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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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WormGUIDES Resource Report Resource Website 1+ mentions |
WormGUIDES (RRID:SCR_013733) | atlas, data or information resource | A worm atlas that provides an interactive 4D atlas of nuclear positions, from zygote until hatching which can be used to guide cell identification. The tools enable examination of the connectome during development from integrate knowledge of C. elegans embryogenesis to widely used resources, such as WormAtlas and WormBase. | embryogenesis, development, neural connectivity, diSPIM, 4d atlas, c elegans | has parent organization: Yale University; Connecticut; USA | NIH Office of the Director R24 OD016474 | Free, Public, Requires Java | SCR_014203 | https://orip.nih.gov/comparative-medicine/programs/invertebrate-models, http://www.wormguides.org/wormguides | SCR_013733 | Global Understanding in Dynamic Embryonic Systems | 2026-08-01 12:10:38 | 4 | ||||||
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499 fROI atlas Resource Report Resource Website 50+ mentions |
499 fROI atlas (RRID:SCR_014756) | atlas, data or information resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on June 29,2023. Atlas of functional ROIs (fROIs) containing 499 regions, with extensive gray matter coverage. Atlases are available for download directly from the website. | roi, dmn, fmri, atlas, functional roi, gray matter, grey matter, brain | is related to: 90 fROI atlas | PMID:26068849 | THIS RESOURCE IS NO LONGER IN SERVICE. | SCR_014756 | Willard atlas | 2026-08-01 12:10:39 | 71 | ||||||||
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UManitoba - JHU Functionally Defined Human White Matter Atlas Resource Report Resource Website 1+ mentions |
UManitoba - JHU Functionally Defined Human White Matter Atlas (RRID:SCR_015525) | atlas, data or information resource | Probabilistic atlas of human white matter tracts/regions underlying several well-known resting state brain networks. The atlas includes group probability maps for each network, as well as each individual tract that are aligned to both the SPM and MRIStudio ICBM templates. | white matter, dti tractography, resting state brain network, group probability map |
works with: MRI Studio works with: SPM works with: 3D Slicer |
PMID:26578930 | Acknowledgement requested, Freely available, Available for download | SCR_015525 | UManitoba JHU Functionally Defined Human White Matter Atlas, UManitoba-JHU Functionally-Defined Human White Matter Atlas | 2026-08-01 12:10:13 | 1 | ||||||||
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Drosphila Brain Lineage Atlas Resource Report Resource Website 1+ mentions |
Drosphila Brain Lineage Atlas (RRID:SCR_017507) | atlas, data or information resource, service resource | Atlas providing structure and development of Drosophila brain lineages. Used to learn about projection pattern of lineages as first step towards reconstructing and understanding all neurons. | Structure, development, Drosophila, brain, lineage, neuron, brain | has parent organization: University of California at Los Angeles; California; USA | Free, Freely available | SCR_017507 | 2026-08-01 12:10:27 | 1 | ||||||||||
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Pancreatlas Resource Report Resource Website 10+ mentions |
Pancreatlas (RRID:SCR_018567) | atlas, data or information resource | Collection of human pancreas data and images. Platform to share data from human pancreas samples. Houses reference datasets from human pancreas samples, achieved through generosity of organ donors and their families. | Human pancreas data, pancreas image, reference dataset, human pancreas sample, organ donor pancreas data |
lists: Exeter Archival Diabetes Biobank (EADB) is related to: Vanderbilt University; Tennessee; USA is related to: Human Islet Research Network (HIRN) works with: Exeter Archival Diabetes Biobank (EADB) |
Type 1 diabetes, Diabetes, Type 2 diabetes, Cystic Fibrosis-Related Diabetes | Leona M. and Harry B. Helmsley Charitable Trust ; NIDDK DK104211; NIDDK DK108120; NIDDK DK112232; NIDDK DK106755; NIDDK DK20593; NCI CA68485; NIDDK DK58404; NIDDK DK59637; NEI EY08126 |
Free, Freely available | SCR_018567 | 2026-08-01 12:10:21 | 10 | ||||||||
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Allen Brain Atlas expression map of Cre and other drivers Resource Report Resource Website 1+ mentions |
