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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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Embryo Images Normal and Abnormal Mammalian Development Resource Report Resource Website |
Embryo Images Normal and Abnormal Mammalian Development (RRID:SCR_006297) | Embryo Images | curriculum material, data or information resource, image collection, narrative resource, training material | Tutorial that uses scanning electron micrographs (SEMs) as the primary resource to teach mammalian embryology. The 3-D like quality of the micrographs coupled with selected line drawings and minimal text allow relatively easy understanding of the complex morphological changes that occur in utero. Because early human embryos are not readily available and because embryogenesis is very similar across mammalian species, the majority of micrographs that are utilized in this tutorial are of mouse embryos. The remainder are human. This tutorial is divided into units that may be studied in any order. All of the images have a legend that indicates the age of the embryo. If it is a mouse embryo, the approximate equivalent human age is indicated. To minimize labeling, color-coding is widely used. To view the micrographs without color, the cursor may be placed on the image. The SEMs used in this tutorial are from the Kathleen K. Sulik collection. The line drawings have been used with permission from Lippincott Williams & Wilkins and are from the 6th and 7th editions of Langman''s Medical Embryology by T.W. Sadler. | scanning electron micrograph, embryology, morphology, mammal, embryonic mouse, embryonic human, micrograph, fetal development, body form, musculoskeletal, head, neck, ear, eye, nervous system, cardiovascular system, urogenital system, digestive system, respiratory system, development |
is listed by: GUDMAP Ontology is listed by: NIDDK Information Network (dkNET) has parent organization: University of North Carolina at Chapel Hill School of Medicine; North Carolina; USA |
Normal development, Abnormal development, Birth defect | Greenwood Genetic Center ; University of North Carolina at Chapel Hill; North Carolina; USA |
The line drawings may not be reproduced without the permission of the publisher. | nlx_151966 | SCR_006297 | Embryo Images Normal & Abnormal Mammalian Development | 2026-09-12 12:56:37 | 0 | |||||
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Centroid Trajectory Analysis Resource Report Resource Website 10+ mentions |
Centroid Trajectory Analysis (RRID:SCR_006331) | CeTrAn | data analysis software, data processing software, software application, software resource | Open source software written in R that tracks a single animal walking in a homogenous environment (Buritrack) and analyzes its trajectory. It extracts eleven metrics and includes correlation analyses and a Principal Components Analysis (PCA). It was designed to be easily customized to personal requirements. In combination with inexpensive hardware, these tools can readily be used for teaching and research purposes. Buritrack is a program to track individual Drosophila fruit flies online with any camera as they walk in Buridan's paradigm. The program extracts the coordinate locations of the fly and stores them in a text file. | trajectory, buridan, principal components analysis, correlation analysis, buridan's paradigm, locomotion, software, tracking, drosophila |
has parent organization: Free University of Berlin; Berlin; Germany has parent organization: SourceForge |
Swiss National Science Foundation PA00P3_124141; EPSRC EP/F030673/1 |
PMID:22912692 | Open source, Available for Mac and PC, Source code available for download | nlx_152033 | SCR_006331 | CeTrAn: centroid trajectory analysis | 2026-09-12 12:56:38 | 11 | |||||
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PhyloBayes Resource Report Resource Website 100+ mentions |
PhyloBayes (RRID:SCR_006402) | PhyloBayes | software resource | A Bayesian Monte Carlo Markov Chain (MCMC) sampler software for phylogenetic reconstruction. Its main distinguishing feature is the underlying probabilistic model, CAT (Lartillot and Philippe, 2004). CAT is an infinite mixture model accounting for site-specific amino-acid or nucleotide preferences. It is well suited to phylogenomic studies using large multigene alignments., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | phylogenomic, multigene alignment, alignment, reconstruction |
is listed by: OMICtools has parent organization: University of Montreal; Quebec; Canada |
PMID:24318999 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_02212 | SCR_006402 | PhyloBayes - phylogenetic reconstruction using infinite mixtures | 2026-09-12 12:56:39 | 486 | ||||||
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Pig Genome Database Resource Report Resource Website |
