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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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HIBAL Resource Report Resource Website |
HIBAL (RRID:SCR_002461) | HIBAL | software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on April 12,2023. FORTRAN code for a simple hydrologic-isotopic-balance model for application to paleolake d18O records. Inputs to the model include discharge, on-lake precipitation, evaporation, and the d18O values of these fluid fluxes. Benson and Paillet (2002) | d18o, hydrologic isotopic balance model, paleolake, hydrology, hydrologic, isotopic, balance, model, fortran, discharge, evaporation, precipitation, fluid flux, record |
is listed by: CINERGI has parent organization: World Data Center for Paleoclimatology |
THIS RESOURCE IS NO LONGER IN SERVICE. | SciRes_000127 | ftp://ftp.ncdc.noaa.gov/pub/data/paleo/softlib/hibal/hibal.txt | SCR_002461 | Hydrologic Isotopic Balance, HIBAL Hydrologic Isotopic Balance Model for Paleolake Systems | 2026-08-29 11:21:05 | 0 | ||||||
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University of Arizona; Arizona; USA Resource Report Resource Website 1+ mentions |
University of Arizona; Arizona; USA (RRID:SCR_002459) | UA | university | Public research university in Tucson, Arizona that offers undergraduate and graduate degree programs in psychology, audiology, speech pathology, and medicine. | public research university, arizona |
is related to: University of Arizona CBC Glassblowing Core Facility is parent organization of: Bio Resource for Array Genes Database is parent organization of: Plantagora is parent organization of: Center for Gamma Ray Imaging is parent organization of: TCW is parent organization of: Bird Base is parent organization of: Arizona Cancer Center Tumor Bank is parent organization of: Tree of Life Web Project is parent organization of: HIV and its Coreceptors is parent organization of: Arizona Center for Education and Research on Therapeutics is parent organization of: AGI is parent organization of: GEISHA - Gallus Expression in Situ Hybridization Analysis: A Chicken Embryo Gene Expression Database is parent organization of: UA Neuroscience GIDP is parent organization of: ChromDB- the chromatin database is parent organization of: Newbler is parent organization of: Arizona Genetics Core is parent organization of: UA Department of Chemistry and Biochemistry Labs and Facilities is parent organization of: University of Arizona Labs and Facilities is parent organization of: UA Infectious Disease Resource Core is parent organization of: University of Arizona Nuclear Magnetic Resonance Core Facility is parent organization of: PhenoGO is parent organization of: FlyBrain is parent organization of: MIRROR: FlyBrain, An Online Atlas and Database of the Drosophila Nervous System is parent organization of: CyVerse is parent organization of: iMicrobe is parent organization of: Arizona University Genetics Core Facility is parent organization of: University of Arizona Molecular Structures Core Facility is parent organization of: University of Arizona Electron Photoemission Spectroscopy and Imaging Laboratory for Observation at the Nanoscale Core Facility is parent organization of: University of Arizona Xray Diffraction Core Facility is parent organization of: University of Arizona Laboratory for Electron Spectroscopy and Surface Analysis Core Facility is parent organization of: University of Arizona W.M. Keck Center for Nano Scale Imaging Core Facility is parent organization of: University of Arizona Electron Paramagnetic Resonance Core Facility is parent organization of: University of Arizona CBC Electronics Core Facility is parent organization of: University of Arizona CBC Machine Shop Core Facility is parent organization of: University of Arizona Imaging Cores Electron Core Facility is parent organization of: University of Arizona Imaging Cores Optical Core Facility is parent organization of: University of Arizona Analytical and Biological Mass Spectrometry Core Facility is parent organization of: University of Arizona Functional Genomics Core Facility is parent organization of: University of Arizona Flow Cytometry and Human Immune Monitoring Shared Resource Core Facility is parent organization of: University of Arizona Phenotyping Core Facility is parent organization of: Planet Microbe is parent organization of: University of Arizona Molecular Clinical Core Facility |
Free | ISNI:0000 0001 2168 186X, grid.134563.6, nlx_13022, Crossref funder ID:100007899, Wikidata:Q503419 | https://ror.org/03m2x1q45 | SCR_002459 | U of A, University of Arizona, UofA | 2026-08-29 11:21:21 | 4 | ||||||
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Blood Group Antigen Gene Mutation Database Resource Report Resource Website |
Blood Group Antigen Gene Mutation Database (RRID:SCR_002297) | BGMUT | data or information resource, data repository, database, service resource, storage service resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on August 23, 2019.BGMUT was database that provided publicly accessible platform for DNA sequences and curated set of blood mutation information. Data Archive are available at ftp://ftp.ncbi.nlm.nih.gov/pub/mhc/rbc/Final Archive. | blood, gene, genetic, allele, allelic, alteration, antigen, blood group, human, mutation, genetic variation, non-human animal, orthologous gene, orthologue, phenotype, bio.tools |