Allen Brain Atlas expression map of Cre and other drivers (RRID:SCR_017510) | atlas, data or information resource | Data detailing transgene expression in Cre and other driver lines for adult and developing brain. Experiments include colorimetric in situ hybridization, fluorescent in situ hybridization and other histological methods. Expression maps of transgenic Cre and other driver lines in mice. | Data, image, transgene, expression, Cre, brain, map, mice | has parent organization: Allen Brain Atlas | Free, Freely available | SCR_017510 | Allen Brain Atlas Data Portal Transgenic Characterization | 2026-08-01 12:10:19 | 8 | |||||||||
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Brain Maps Resource Report Resource Website 1+ mentions |
Brain Maps (RRID:SCR_017314) | atlas, data or information resource | Atlas with global nervous system nomenclature ontology and flatmaps for structure of rat brain. Open access resource for neuroscience community. | atlas, nervous, system, nomenclature, ontology, flatmap, structure, brain, rat | PMID:29277900 | Free, Freely available | SCR_017314 | Brain maps 4.0, Brain maps | 2026-08-01 12:10:40 | 3 | |||||||||
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Adult Zebrafish Brain Atlas Resource Report Resource Website 1+ mentions |
Adult Zebrafish Brain Atlas (RRID:SCR_021732) | AZBA | atlas, data or information resource | Software tool as 3D adult zebrafish brain atlas for digital age. Built by combining tissue clearing, light-sheet fluorescence microscopy, and three-dimensional image registration of nuclear and antibody stains. | 3D adult zebrafish brain atlas, zebrafish brain, adult zebrafish brain, 3D brain | DOI:10.1101/2021.05.04.442625 | Free, Freely available | SCR_021732 | 2026-08-01 12:10:41 | 2 | |||||||||
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Blue Brain Cell Atlas Resource Report Resource Website 1+ mentions |
Blue Brain Cell Atlas (RRID:SCR_019266) | atlas, data or information resource | Describes number, types, and positions of cells in all areas of mouse brain. Provides densities and positions of all excitatory, inhibitory and neuromodulatory neurons, as well as astrocytes, oligodendrocytes and microglia in each of brain regions defined in Allen Mouse Brain Atlas. Users can download cell numbers for statistical analysis, cell positions and types for modeling and visualizing brain areas. Underlying workflow uses imaging data from Allen Institute Common Coordinate Framework to generate cell positions and assign their type using API for data access. | Cell number, cell type, cell position, brain area, mouse brain, neuromodulatory neurons, astrocytes, oligodendrocytes, microglia, imaging data, Allen Institute Common Coordinate Framework |
is used by: BICCN is related to: Allen Mouse Brain Reference Atlas is related to: Allen Institute for Brain Science is provided by: Blue Brain Project |
Free, Freely available | SCR_019266 | The Blue Brain Cell Atlas | 2026-08-01 12:10:23 | 8 | |||||||||
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Enhanced and Unified Anatomical Labeling for Common Mouse Brain Atlas Resource Report Resource Website 1+ mentions |
Enhanced and Unified Anatomical Labeling for Common Mouse Brain Atlas (RRID:SCR_019267) | atlas, data or information resource | Website to visualize and share anatomical labels. Franklin and Paxinos (FP) based anatomical labels in Allen Common Coordinate Framework (CCF). Cell type specific transgenic mice and MRI atlas were used to adjust and further segment labels. New segmentations were created in dorsal striatum using cortico-striatal connectivity data. Anatomical labels were digitized based on Allen ontology, and web-interface was created for easy visualization. These labels provide resource to isolate and identify mouse brain anatomical structures. Open source data sharing will facilitate further refinement of anatomical labels and integration of data interpretation within single anatomical platform. | Anatomical labels, Allen Common Coordinate Framework, Franklin and Paxinos labels, MRI atlas, segment labels, transgenic mice, dorsal striatum, cortico-striatal connectivity data, mouse brain anatomical structure |
is used by: BICCN is related to: Allen Institute for Brain Science |
NIMH R01 MH116176; NINDS R01 NS10 8407; Pennsylvania Department of Health ; NIH Office of the Director R24 OD018559 |
PMID:31699990 | Free, Freely available | SCR_019267 | 2026-08-01 12:10:28 | 2 | ||||||||
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Harvard Tissue Atlas Resource Report Resource Website 1+ mentions |
Harvard Tissue Atlas (RRID:SCR_022829) | HTA | atlas, data or information resource | Gathers together imaging and omic datasets into molecular maps of normal and diseased tissue from human and animal models, with emphasis on cancer. Used to access datasets, educational curriculum and talks, and recommended methods and software. | imaging and omic datasets, molecular maps, normal and diseased tissue, human and animal models, cancer datasets | has parent organization: Harvard University; Cambridge; United States | cancer | Free, Freely available | SCR_022829 | tissue-atlas.org | 2026-08-01 12:10:41 | 2 | |||||||