Pig Genome Database (RRID:SCR_006367) | PGD | analysis service resource, data analysis service, data or information resource, database, production service resource, service resource | Database facilitating information integration and mining within the pig and across species of all genomics / genetics research results accumulated over the years including pig gene expression, quantitative trait loci (QTL), candidate gene, and whole genome association study (WGAS) results. The key functions developed so far include pig gene pages (a centralized gene search tool), a local copy of Biomart (for customizable genome information queries), genome feature alignment tools (Pig QTLdb and Gbrowse), integrated gene expression information (ANEXDB and ESTdb), a dedicated pig genome and gene set BLAST server, and virtual comparative map database and tools (VCmap). By developing the PGD, it is our aim to collaboratively utilize existing databases and tools via networked functions, such as web services, database API, etc., to maximize the potential of all related databases through the PGD implementation. | gene expression, quantitative trait loci, candidate gene, whole genome association study, genome, chromosome, dna, trait, marker | has parent organization: NAGRP Bioinformatics Coordination Program | United States Department of Agriculture | nlx_152113 | SCR_006367 | 2026-09-12 12:56:38 | 0 | ||||||||
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Brodmann's Interactive Atlas Resource Report Resource Website 1+ mentions |
Brodmann's Interactive Atlas (RRID:SCR_006368) | atlas, data or information resource, mri d image | An atlas that facilitates fMRI analysis understanding by providing access to all of the functions that have been associated with each of the 52 Brodmann's areas or corresponding gyri. Links to main publications supporting the findings are provided in PubMed ID format. Brodmann's areas with similar functions and locations have been collapsed into a single page. The word left or right has been added indicating a lateralized function. All the abstracts published on PubMed on fMRI and brain PET studies in which the Brodmann's area or its anatomical correlate were mentioned have been reviewed up to August 2008. Abstracts with poorly described experimental methods or findings clearly conflicting with established knowledge provided by the clinical model were excluded. Studies on patients were also excluded. | neuroanatomy, fmri, interactive, mri, pet, brain, brodmann's areas, brodmann partition scheme region, cerebral cortex, function, brain activation, atlas | fMRI consulting | nlx_152117 | SCR_006368 | Broadmann's Interactive Atlas | 2026-09-12 12:56:38 | 3 | |||||||||
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University of Oxford; Oxford; United Kingdom Resource Report Resource Website 10+ mentions |
University of Oxford; Oxford; United Kingdom (RRID:SCR_006361) | Oxford | university | Collegiate research university in Oxford, England. Teaching as early as 1096, making it the oldest university in English speaking world and world second oldest university in continuous operation. |
uses: ShareLaTeX uses: Overleaf uses: ReadCube uses: Sparrho uses: Writefull uses: LabArchives uses: Bioz is related to: Medical Research Council Harwell: An International Centre for Mouse Genetics is related to: European Gram Negative AntiBacterial Engine is related to: Kinetics for Drug Discovery is related to: Kidney Health Initiative is related to: READNA is related to: ONE Study is related to: European Management Platform for Emerging and Re-Emerging Infectious Disease Entities (EMPERIE) is related to: ShareLaTeX is related to: LabArchives is related to: Center for Expanded Data Annotation and Retrieval is parent organization of: University of Oxford Labs and Facilities is parent organization of: WTCHG Genome Scan Viewer is parent organization of: NeuroHub: the information environment for Neuroscientists is parent organization of: bioDBcore is parent organization of: FSL is parent organization of: Wellcome Trust Centre for Human Genetics is parent organization of: Structural Genomics Consortium is parent organization of: FAIRsharing is parent organization of: PeaKDEck is parent organization of: CiTO - the Citation Typing Ontology is parent organization of: Brain Bank for Autism is parent organization of: Oxford Science Blog is parent organization of: Oxford Centre for Functional MRI of the Brain is parent organization of: JISC Open Citations is parent organization of: Open Provenance Model Vocabulary is parent organization of: Computational Genomics Analysis Tools is parent organization of: Alpha-7 Database is parent organization of: FMRIB Software Library is parent organization of: PairsDB is parent organization of: RNA Virus Database is parent organization of: Cellular Open Resource is parent organization of: DTU is parent organization of: Bioinformatics and Statistical Genetics is parent organization of: elk-reasoner is parent organization of: CGDB is parent organization of: Potassium Channel Database is parent organization of: Oxford Central Proteomics Facility is parent organization of: Colwiz is parent organization of: myExperiment is parent organization of: ISA Infrastructure for Managing Experimental Metadata is parent organization of: EMIF is parent organization of: CPFP is parent organization of: IonChannelGenealogy is parent organization of: Orthologous and Paralogous Transcripts in Clades is parent organization of: HomeoDB is parent organization of: Open Trials is parent organization of: OVAL is parent organization of: easyGV is parent organization of: iHOMA2 is parent organization of: microC is parent organization of: University of Oxford Computational Biology Research Group Core Facility is parent organization of: University of Oxford Medical Sciences Division Computational Genomics: Analysis and Training Core Facility is parent organization of: ARGON is parent organization of: FAIRassist.org |