is listed by: bio.tools is listed by: Debian has parent organization: NCBI dbRBC has parent organization: Albert Einstein College of Medicine; New York; USA has parent organization: Roswell Park Comprehensive Cancer Center has parent organization: Medical University of Graz; Graz; Austria has parent organization: Human Genome Variation Society |
Albert Einstein College of Medicine; New York; USA ; David Opochinsky/Blumenfeld Family Fund ; NIH |
PMID:22084196 | THIS RESOURCE IS NO LONGER IN SERVICE. | nif-0000-21064, biotools:bgmut | https://bio.tools/bgmut | http://www.bioc.aecom.yu.edu/bgmut/index.htm, http://www.ncbi.nlm.nih.gov/projects/gv/rbc/xslcgi.fcgi?cmd=bgmut | SCR_002297 | Blood Group Antigen Gene Mutation Database (BGMUT), BGMUT - Blood Group Antigen Gene Mutation Database | 2026-08-29 11:21:02 | 0 | |||
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NeuroScope Resource Report Resource Website 50+ mentions |
NeuroScope (RRID:SCR_002455) | NeuroScope | data processing software, data visualization software, software application, software resource | An advanced viewer for electrophysiological and behavioral data: it can display local field potentials (EEG), neuronal spikes, behavioral events, as well as the position of the animal in the environment. It also features limited editing capabilities. | eeg, meg, electrocorticography, behavior, neuronal spike, behavioral event, edit |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Buzsaki Lab |
PMID:16580733 | Free, Freely available | nlx_155828 | SCR_002455 | 2026-08-29 11:21:20 | 88 | |||||||
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RepARK Resource Report Resource Website 1+ mentions |
RepARK (RRID:SCR_002333) | software resource | Software using a de novo repeat assembly method which avoids potential biases by using abundant k-mers of next-generation sequencing (NGS) whole genome sequencing (WGS) reads without requiring a reference genome. | standalone software | is listed by: OMICtools | PMID:24634442 | OMICS_03446 | SCR_002333 | Repetitive motif detection by Assembly of Repetitive K-mers | 2026-08-29 11:21:03 | 7 | ||||||||
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Advanced Targeting Systems Resource Report Resource Website 1+ mentions |
Advanced Targeting Systems (RRID:SCR_002328) | ATS | commercial organization | Commercial supplier of antibodies, assay kits, conjugates and various toxins for biomedical research. ATS's product line is designed to assist scientists in the study of system functions, cell functionality, diseases and disorders. | antibody supplier, biomedical research resource, targeting reagent | Commercially available | nlx_152256, grid.422052.3 | https://ror.org/01tzmft44 | SCR_002328 | 2026-08-29 11:21:17 | 2 | ||||||||
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Multicomponent T2 estimation with stimulated echo correction Resource Report Resource Website |
Multicomponent T2 estimation with stimulated echo correction (RRID:SCR_002446) | Multicomponent T2 estimation with stimulated echo correction | software resource | Software tool designed to assist users in the estimation of multiple relaxation components from MRI T2 weighted spin-echo data such as that produced by a Carr-Purcell-Meiboom-Gill (CPMG) sequence. This problem is important to study myelin content in white matter diseases such as multiple sclerosis. Stimulated echoes arising from non-ideal flip angles are accounted for using the Extended Phase Graph (EPG) algorithm. The distribution is modelled as a small number of discrete components and a Bayesian estimation algorithm is provided to determine the weights and locations of the components as well as the actual flip angle. This algorithm outperforms iterative gradient descent based approaches. | algorithm, matlab, magnetic resonance, mri | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | PMID:23629849 | Free, Available for download, Freely available | nlx_155820 | SCR_002446 | 2026-08-29 11:21:05 | 0 | |||||||
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Variant Reporter Software Resource Report Resource Website 50+ mentions |
Variant Reporter Software (RRID:SCR_002329) | data analysis software, data processing software, sequence analysis software, software application, software resource |
THIS RESOURCE IS NO LONGER IN SERVICE, documented on April 28, 2017. Software that performs comparative sequencing, also known as direct sequencing, medical sequencing, PCR sequencing and resequencing with DNA sequencing files. The software is designed for reference based and non-reference based analysis such as mutation detection and analysis, SNP discovery and validation and sequence confirmation. |
comparative sequencing, mutation detection, snp discovery, sequence confirmation |
is listed by: OMICtools is listed by: Thermo Fisher Scientific has parent organization: Life Technologies |
THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_01818 | http://www.lifetechnologies.com/order/catalog/product/4385261 | SCR_002329 | 2026-08-29 11:21:13 | 85 | ||||||||
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Hardin MD Resource Report Resource Website |
Hardin MD (RRID:SCR_002364) | data or information resource, database, image collection | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 2, 2025. A medical database with lists, or directories, of information in health and medicine and images of medical conditions. Users may search Hardin MD, browse through the Medical picture gallery, and sort search results by disease or alphabetical letter. | disease, health, medicine, database, directory, gallery, image collection | has parent organization: University of Iowa; Iowa; USA | AIDS, Autoimmune disease, Childrens disease, Herpes, Infectious disease, Skin disease, Sexually transmitted disease, Cancer, Heart disease | THIS RESOURCE IS NO LONGER IN SERVICE. | nif-0000-21186, r3d100011208 | https://doi.org/10.17616/R3G62Z | http://www.lib.uiowa.edu/hardin/md/ | SCR_002364 | Hardin Meta Directory | 2026-08-29 11:21:04 | 0 | |||||
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MNI N3 Resource Report Resource Website 10+ mentions |
MNI N3 (RRID:SCR_002484) | N3 | data processing software, image processing software, software application, software resource | The perl script nu_correct implements a novel approach to correcting for intensity non-uniformity in MR data that achieves high performance without requiring supervision. By making relatively few assumptions about the data, the method can be applied at an early stage in an automated data analysis, before a tissue intensity or geometric model is available. Described as Non-parametric Non-uniform intensity Normalization (N3), the method is independent of pulse sequence and insensitive to pathological data that might otherwise violate model assumptions. To eliminate the dependence of the field estimate on anatomy, an iterative approach is employed to estimate both the multiplicative bias field and the distribution of the true tissue intensities. Preprocessing of MR data using N3 has been shown to substantially improve the accuracy of anatomical analysis techniques such as tissue classification and cortical surface extraction. | magnetic resonance, mri |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: McConnell Brain Imaging Center |
Free, Available for download, Freely available | nlx_155878 | http://www.nitrc.org/projects/nu_correct | SCR_002484 | MNI N3 Software Package, MNI_N3, Non-parametric Non-uniform intensity Normalization, N3 - MINC B0 nonuniformity correction, MNI_N3 Software Package | 2026-08-29 11:21:06 | 11 | ||||||
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COGNISION Resource Report Resource Website 1+ mentions |
COGNISION (RRID:SCR_002362) | COGNISION | software resource | A portable, highly integrated, internet-enabled, hardware / software platform and patient management system, which includes an online Patient Manager module which complies with the HIPAA Final Security Rule, an event-related potential (ERP) Viewer module to view and analyze raw and average ERP waves, and a Protocol Editor module to simplify the choice and administration of selected ERP protocols. It is also easy to train and administer with non-specialized personnel, and is designed to be used in an out-patient setting. COGNISION TM with auditory or visual event-related potential (ERP) technology, provides a direct physiologic measure of patients' cognitive processing (i.e., a cognitive biomarker). | eeg, eeg, meg, electrocorticography, event-related potentials, hardware, physiological recording, instrument, equipment | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | Commercial License | nlx_155724 | http://www.nitrc.org/projects/neuronetrix | SCR_002362 | COGNISION (TM) System | 2026-08-29 11:21:18 | 2 | ||||||
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Relevance Voxel Machine Resource Report Resource Website |
Relevance Voxel Machine (RRID:SCR_002361) | RVoxM | software resource | A Bayesian image-based prediction algorithm that is based on the Relevance Vector Machine and Automatic Relevance Detection frameworks, which are popular approaches in Machine Learning. RVoxM adapts this framework to handle images and explicitly models the spatial smoothness in images. RVoxM can be used to learn to predict a binary or continuous variable from image data. | matlab, image, predict, spatial smoothness | PMID:23008245 | SciRes_000134 | SCR_002361 | 2026-08-29 11:21:03 | 0 | |||||||||
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Histology of Nervous Tissue Laboratory Course Resource Report Resource Website |
