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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Heterogeneity through Discriminative Analysis Resource Report Resource Website 10+ mentions |
Heterogeneity through Discriminative Analysis (RRID:SCR_021958) | data analysis software, data processing software, software application, software resource | Software tool as novel non-linear learning algorithm for simultaneous binary classification and subtype identification. Can handle imaging and non-imaging data and can find applications in exploratory analyses other than clustering of brain images.Software performs clustering of heterogenous disease patterns within patient group. | simultaneous binary classification, subtype identification, brain images clustering, heterogenous disease patterns clustering | NIA R01 AG014971 | PMID:26923371 | SCR_021958 | HYDRA | 2026-09-05 06:29:48 | 15 | |||||||||
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Inside NIA: A Blog for Researchers Resource Report Resource Website |
Inside NIA: A Blog for Researchers (RRID:SCR_012812) | blog, data or information resource, narrative resource | Blog intended for grantees of the National Institute on Aging (NIA) at the NIH, as well as applicants for funding, those with an application in mind, application reviewers, and students pursuing careers in research on aging and Alzheimer's disease. | funding policy, research priority, new program, alzheimer, blog |
is used by: NIF Data Federation is used by: Integrated Blogs has parent organization: National Institute on Aging |
Aging, Alzheimer's disease | NIA | Public, Except where subject to copyright restrictions, Acknowledgement required | nlx_152701 | SCR_012812 | Inside NIA | 2026-09-05 06:32:03 | 0 | ||||||
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MIITRA atlas Resource Report Resource Website 1+ mentions |
MIITRA atlas (RRID:SCR_017566) | atlas, data or information resource | Atlas for studies of older adult brain. Includes T1-weighted template of older adult brain and tissue probability maps. Exhibits high image sharpness, provides higher inter-subject spatial normalization accuracy compared to other standardized templates and similar normalization accuracy to well-constructed study-specific templates. | Older, adult, brain, tissue, probability, map, standardized, template | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | NIA R01 AG052200 | Free, Available for download, Freely available | https://www.nitrc.org/frs/?group_id=1407&release_id=4156 | SCR_017566 | Multichannel Illinois Institute of Technology and Rush University Aging atlas | 2026-09-05 06:32:15 | 4 | |||||||
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PAGODA Resource Report Resource Website |
PAGODA (RRID:SCR_017099) | data analysis software, data processing software, software application, software resource | Software tool for analyzing transcriptional heterogeneity to detect statistically significant ways in which measured cells can be classified. Used to resolve multiple, potentially overlapping aspects of transcriptional heterogeneity by testing gene sets for coordinated variability among measured cells. | heterogeneity, transcriptional, detect, statistically, cell, classified, overlapping, gene, set, coordinated, variability |
is related to: pagoda2 has parent organization: Harvard University; Cambridge; United States |
Ellison Medical Foundation ; NIA T32 AG00216; NIMH U01 MH098977; NINDS R01 NS084398; NSF DGE1144152; NSF NSF-14-532 |
PMID:26780092 | Free, Available for download, Freely available | http://hms-dbmi.github.io/scde/index.html | SCR_017099 | Pathway And Gene set OverDispersion Analysis, pagoda | 2026-09-05 06:28:18 | 0 | ||||||
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proMODMatcher Resource Report Resource Website 1+ mentions |
proMODMatcher (RRID:SCR_017219) | data analysis software, data processing software, software application, software resource | Software tool as probabilistic multi omics data matching procedure to curate data, identify and correct data annotation and errors in large databases. Used to check potential labeling errors in profiles where number of cis relationships is small, such as miRNA and RPPA profiles. | probabilistic, matching, curate, omic, data, identify, correct, error, large, database, analysis, sample, label, bio.tools |
is listed by: bio.tools is listed by: Debian is related to: Icahn School of Medicine at Mount Sinai; New York; USA |
NHGRI U01 HG008451; NIAID U19 AI118610; NIA R01 AG046170 |
biotools:modmatcher | https://bio.tools/modmatcher | SCR_017219 | probabilisticMulti Omics DataMatcher | 2026-09-05 06:28:20 | 1 | |||||||