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Kidney Tissue Atlas Resource Report Resource Website 10+ mentions |
Kidney Tissue Atlas (RRID:SCR_021626) | atlas, data or information resource | Atlas is set of interactive tools built to promote retrieval, exploration, discovery, and analysis of Kidney Precision Medicine Project data by greater research community. Datasets available in repository are combination of raw and processed data from KPMP participant biopsies and reference tissue samples. | Interactive tools, retrieval, exploration, discovery, analysis, Kidney Precision Medicine Project data | is related to: Kidney Precision Medicine Project | Free, Freely available | SCR_021626 | 2026-08-01 12:10:28 | 23 | ||||||||||
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Tabula Sapiens Resource Report Resource Website 10+ mentions |
Tabula Sapiens (RRID:SCR_022314) | atlas, data or information resource | Single cell transcriptomic atlas of multiple organs from individual human donors. Multiple organ, single cell transcriptomic atlas of humans. Molecular reference atlas for cell types of human body. Provides molecular definition of these cell types and reveals many other aspects of human biology, including how same gene can be spliced differently in different cell types, how shared cell types in different tissues can have subtle differences in their identities, and how clones of immune system can be shared across tissues. | Single cell transcriptomic atlas, multiple organs, human donors, molecular reference atlas | diabetes, cancer, hypertension, coronary artery disease, hyperlipidemia, bipolar, depression, deep vein thrombosis, flu, mitral regurgitation, osteopenia, venous thromboembolic disease, lupus, pulmonary hypertension, schizophrehnia, seizure, asthma, atrial fibrillation, asplenia, ezcema, hypercholesterolemia, chronic lung disease | Chan Zuckerberg Initiative | DOI:10.1101/2021.07.19.452956 | Free, Freely available | SCR_022314 | 2026-08-01 12:10:28 | 32 | ||||||||
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Seattle Alzheimer Disease Brain Cell Atlas Resource Report Resource Website 10+ mentions |
Seattle Alzheimer Disease Brain Cell Atlas (RRID:SCR_023110) | SEA-AD | atlas, data or information resource | Open atlas based on single cell profiling technologies with quantitative neuropathology and deep clinical phenotyping from middle temporal gyrus from neurotypical reference brains and brains from SEA-AD aged cohort that span spectrum of Alzheimer’s disease. Produced via collaboration between Allen Institute for Brain Science, University of Washington Alzheimer Disease Research Center and Kaiser Permanente Washington Health Research Institute. | Alzheimer’s disease, single cell profiling, quantitative neuropathology, deep clinical phenotyping, middle temporal gyrus, neurotypical reference brains, SEA-AD aged cohort brains, |
is related to: BRAIN Initiative is related to: Allen Institute for Brain Science is related to: University of Washington; Seattle; USA |
Alzheimer’s disease | NIA U19AG060909 | Free, Freely available | SCR_023110 | 2026-08-01 12:10:29 | 12 | |||||||
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White Adipose Atlas Resource Report Resource Website 1+ mentions |
White Adipose Atlas (RRID:SCR_023625) | atlas, data or information resource | Single cell atlas of human and mouse white adipose tissue. | white adipose tissue, adipose tissue, human, mouse | NIDDK RC2 DK116691; NIDDK 5P30 DK057521; NIDDK F32 DK124914; Italian Ministry of University ; Novo Nordisk Foundation ; Lundbeck Foundation ; NIDDK UM1 DK126185; Sarnoff Cardiovascular Research Foundation Fellowship ; NHGRI 1K08 HG010155; NHGRI 1U01 HG011719; NIDDK P30 DK046200 |
PMID:35296864 | Free, Freely available | SCR_023625 | 2026-08-01 12:10:41 | 5 | |||||||||
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Common Metabolic Disease Genome Atlas Resource Report Resource Website 1+ mentions |
Common Metabolic Disease Genome Atlas (RRID:SCR_022983) | CMDGA | atlas, data or information resource | Component of Accelerating Medicines Partnership Common Metabolic Diseases being developed at University of California San Diego as part of larger consortium of academic, industry and non-profit institutions worldwide. Resource is based on software developed by ENCODE DCC at Stanford University. Atlas provides epigenomics and other functional genomics data to promote understanding of genetic basis of common metabolic diseases. | AMP-CMD, Accelerating Medicines Partnership, Common Metabolic Diseases, epigenomics, functional genomics data, metabolic diseases |
