMS ; NIDA ; NIDCD ; NIDDK ; NIMH ; NINDS ; NINR ; OD |
nlx_143881 | http://www.healthmeasures.net/index.php?option=com_content&view=category&layout=blog&id=71&Itemid=817 | SCR_004718 | PROMIS, Patient Reported Outcomes Measurement Information System | 2026-08-01 12:10:50 | 2881 | ||||||
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zfishbook Resource Report Resource Website 1+ mentions |
zfishbook (RRID:SCR_006896) | zfishbook | biomaterial supply resource, material resource | Collection of revertible protein trap gene-breaking transposon (GBT) insertional mutants in zebrafish with active or cryopreserved lines from initially identified lines. Open to community-wide contributions including expression and functional annotation and represents world-wide central hub for information on how to obtain these lines from diverse members of International Zebrafish Protein Trap Consortium (IZPTC) and integration within other zebrafish community databases including Zebrafish Information Network (ZFIN), Ensembl and National Center for Biotechnology Information. Registration allows users to save their favorite lines for easy access, request lines from Mayo Clinic catalog, contribute to line annotation with appropriate credit, and puts them on optional mailing list for future zfishbook newletters and updates. | gene-breaking transposon, expression-tagged, revertible mutation, gene, transposon, mutation, mutant, brain, muscle, skin, secretory, cardiac, brain line, muscle line, skin line, secretory line, cardiac line, plasmid, expression, functional annotation, gene-breaking transposon line, gene-break transposon mutagenesis, cell line, annotation, embryonic zebrafish, larval zebrafish, bio.tools |
is listed by: One Mind Biospecimen Bank Listing is listed by: Debian is listed by: bio.tools is related to: Addgene is related to: Zebrafish International Resource Center has parent organization: Mayo Clinic Minnesota; Minnesota; USA |
Mayo Clinic Cancer Center ; Mayo Foundation ; NIGMS GM63904; NIDA DA14546; NHGRI HG006431 |
PMID:22067444 | Free, Freely available | biotools:zfishbook, nlx_151613 | https://bio.tools/zfishbook | SCR_006896 | book, z fish book, zfishbook, fish, z | 2026-08-01 12:10:39 | 4 | ||||
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delay-discounting Resource Report Resource Website |
delay-discounting (RRID:SCR_016031) | software resource, software application | Software that performs a delay-discounting task measuring impulsivity. Used in ABCD study. | abcd, delay, discounting, task, measure, impulsivity, software, application, tool | is related to: University of California at San Diego; California; USA | NIDA U24 DA041123 | Free, Available for download | SCR_016031 | 2026-08-01 12:11:06 | 0 | |||||||||
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The Experiment Factory Resource Report Resource Website 1+ mentions |
The Experiment Factory (RRID:SCR_016107) | software resource, software application | Software that generates container-based behavioral experiments for reproducible science. It offers a library of experiments, games, and surveys, support for multiple kinds of databases, and robust documentation for the provided tools. | docker, psychology, behavior, experiment, container, reproducibility, reproducibility, database, library, documentation | NIDA UH2 DA041713; William R. Hewlett Stanford Graduate Fellowship ; National Science Foundation ; NIDA F32DA041773 |
PMID:27199843 | Free, Available for download | SCR_016107 | EXPFACTORY | 2026-08-01 12:10:59 | 1 | ||||||||
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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 | 2026-08-02 09:06:56 | 2 | ||||||||
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Eutectic NTS Resource Report Resource Website |
Eutectic NTS (RRID:SCR_008062) | Eutectic NTS | resource, software resource | THIS RESOURCE IS NO LONGER IN SERVICE, documented August 23, 2016. A hardware and software package with which a scientist could trace the structure of neurons and other neuroscientific features directly from tissue sections or from a stack of their images into a computer. Then it also could edit, merge, filter, display in 3D, and make realistic plots of the structures. The NTS also includes a substantial statistical package that provided many, now standardized, mathematical and statistical summaries that described each neuron and compared one population to another. Additionally, NTS also provided an embryonic electrotonic modeler that simulates and displayes the electrical functioning of a cell. The NTS uses a special purpose graphics display processor called the VDP3 whose output is presented on a very high resolution CRT. During tracing, the VDP3 presents a variable-diameter cursor and other information directly in the microscope and enables tracing at a high spatial resolution and with measurement of process diameters limited only by the microscope''s optics. Control of tracing is done with a 3D joystick that allows easy control of five input variables: X,Y,Z position, cursor diameter, and a numeric tag. Finally, superb 3D interactive displays of completed cells are provided on the VDP3. | embryonic electronic modeler, cell, hardware, microscope, neuron, optics, software, neuronal tree structure, dendritic tree, segmentation, instrument, equipment | NIDA contract HHSN271200577531C | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-10453 | SCR_008062 | The Eutectic Neuron Tracing System | 2026-08-02 09:05:17 | 0 | |||||||
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3D DTI Atlas of the Rat Brain In Postnatal Day 5 14 and Adulthood Resource Report Resource Website 1+ mentions |