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Michigan Imputation Server Resource Report Resource Website 100+ mentions |
Michigan Imputation Server (RRID:SCR_017579) | data access protocol, service resource, software resource, web service | 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 | Austrian Science Fund ; European Community Seventh Framework Programme ; NHGRI HG000376; NHGRI HG007022; NHLBI HL117626; NIA ; NIDA R01 DA037904 |
PMID:27571263 | Restricted | https://github.com/genepi/imputationserver | SCR_017579 | Next Generation Genotype Imputation Service | 2026-09-05 06:28:26 | 196 | ||||||
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Penn Hippocampus Atlas Resource Report Resource Website 1+ mentions |
Penn Hippocampus Atlas (RRID:SCR_000421) | Penn Hippocampus Atlas | atlas, data or information resource | Atlas of segmented and normalized high-resolution postmortem MRI of the human hippocampus. Additional data (raw images) is available through the SCM link. It requires knowing how to use CVS. | magnetic resonance, nifti, hippocampus, mri, postmortem |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University of Pennsylvania; Philadelphia; USA |
NIA AG027785; NINDS NS061111; NINDS NS058386; NINDS NS045839 |
PMID:18840532 | Free, Available for download, Freely available | nlx_155920 | SCR_000421 | 2026-09-05 06:31:10 | 2 | ||||||
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eMouseAtlas Resource Report Resource Website 50+ mentions |
eMouseAtlas (RRID:SCR_002981) | EMAP, EMA, EMAGE, MAP, EMAP, MAP2.0, | atlas, data or information resource, database | Detailed multidimensional digital multimodal atlas of C57BL/6J mouse nervous system with data and informatics pipeline that can automatically register, annotate, and visualize large scale neuroanatomical and connectivity data produced in histology, neuronal tract tracing, MR imaging, and genetic labeling. MAP2.0 interoperates with commonly used publicly available databases to bring together brain architecture, gene expression, and imaging information into single, simple interface.Resource to visualise mouse development, identify anatomical structures, determine developmental stage, and investigate gene expression in mouse embryo. eMouseAtlas portal page allows access to EMA Anatomy Atlas of Mouse Development and EMAGE database of gene expression.EMAGE is freely available, curated database of gene expression patterns generated by in situ techniques in developing mouse embryo. EMA, e-Mouse Atlas, is 3-D anatomical atlas of mouse embryo development including histology and includes EMAP ontology of anatomical structure, provides information about shape, gross anatomy and detailed histological structure of mouse, and framework into which information about gene function can be mapped. | Mouse Atlas Project, molecular neuroanatomy resource, adult mouse, mouse, brain, c57bl/6j, magnetic resonance microscopy, diffusion-weighted image, blockface imaging, immunohistochemistry, in situ hybridization, neuroanatomy, mri, dti, brain architecture, gene expression, neuroimaging, ontology, connectivity, histology, neuronal tract tracing, genetic labeling, newborn mouse, experimental protocol, bio.tools, ontology, histology, mouse embryo, gene expression, gxd query interface, digital anatomical atlas, spatial region, domain, 2d, 3d, virtual embryo model, development atlas, standard anatomical nomenclature, developmental staging criteria, spatially mapped, anatomy nomenclature, molecular neuroanatomy resource, embryonic mouse, FASEB list |
is related to: GUDMAP Ontology is related to: EMAGE Gene Expression Database is related to: EMAGE Gene Expression Database is related to: HUDSEN is related to: Mouse Genome Informatics: The Mouse Gene Expression Information Resource Project has parent organization: University of Edinburgh; Scotland; United Kingdom has parent organization: Jackson Laboratory is parent organization of: Minimal Anatomical Terminology |
Medical Research Council ; NIA ; NIBIB ; NIDA ; NIDCD ; NINDS |
PMID:15043218 PMID:18077470 PMID:16381949 |
Free, Freely available | nif-0000-00038, nif-0000-00505, biotools:emap, SCR_007281, biotools:ma | http://www.emouseatlas.org/emap/home.html, https://bio.tools/emap, https://bio.tools/ma | http://genex.hgu.mrc.ac.uk/, http://www.loni.ucla.edu/MAP/ | SCR_002981 | emouseatlas, e-mouse Atlas, EMAGE Gene Expression Database, EMA, Edinburgh Mouse Atlas of Gene Expression, e-Mouse Atlas, EMA Anatomy Atlas of Mouse Development | 2026-09-05 06:31:19 | 71 | |||
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IADRP Resource Report Resource Website 1+ mentions |