Crossref funder ID:501100000769, Wikidata:Q34433, ISNI:0000 0004 1936 8948, grid.4991.5, nlx_59631 | https://ror.org/052gg0110 | SCR_006361 | Oxford University | 2026-09-12 12:56:38 | 11 | ||||||||
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ChemSpider Resource Report Resource Website 1000+ mentions |
ChemSpider (RRID:SCR_006360) | ChemSpider | data access protocol, data or information resource, database, mobile app, service resource, software application, software resource, web service | Collection of chemical structures. Provides access to structures, properties and associated information from hundreds of data sources to find compounds of interest and provides services to improve this data by curation and annotation and to integrate it with users applications. | collection, chemical, structure, property, data, compound, bio.tools, FASEB list |
is used by: Open PHACTS is used by: GEROprotectors is listed by: re3data.org is listed by: bio.tools is listed by: Debian has parent organization: Royal Society of Chemistry |
GGA Software Services ; Waters |
Free, Freely available, Registration required for some sites | nlx_152101, biotools:chemspider, r3d100010205 | https://bio.tools/chemspider, https://doi.org/10.17616/R38P4P | SCR_006360 | 2026-09-12 12:56:38 | 2112 | ||||||
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University of Oviedo; Oviedo; Spain Resource Report Resource Website 1+ mentions |
University of Oviedo; Oviedo; Spain (RRID:SCR_006359) | university | Public university in Asturias. It is the only university in the region. It has three campus and research centres, located in Oviedo, Gijón and Mieres. |
is parent organization of: Mammalian Degradome Database is parent organization of: Human Hereditary Diseases of Proteolysis is parent organization of: Ancillary Domains Associated With Human and Mouse Proteases |
nlx_53766, ISNI:0000 0001 2164 6351, grid.10863.3c, Wikidata:Q2303432, Crossref funder ID:501100006382 | https://ror.org/006gksa02 | SCR_006359 | 2026-09-12 12:56:38 | 2 | ||||||||||
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EasyOpenData Resource Report Resource Website |
EasyOpenData (RRID:SCR_006354) | EasyOpenData | authoring tool, software application, software resource | Software application to create Open Data from your Google Drive spreadsheets. # Create a spreadsheet in Google Drive. Share, collaborate and refine your data as usual. # Design the template in EasyOpenData. Format your data the way you want it - any markup, any schema. # Publish your Open Data feed. Feeds update automatically when your spreadsheet is changed. | author, publish | nlx_152087 | SCR_006354 | easy open data | 2026-09-12 12:56:38 | 0 | |||||||||
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WebScope Resource Report Resource Website 10+ mentions |
WebScope (RRID:SCR_006355) | WebScope | data or information resource, image collection | Expansive collection of high-quality wholeslide images | nlx_152089 | SCR_006355 | Aperio WebScope | 2026-09-12 12:56:38 | 17 | ||||||||||
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Zebra Finch Song Learning Consortium Resource Report Resource Website 1+ mentions |
Zebra Finch Song Learning Consortium (RRID:SCR_006356) | Zebra Finch Song Learning Consortium | data or information resource, portal, topical portal | THIS RESOURCE IS NO LONGER IN SERVICE, documented August 29, 2016. Project to advance understanding of the neural mechanisms of vocal learning by providing a quantitative description of the relationship between physiological variables and vocal performance over the course of development in a songbird, the zebra finch. They propose to study vocal learning dynamically across neuronal and peripheral subsystems, using a novel collaborative approach that will harness the combined expertise of several investigators. Their proposed research model will 1) provide simultaneous measurements of acoustic, articulatory and electrophysiological data that will document the detailed dynamics of the vocal imitation process in a standardized learning paradigm; and 2) incorporate these measurements into a theoretical/computational framework that simultaneously provides a phenomenological description and attempts to elucidate the mechanistic basis of the learning process. | model organism, vocal learning, development, learning, brain, song |
is related to: Chronux has parent organization: Cold Spring Harbor Laboratory is parent organization of: Zebra Finch Brain Atlas |