3D DTI Atlas of the Rat Brain In Postnatal Day 5 14 and Adulthood (RRID:SCR_009437) | 3D DTI Atlas of the Rat Brain | reference atlas, data or information resource, atlas | 3D DTI anatomical rat brain atlases have been created by the UNC- Chapel Hill Department of Psychiatry and the CAMID research collaboration. There are three age groups, postnatal day 5, postnatal day 14, and postnatal day 72. The subjects were Sprague-Dawley rats that were controls in a study on cocaine abuse and development. The P5 and P14 templates were made from scans of twenty rats each (ten female, ten male); the P72, from six females. The individual cases have been resampled to isotropic resolution, manually skull-stripped, and deformably registered via an unbiased atlas building method to create a template for each age group. Each template was then manually segmented using itk-SNAP software. Each atlas is made up of 3 files, a template image, a segmentation, and a label file. | magnetic resonance, adult rat, newborn rat, infant rat, young rat, sprague dawley, male, female |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University of North Carolina at Chapel Hill; North Carolina; USA |
Control, Normal | UNC Neurodevelopment Disorders Research Center ; NICHD HD 03110; NINDS R41 NS059095; NIDA IP01DA022446-02 |
nlx_155577 | SCR_009437 | 3-Dimensional Diffusion Tensor Imaging (DTI) Atlas of the Rat Brain In Postnatal Day 5 14 and Adulthood | 2026-08-03 09:34:20 | 2 | ||||||
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simple-t1-motion-detection Resource Report Resource Website |
simple-t1-motion-detection (RRID:SCR_016022) | image analysis software, software resource, software application, data processing software | Software to measure the amount of ghosting artifacts in T1-weighted DICOM images. This program reads DICOM images and calculates a measure of the noise structure in one part of the image. | measure, read, image, calculate, noise, structure, part, digital, medicine, information, abcd |
is related to: University of California at San Diego; California; USA works with: ABCD Study |
NIDA U24 DA041123 | Free, Available for download | SCR_016022 | 2026-08-03 09:36:32 | 0 | |||||||||
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Clair library Resource Report Resource Website |
Clair library (RRID:SCR_007019) | Clairlib | software toolkit, software application, data processing software, data analysis software, text extraction software, text-mining software, software resource | A suite of open-source Perl modules intended to simplify a number of generic tasks in natural language processing (NLP), information retrieval (IR), and network analysis (NA). Its architecture also allows for external software to be plugged in with very little effort. The latest version of clairlib is 1.06 which was released on March 2009 and includes about 130 modules implementing a wide range of functionalities. Clairlib is distributed in two forms: * Clairlib-core, which has essential functionality and minimal dependence on external software, and * Clairlib-ext, which has extended functionality that may be of interest to a smaller audience. Much can be done using Clairlib on its own. Some of the things that Clairlib can do are: Tokenization, Summarization, Document Clustering, Document Indexing, Web Graph Analysis, Network Generation, Power Law Distribution Analysis, Network Analysis, RandomWalks on Graphs, Tf-IDF, Perceptron Learning and Classification, and Phrase Based Retrieval and Fuzzy OR Queries. | analysis, information, linguistic, module, network, process, retrieval, perl, natural language processing, information retrieval, network analysis |
is listed by: Biositemaps has parent organization: University of Michigan; Ann Arbor; USA |
NSF IIS 0534323; NSF IIS 0329043; NSF BCS 0527513; NLM R01 LM008106; NIDA U54 DA021519 |
Open unspecified license: Content is available under GNU Free Documentation License 1.3 or later. | nif-0000-33210 | SCR_007019 | Computational Linguistics And Information Retrieval Library | 2026-08-03 09:33:19 | 0 | ||||||
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pearson-central-end-point Resource Report Resource Website |
pearson-central-end-point (RRID:SCR_016034) | data storage software, data acquisition software, software application, data processing software, software resource | Data collection software as an end-point for centrally storing data from the Pearsons Q-Interactive. | data, collection, end-point, central, storage, Pearson Q-Interactive, electronic, abcd | is related to: University of California at San Diego; California; USA | NIDA U24 DA041123 | Free, Available for download | SCR_016034 | 2026-08-03 09:36:33 | 0 | |||||||||
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redcap-hook-framework Resource Report Resource Website |
redcap-hook-framework (RRID:SCR_016028) | data management software, software resource, software application | Software tool to organize and deploy custom hooks in a single project or across the entire instance. It features multi-language support for data entry and survey pages, a bar-code for text fields, and highlighting of rows on data entry and survey pages that have been filled out. | data, organize, deploy, custom, hooks, project, abcd, adolescence | is related to: University of California at San Diego; California; USA | NIDA U24 DA041123 | Free, Available for download | SCR_016028 | 2026-08-03 09:36:16 | 0 | |||||||||
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scite Resource Report Resource Website 1+ mentions |
scite (RRID:SCR_018568) | service resource, software application, text extraction software, data or information resource, software resource | Web tool to classify citation statements from scientific articles using deep learning. Used for discovering and evaluating scientific articles via Smart Citations. | Classify citation statement, context, text extraction, deep learning, citation context, cited claim evidence, ASWG | NIDA R44 DA050155; NSF |
Restricted | SCR_018568 | 2026-08-03 09:37:03 | 2 |
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