IADRP (RRID:SCR_004043) | IADRP | data or information resource, database | Database that brings together funded Alzheimer's disease (AD) research supported by public and private organizations both in the US and abroad all categorized using the Common Alzheimer's Disease Research Ontology or CADRO. Launched as a joint collaboration between the National Institute on Aging (NIH) and the Alzheimer's Association, IADRP enables users the ability to assess the portfolios of major organizations (currently 30) for areas of overlap as well as areas of opportunities in which to collaborate and coordinate in a collective effort to advance AD research. | late adult human, alzheimer, database |
uses: CADRO has parent organization: Alzheimers Association has parent organization: National Institute on Aging |
Alzheimer's disease, Aging | NIA | PMID:24780512 | The community can contribute to this resource | nlx_158471 | SCR_004043 | International Alzheimer's Disease Research Portfolio, International Alzheimers Disease Research Portfolio | 2026-09-05 06:31:22 | 4 | ||||
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Language Map Experiment Management System Resource Report Resource Website |
Language Map Experiment Management System (RRID:SCR_004562) | Language Map EMS | data or information resource, database | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 11, 2023. An experiment management system for researchers studying language organization in the brain. Data from thirteen patients are available as a public demo. Language Map EMS | fmri, 3d models, anatomy, cortex, data managementas of 2006/11 data from 110 patients in repository., imaging, mri, segmentation, volume | has parent organization: University of Washington; Seattle; USA | Aging | NIMH ; NIDCD ; NIA |
THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-00065 | SCR_004562 | UW Integrated Brain Project Language Map Experiment Management System | 2026-09-05 06:31:24 | 0 | |||||
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ORION Resource Report Resource Website 50+ mentions |
ORION (RRID:SCR_010621) | data processing software, image analysis software, software application, software resource, source code | Project to develop tools that explore single neuron function via sophisticated image analysis. ORION software bridges advanced optical imaging and compartmental modeling of neuronal function by rapidly, accurately, and robustly generating, from structural image data, a cylindrical morphology model suitable for simulating neuronal function. | structural imaging, reconstruction, simulation, functional imaging, multiphoton, confocal | has parent organization: University of Houston; Texas; USA | University of Houston; Texas; USA ; NIA RO1-AG027577; NSF IIS-0431144; NSF IIS-0638875; NSF DMS-0915242 |
Free, Available for download, Freely available | nlx_56302 | http://cbl.uh.edu/ORION/research/overview, http://cbl.uh.edu/ORION/ | SCR_010621 | ORION Research | 2026-09-05 06:30:46 | 57 | ||||||
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Add Health (National Longitudinal Study of Adolescent Health) Resource Report Resource Website 10+ mentions |
Add Health (National Longitudinal Study of Adolescent Health) (RRID:SCR_007434) | Add Health | data or information resource, database | Longitudinal study of a nationally representative sample of adolescents in grades 7-12 in the United States during the 1994-95 school year. Public data on about 21,000 people first surveyed in 1994 are available on the first phases of the study, as well as study design specifications. It also includes some parent and biomarker data. The Add Health cohort has been followed into young adulthood with four in-home interviews, the most recent in 2008, when the sample was aged 24-32. Add Health combines longitudinal survey data on respondents social, economic, psychological and physical well-being with contextual data on the family, neighborhood, community, school, friendships, peer groups, and romantic relationships, providing unique opportunities to study how social environments and behaviors in adolescence are linked to health and achievement outcomes in young adulthood. The fourth wave of interviews expanded the collection of biological data in Add Health to understand the social, behavioral, and biological linkages in health trajectories as the Add Health cohort ages through adulthood. The restricted-use contract includes four hours of free consultation with appropriate staff; after that, there''s a fee for help. Researchers can also share information through a listserv devoted to the database. | adolescent, longitudinal, adult human, interview, social, behavior, health, early adult human, FASEB list | has parent organization: University of North Carolina at Chapel Hill; North Carolina; USA | Aging | NICHD ; NCI ; CDC ; NIAID ; NIMHD ; NIDCD ; NIGMS ; NIMH ; NINR ; NIA ; NIAAA ; NIDA ; NSF ; NIH ; Department of Health and Human Services ; MacArthur Foundation ; Robert Wood Johnson Foundation |