NIH | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_152090 | SCR_006356 | 2026-09-12 12:56:38 | 1 | |||||||
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KOBAS Resource Report Resource Website 5000+ mentions |
KOBAS (RRID:SCR_006350) | KOBAS | analysis service resource, data analysis service, production service resource, service resource, software resource | Web server to identify statistically enriched pathways, diseases, and GO terms for a set of genes or proteins, using pathway, disease, and GO knowledge from multiple famous databases. It allows for both ID mapping and cross-species sequence similarity mapping. It then performs statistical tests to identify statistically significantly enriched pathways and diseases. KOBAS 2.0 incorporates knowledge across 1327 species from 5 pathway databases (KEGG PATHWAY, PID, BioCyc, Reactome and Panther) and 5 human disease databases (OMIM, KEGG DISEASE, FunDO, GAD and NHGRI GWAS Catalog). A standalone command line version is also available, THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | ortholog, pathway, disease, gene, protein, annotation, command line, FASEB list |
is listed by: OMICtools is related to: Gene Ontology is related to: KEGG is related to: OMIM is related to: Pathway Interaction Database is related to: BioCarta Pathways is related to: Reactome is related to: BioCyc is related to: PANTHER is related to: FunDO is related to: Genetic Association Database is related to: GWAS: Catalog of Published Genome-Wide Association Studies has parent organization: Peking University; Beijing; China |
PMID:21715386 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_02228 | SCR_006350 | KEGG Orthology Based Annotation System | 2026-09-12 12:56:38 | 5008 | ||||||
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Annotum Resource Report Resource Website |
Annotum (RRID:SCR_006353) | annotum | authoring tool, service resource, software application, software resource, source code | An open-source, open-process, open-access scholarly authoring and publishing platform based on WordPress. Its objectives are to develop a simple, robust, easy-to-use authoring system to create and edit scholarly articles, and to deliver an editorial review and publishing system that can be used to submit, review, and publish scholarly articles. Software and source code are also available. Annotum will build upon the WordPress platform as a foundation, filling in the gaps by providing the following additional features: * Rich, web-based authoring and editing: ** What you see is what you get (WYSIWYG) authoring with rich toolset (equations, figures, tables, citations and references) ** coauthoring, comments, version tracking, and revision comparisons * Strict conformance to a subset of the NLM journal article publishing tag set * Multiple import and export formats ** Export to PDF and XML formats ** Import XML and WXR formats for round-tripping of content ** Articles can be cited, exported, imported across systems/sites * Simple editorial workflow for authoring and reviewer/editor approval * Features specific to scholarly publishing: ** Equations, figures, tables ** References including citation search features ** Auto-generation and registration of CrossRef DOIs | scientific publishing, scholarly publishing, author, publish | Free | nlx_152086 | SCR_006353 | 2026-09-12 12:56:38 | 0 | |||||||||
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NEuronMOrphological analysis tool Resource Report Resource Website 1+ mentions |
NEuronMOrphological analysis tool (RRID:SCR_006304) | NEMO | data processing software, image analysis software, image processing software, software application, software resource | Software to handle and process large numbers of optical microscopy image files of neurons in culture or slices in order to automatically run batch routines, store data and apply multivariate classification and feature extraction using 3-way principal component analysis (PCA). This freeware for semi automated quantitative and dynamic analysis of neuron morphometry incorporates the most important microstructural quantification methods, such as fractal and sholl analysis with statistical and classification tools to provide an integrated image processing environment which enables fast and easy feature identification. It includes: * Friendly interactive graphical user interface * Image pre-processing * Morphological analysis * Topological analysis * Cell counting * 3-way PCA analysis (also available as an ImageJ plugin) * Plot of variables Sequential images of labeled or unlabelled neurons or tissue slices can be uploaded batch-wise in order to create a 3 axis (time, image coordinate) data base and a datamatrix of variables for 3-way Principal Component Analysis*. | morphometric analysis, neuron, morphology, principal component analysis, image pre-processing, neuron reconstruction, morphological analysis, neuron counting, neuron morphology, image processing, morphometrics, 3-way principal component analysis, topological analysis | has parent organization: University of Pisa; Pisa; Italy | Open-source | nlx_151981 | SCR_006304 | NEuronMOrphological analysis tool NEMO, NEMO (NEuron MOrphological analysis tool) | 2026-09-12 12:56:37 | 5 | |||||||