is related to: Common Metabolic Diseases Knowledge Portal is related to: University of California at San Diego; California; USA |
metabolic diseases | Free, Freely available | SCR_022983 | 2026-08-01 12:10:25 | 6 | ||||||||
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Pennsylvania State University SLEIC Resource Report Resource Website 1+ mentions |
Pennsylvania State University SLEIC (RRID:SCR_014922) | PSU SLEIC | service resource, access service resource | Imaging center dedicated to fostering research in the social, behavioral, biological, engineering, and materials sciences where imaging methodologies play a central role. The SLEIC provides the Penn State research community with instrumentation, technological and substantive expertise, educational opportunities, and financial support for conducting magnetic resonance imaging (MRI) and electrophysiology (EEG, ERP) experiments. | access service resource, imaging center, imaging, social science, behavioral science, engineering, material science, biological science | is hosted by: Pennsylvania State University | PMID:27993674 | Available to affiliated researchers | SCR_014922 | Pennsylvania State University Social Life and Engineering Imaging Center, Penn State SLEIC | 2026-08-01 12:05:19 | 1 | |||||||
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Michigan Diabetes Research Center Resource Report Resource Website 1+ mentions |
Michigan Diabetes Research Center (RRID:SCR_015112) | MDRC | core facility, service resource, access service resource | Multidisciplinary unit of the University of Michigan funded by the National Institute of Diabetes and Digestive and Kidney Diseases/National Institute of Health. Promotes new discoveries and enhance scientific progress through the support of basic and clinical research related to diabetes, its complications, and related disorders. Creates environment that supports innovative research; attracts and retains early stage investigators and investigators new to diabetes research; provides core services that leverage funding and unique expertise; fosters interdisciplinary collaborations; raises awareness and interest in fundamental and clinical diabetes research at their institutions, as well as locally, regionally, and nationally. | clinical diabetes research, multidisciplinary research, endocrine and metabolic disorders, |
is listed by: NIDDK Information Network (dkNET) has organization facet: Michigan Diabetes Research Center Administrative Core Facility has organization facet: Michigan Diabetes Research Center Clinical Core Facility has organization facet: Michigan Diabetes Research Center Microscopy and Image Analysis Core Facility has organization facet: Michigan Diabetes Research Center Molecular Genetics Core Facility has organization facet: Michigan Diabetes Research Center Animal Studies Core is organization facet of: Diabetes Research Centers |
Diabetes | NIDDK P30DK020572 | Restricted | http://diabetesresearch.med.umich.edu | SCR_015112 | Michigan Diabetes Research Center (MDRC) | 2026-08-01 12:05:13 | 4 | |||||
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ToxAlert Resource Report Resource Website 1+ mentions |
ToxAlert (RRID:SCR_014907) | software resource | Software tool for high-throughput toxicity prediction; it assists in the early and quick identification of toxic drug candidates. ToxAlert provides probability percentages for different toxicity endpoints such as oncogenicity, mutagenicity, teratogenicity, neurotoxicity or cell toxicity. | toxicity prediction, modeling, oncogenicity, mutagenicity, teratogenicity, neurotoxicity, cell toxicity | Commercial | SCR_014907 | 2026-08-01 12:05:18 | 2 | |||||||||||
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Online Resource for Community Annotation of Eukaryotes Resource Report Resource Website 10+ mentions |
Online Resource for Community Annotation of Eukaryotes (RRID:SCR_014989) | OrcAE, ORCAE | narrative resource, data or information resource, wiki | Online genome annotation tool for validating and correcting gene annotations. OrcAE is community-driven and can be edited by account-holders in the research community. | genome annotation, gene validation, community driven, bio.tools |
is listed by: bio.tools is listed by: Debian has parent organization: Bioinformatics Gent has parent organization: Ghent University; Ghent; Belgium has parent organization: VIB; Flanders; Belgium |
PMID:23132114 | Free, Account required, The research community can contribute to this resource | biotools:orcae | https://bio.tools/orcae | SCR_014989 | Online Resource for Community Annotation of Eukaryotes (OrcAE) | 2026-08-01 12:05:20 | 16 |
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Data set from Kravitz, Owen and Kretizer's 2012 paper "Optogenetic identification of striatal projection neuron subtypes during in vivo recordings."