Restricted use | nif-0000-00621 | SCR_007434 | National Longitudinal Study of Adolescent Health | 2026-09-05 06:31:39 | 37 | |||||
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Cell Properties Database Resource Report Resource Website |
Cell Properties Database (RRID:SCR_007285) | CellPropDB | data or information resource, database | A repository for data regarding membrane channels, receptor and neurotransmitters that are expressed in specific types of cells. The database is presently focused on neurons but will eventually include other cell types, such as glia, muscle, and gland cells. This resource is intended to: * Serve as a repository for data on gene products expressed in different brain regions * Support research on cellular properties in the nervous system * Provide a gateway for entering data into the cannonical neuron forms in NeuronDB * Identify receptors across neuron types to aid in drug development * Serve as a first step toward a functional genomics of nerve cells * Serve as a teaching aid | genetics, cellular, molecular, cerebellum, cortex, human, ion channel, mouse, olfactory, invertebrate, mammalian, physiology, rat, receptor, cat, molecular neuroanatomy resource | has parent organization: Yale University; Connecticut; USA | Aging | Multidisciplinary University Research Initiative ; NIMH ; NIA ; NICD ; NINDS ; NIDCD RO1 DC 009977 |
nif-0000-00055 | http://senselab.med.yale.edu/senselab/cellpropdb | SCR_007285 | Cellular Properties Database | 2026-09-05 06:31:39 | 0 | |||||
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Minian Resource Report Resource Website 1+ mentions |
Minian (RRID:SCR_022601) | data analysis software, data processing software, software application, software resource, software toolkit | Software miniscope analysis pipeline that requires low memory and computational demand so it can be run without specialized hardware. Offers interactive visualization that allows users to see how parameters in each step of pipeline affect output. | Miniscope, analysis pipeline, calcium imaging, mouse, Visualization, OpenBehavior |
is listed by: OpenBehavior has parent organization: Icahn School of Medicine at Mount Sinai; New York; USA |
NIA F32AG067640; NIBIB R01EB028166; NIDA R21 DA049568; NIMH DP2MH122399; NIMH R01MH120162; NINDS R01 NS116357; NINDS R03 NS111493; NINDS U01NS094286; NSF 1700408; NSF 1926800; NSF 2046583 |
PMID:35642786 | Free, Available for download, Freely available | https://edspace.american.edu/openbehavior/project/minian/ | SCR_022601 | 2026-09-05 06:30:15 | 6 | |||||||
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Michigan Imputation Server Resource Report Resource Website 1+ mentions |
Michigan Imputation Server (RRID:SCR_023554) | data access protocol, software resource, web service | Web based service for imputation that facilitates access to new reference panels and improves user experience and productivity. Server implements whole genotype imputation workflow using MapReduce programming model for efficient parallelization of computationally intensive tasks. Genotype imputation service using Minimac4. | Genotype imputation, whole genotype imputation workflow, parallelization of computationally intensive tasks, | is related to: MINIMAC | Austrian Science Fund ; European Community Seventh Framework Programme ; NHGRI HG000376; NHGRI HG007022; NHLBI HL117626; NIA ; NIDA R01DA037904 |
PMID:27571263 | Free, Freely available | https://github.com/genepi/imputationserver | SCR_023554 | 2026-09-05 06:30:24 | 9 | |||||||
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microbeMASST Resource Report Resource Website 1+ mentions |
microbeMASST (RRID:SCR_024713) | data access protocol, software resource, web service | Web taxonomically informed mass spectrometry search tool, tackles limited microbial metabolite annotation in untargeted metabolomics experiments. Leveraging database of over 60,000 microbial monocultures, users can search known and unknown MS/MS spectra and link them to their respective microbial producers via MS/MS fragmentation patterns. | Identification of microbial derived metabolites, microbial metabolomics data, microbial metabolite annotation, taxonomy, mass spectrometry search tool, searching tool, bacteria, fungi, metabolomics, microbiome, search known and unknown MS/MS spectra, | is related to: GNPS MASST | Austrian Science Fund ; German Research Foundation ; Korean Government ; Mexican National Council of Science and Technology ; NIAID R01AI167860; NIA U19AG063744; NIDDK T32DK007202; NIDDK U01DK119702; NIDDK U24DK133658; NIGMS 1DP2GM137413; NIGMS 1R01GM132649; NIGMS R01GM107550; NIGMS R35GM142938; NIH Office of the Director S10 OD021750; NLM 1R01LM013115; NSF ; Research Council of Norway ; Sao Paulo Research Foundation |