Histology of Nervous Tissue Laboratory Course (RRID:SCR_002367) | Histology of Nervous Tissue | data or information resource, narrative resource, training material | A website for a neuroscience lab class from the University of South Carolina that contains images of different parts of the nervous system and allows students to identify each part and answer questions about it. You should be able to (a) recognize nervous tissue in routine histological sections; (b) distinguish peripheral nerves from dense CT and smooth muscle; (c) recognize the morphological differences between myelinated and unmyelinated nerves at both the light microscopic and electron microscopic levels; (d) recognize nerve cell bodies and their component parts; (e) identify and differentiate dendrites and axons; (f) understand and identify various types of neuroglia, including Schwann cells; (g) understand and identify the structural relationship of the Schwann cell cytoplasm and plasma membrane enveloping axons; (h) understand the general features of nerve synapses. You should be able to draw nerves, cell bodies, Nodes of Ranvier, synapses etc. as they would appear under both the electron and light microscopes. | brain, class, histology, laboratory, material, nervous system, neuron, microscopy, neuroscience, peripheral nerve, light microscopy, electron microscopy, nerve cell, neuroglia, nervous tissue, image, glass slide, slide | has parent organization: University of South Carolina School of Medicine; South Carolina; USA | nif-0000-21192 | SCR_002367 | Histology of Nervous Tissue Laboratories 9 and 10 | 2026-08-29 11:21:14 | 0 | ||||||||
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University of Angers; Angers; France Resource Report Resource Website |
University of Angers; Angers; France (RRID:SCR_002400) | UA | university | Public institution of higher learning in western France that offers programs four major areas: law, economics and business; arts, letters and languages; human and social sciences; and sciences, technology and health. | french public university, public university, french research institute |
is parent organization of: University of Angers Plateforme SNP Transcriptome and Epigenomics is parent organization of: University of Angers Labs and Facilities |
Free | nlx_153965 | SCR_002400 | Universite d'Angers, University of Angers | 2026-08-29 11:21:14 | 0 | |||||||
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NIDB - Neuroinformatics Database Resource Report Resource Website 1+ mentions |
NIDB - Neuroinformatics Database (RRID:SCR_002488) | NIDB | data management software, data or information resource, database, software application, software resource | Neuroimaging database designed to allow simple importing, searching, and sharing of imaging data. NIDB also provides automated pipelining with importing of results back into NIDB which can be searched along with imaging meta data. | connectome file format, clinical neuroinformatics, computational neuroscience, computed tomography, imaging genomics, interfile, javascript, neuroimaging |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: SourceForge |
PMID:25888923 | Free, Available for download, Freely available | nlx_155882 | http://www.nitrc.org/projects/nidb | http://nidb.sourceforge.net/ | SCR_002488 | Neuroinformatics Database | 2026-08-29 11:21:06 | 2 | ||||
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DNA DataBank of Japan (DDBJ) Resource Report Resource Website 500+ mentions |
DNA DataBank of Japan (DDBJ) (RRID:SCR_002359) | DDBJ | data or information resource, data repository, database, service resource, storage service resource | Maintains and provides archival, retrieval and analytical resources for biological information. Central DDBJ resource consists of public, open-access nucleotide sequence databases including raw sequence reads, assembly information and functional annotation. Database content is exchanged with EBI and NCBI within the framework of the International Nucleotide Sequence Database Collaboration (INSDC). In 2011, DDBJ launched two new resources: DDBJ Omics Archive and BioProject. DOR is archival database of functional genomics data generated by microarray and highly parallel new generation sequencers. Data are exchanged between the ArrayExpress at EBI and DOR in the common MAGE-TAB format. BioProject provides organizational framework to access metadata about research projects and data from projects that are deposited into different databases. | nucleotide sequence, genome, dna, dna database, dna research, nucleotide, phylogenetics, protein, sequence, protein binding, gene expression, gene, genetics, nucleoid, genomics, protein binding, gold standard, bio.tools, FASEB list |
is recommended by: NIDDK Information Network (dkNET) is recommended by: National Library of Medicine is recommended by: NIDDK - National Institute of Diabetes and Digestive and Kidney Diseases is listed by: OMICtools is listed by: re3data.org is listed by: Debian is listed by: bio.tools is related to: INSDC is related to: GenBank is related to: INSDC is related to: European Nucleotide Archive (ENA) is related to: GenBank is related to: Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) is related to: Worldwide Protein Data Bank (wwPDB) is related to: Biological Magnetic Resonance Data Bank (BMRB) is related to: PDBe - Protein Data Bank in Europe is related to: PDBe - Protein Data Bank in Europe is related to: European Nucleotide Archive (ENA) is related to: Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) is related to: NCBI Assembly Archive Viewer has parent organization: National Institute of Genetics; Shizuoka; Japan is parent organization of: DDBJ Omics Archive is parent organization of: BodyMap-Xs is parent organization of: DDBJ Sequence Read Archive is parent organization of: CIBEX: Center for Information Biology gene EXpression database is parent organization of: Japanese Genotype-phenotype Archive (JGA) |