PMID:37577622 | Free, Freely available, | SCR_024713 | 2026-09-05 06:30:34 | 7 | ||||||||
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Alzheimer Disease Preclinical Efficacy Database Resource Report Resource Website 1+ mentions |
Alzheimer Disease Preclinical Efficacy Database (RRID:SCR_021230) | data or information resource, data repository, database, service resource, storage service resource | Publicly available, searchable, data resource that aims to increase transparency, reproducibility and translatability of preclinical efficacy studies of candidate therapeutics for Alzheimer’s disease. Knowledge platform for dissemination of data and analysis to scientists, from academic centers, industry, disease focused foundations. Provides quick access and visibility to integrated preclinical efficacy data from published and unpublished studies. | Integrated preclinical efficacy data, published clinical data, unpublished studies, preclinical efficacy studies, candidate therapeutics, FAIR data | Alzheimer | NIA | Restricted | SCR_021230 | AlzPed | 2026-09-05 06:29:36 | 5 | ||||||||
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ArchR Resource Report Resource Website 100+ mentions |
ArchR (RRID:SCR_020982) | data analysis software, data processing software, software application, software resource, software toolkit | Software R package for processing and analyzing single-cell ATAC-seq data. Used for integrative single cell chromatin accessibility analysis.Provides intuitive, user focused interface for complex single cell analysis, including doublet removal, single cell clustering and cell type identification, unified peak set generation, cellular trajectory identification, DNA element-to-gene linkage, transcription factor footprinting, mRNA expression level prediction from chromatin accessibility and multi-omic integration with single-cell RNA sequencing. | single-cell ATAC-seq data analysis, single-cell ATAC-seq data processing, single cell chromatin accessibility analysis, doublet removal, single cell clustering, cell type identification, unified peak set generation, cellular trajectory identification, transcription factor footprinting | American Society of Hematology Scholar Award ; Defense Advanced Research Project Agency ; International Collaborative Award ; NCI R35 CA209919; NCI U2C CA233311; NHGRI RM1 HG007735; NHGRI UM1 HG009436; NHGRI UM1 HG009442; NIAID U19 AI057266; NIA K99 AG059918; Ray and Dagmar Dolby Family Fund ; Stanford Cancer Institute-Goldman Sachs Foundation Cancer Research Award |
PMID:33633365 | Free, Available for download, Freely available | https://github.com/GreenleafLab/ArchR, https://www.archrproject.com/, https://github.com/GreenleafLab/ArchR_2020 | SCR_020982 | 2026-09-05 06:29:32 | 424 | ||||||||
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AMP-AD Knowledge Portal Resource Report Resource Website 10+ mentions |
AMP-AD Knowledge Portal (RRID:SCR_016316) | AMP AD | data repository, service resource, storage service resource | Repository for distribution of various types of molecular data from human, cell-based and animal model biosamples, analytical results and research tools generated through multiple NIA-supported programs. Currently Portal supports AMP-AD Target Discovery and Preclinical Validation and MOVE-AD Consortia and translational center, MODEL-AD. | multi-omic data, Alezheimer's disease, | is recommended by: National Library of Medicine | NIA | Restricted | SCR_016316 | AMP-AD, AMP-AD Knowledge Portal | 2026-09-05 06:28:06 | 10 | |||||||
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SCDE Resource Report Resource Website 10+ mentions |
SCDE (RRID:SCR_015952) | data analysis software, data processing software, sequence analysis software, software application, software resource | Software package that implements a set of statistical methods for analyzing single-cell RNA-seq data, including differential expression analysis (Kharchenko et al.) and pathway and geneset overdispersion analysis (Fan et al.) | statistic, single, cell, rna, seq, rnaseq, differential, analysis, pathway, gene, geneset, dispersion, overdispersion, bayesian, expression, magnitude | Leukemia and Lymphoma Research UK ; Leukemia and Lymphoma Society ; NHLBI R01 HL097794; NIA K25 AG037596; NIDDK R01 DK050234 |
PMID:24836921 | Free, Available for download | SCR_015952 | 2026-09-05 06:30:07 | 32 |
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