Japanese Ministry of Education Culture Sports Science and Technology MEXT | PMID:26578571 PMID:25477381 |
Free, Freely available, | OMICS_01644, biotools:ddbj, nif-0000-02740, r3d100010218 | https://bio.tools/ddbj, https://doi.org/10.17616/R3M01R | SCR_002359 | DNA DataBank of Japan (DDBJ), DNA DataBank of Japan, DDBJ, DNA Data Bank of Japan, DDBJ - DNA Data Bank of Japan | 2026-08-29 11:21:13 | 709 | ||||
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NCBI Genome Resource Report Resource Website 500+ mentions |
NCBI Genome (RRID:SCR_002474) | Genome | data or information resource, data repository, database, service resource, storage service resource | Database that organizes information on genomes including sequences, maps, chromosomes, assemblies, and annotations in six major organism groups: Archaea, Bacteria, Eukaryotes, Viruses, Viroids, and Plasmids. Genomes of over 1,200 organisms can be found in this database, representing both completely sequenced organisms and those for which sequencing is in progress. Users can browse by organism, and view genome maps and protein clusters. Links to other prokaryotic and archaeal genome projects, as well as BLAST tools and access to the rest of the NCBI online resources are available. | chromosome, organelle, plasmid, viroid, virus, genome, sequence, map, assembly, annotation, gene mapping, dna, blast, protein cluster, gold standard |
is listed by: re3data.org is related to: MapViewer is related to: UniProt Proteomes is related to: CaspBase has parent organization: NCBI works with: nTrackAnnotator |
Free, Freely avaialble | nif-0000-02802, r3d100010785 | http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=Genome, https://doi.org/10.17616/R3R89S | SCR_002474 | Entrez Genomes, Entrez Genome, NCBI, Genome, Genome Database, Genome: Information by genome sequence | 2026-08-29 11:21:21 | 618 | ||||||
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Mason Resource Report Resource Website 100+ mentions |
Mason (RRID:SCR_002476) | simulation software, software application, software resource | Collection of software tools for simulating biological sequences, including simulations of genome fragment sampling, random genomic sequences, methylation levels, and NGS reads. | read simulating software, sequencing simulation, haplotype simulation | is listed by: OMICtools | Free, Available for download, Freely available | OMICS_00252 | SCR_002476 | Mason2 | 2026-08-29 11:21:06 | 169 | ||||||||
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iBEAT Resource Report Resource Website 10+ mentions |
iBEAT (RRID:SCR_002470) | iBEAT | data processing software, image analysis software, image processing software, software application, software resource, software toolkit | A toolbox with graphical user interfaces for processing infant brain MR images. Longitudinal (or single-time-point) multimodality (including T1, T2, and FA) (or single-modality) data can be processed using the toolbox. Main functions of the software (step by step) include image preprocessing, brain extraction, tissue segmentation and brain labeling. Linux operating system (64 bit) is required. A workstation or server with memory >8G is recommended for processing many images simutaneously. The graphical user interfaces and overall framework of the software are implemented in MATLAB. The image processing functions are implemented with the combination of C/C++, MATLAB, Perl and Shell languages. Parallelization technologies are used in the software to speed up image processing. | atlas application, atlas data, data resource, image display, information resource, magnetic resonance, registration, segmentation, spatial transformation, visualization, warping, mri, infant, brain |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University of North Carolina at Chapel Hill School of Medicine; North Carolina; USA |
PMID:23055044 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_155851 | http://www.nitrc.org/projects/ibeat | SCR_002470 | Infant Brain Extraction and Analysis Toolbox, LIBRA, iBEAT: Infant Brain Extraction and Analysis Toolbox | 2026-08-29 11:21:15 | 39 | |||||
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Primate Cortical Connectivity Database Resource Report Resource Website |
Primate Cortical Connectivity Database (RRID:SCR_002468) | Primate Cortical Connectivity Database | bibliography, data or information resource | Bibliography for primate cortical connectivity. The page displays the articles by their year of publication and links to PubMed. | connectivity, cerebral cortex, monkey, primate | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-21332 | SCR_002468 | 2026-08-29 11:21:21 | 0 |
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