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Lewy Body Dementia Association Resource Report Resource Website 1+ mentions |
Lewy Body Dementia Association (RRID:SCR_006421) | data or information resource, portal, topical portal | The LBDA is a Lewy Body Disease (LBD) information resource for lewy body patients, caregivers, and medical professionals. It provides general information on LBD, including diagnosis, symptoms, treatments, etc., as well as providing links to support resources and an LBD online community. For professionals, the site also provides information on patient care, current LBD research and publications, and diagnostics information. LBDA offers many support resources for those affected by LBD and for their loved ones. These resources include local support group meeting information, online support groups, and user forums where users can find information or ask any questions they may have about the disease. A portion of the site is also dedicated to those who wish to help, either through participation in clinical trials, donations, or volunteering. LBDA also offers information on upcoming LBD-related events. LBDA is located Atlanta, GA. :NIF thanks the : :Parkinson''s Disease Foundation : : :for their referral of this resource to us. | lbd, lewy body, lewy body diagnosis, lewy body disease, lewy body disease clinical trial, lewy body disease community, lewy body disease diagnostics, lewy body disease online, lewy body disease support | nif-0000-11665 | SCR_006421 | LBDA | 2026-09-12 12:56:39 | 4 | ||||||||||
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University of Oulu; Oulu; Finland Resource Report Resource Website |
University of Oulu; Oulu; Finland (RRID:SCR_006301) | university | One of the largest universities in Finland, located in the city of Oulu. It was founded on July 8, 1958. | Wikidata:Q1357517, nlx_60067, grid.10858.34, Crossref funder ID:501100006196, ISNI:0000 0001 0941 4873 | https://ror.org/03yj89h83 | SCR_006301 | 2026-09-12 12:56:37 | 0 | |||||||||||
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FURTHeR Resource Report Resource Website 50+ mentions |
FURTHeR (RRID:SCR_006383) | FURTHeR | community building portal, data or information resource, data repository, database, portal, service resource, storage service resource | Data and knowledge management infrastructure for the new Center for Clinical and Translational Science (CCTS) at the University of Utah. This clinical cohort search tool is used to search across the University of Utah clinical data warehouse and the Utah Population Database for people who satisfy various criteria of the researchers. It uses the i2b2 front end but has a set of terminology servers, metadata servers and federated query tool as the back end systems. FURTHeR does on-the-fly translation of search terms and data models across the source systems and returns a count of results by unique individuals. They are extending the set of databases that can be queried. | biomedical, clinical, informatics, platform, federated, translation, institutional review board, data management software, clinical data, federation, FASEB list |
is related to: Clinical and Translational Science Awards Consortium has parent organization: University of Utah School of Medicine; Utah; USA |
National Center for Advancing Translational Sciences ; NCRR UL1 RR025764; U.S. Department of Health and Human Services ; University of Utah Research Foundation |
PMID:20351825 PMID:18999122 |
Restricted | nlx_152164 | http://www.further.utah.edu/ | SCR_006383 | Federated Utah Research and Translational Health Electronic Repository, FURTHeR - Federated Utah Research and Translational Health Electronic Repository | 2026-09-12 12:56:39 | 79 | ||||
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ePRISM Resource Report Resource Website 1+ mentions |
ePRISM (RRID:SCR_006386) | ePRISM | data management software, software application, software resource | Software application that supports the execution of multivariable prediction models with patient-specific characteristics so that personalized estimates of outcomes, often as a function of alternative treatments, can be generated within the routine flow of patient care. This can support evidence-based, shared medical decision-making to improve the safety, outcomes and cost-effectiveness of care. The current application is in the setting of generating individualized informed consent documents for PCI. However, the tool can support that translation of novel biomarkers, genetics and pharmacogenomic interactions into clinical care. The platform gives healthcare providers instantaneous access to the latest clinical prediction models coupled with rich visualization tools. These models may come from national organizations, outcomes researchers or a specific institution. In addition to decision support applications, it can be used to rapidly create personalized educational materials, patient letters, informed consent documents and a broad array of other items that can help elevate the quality of healthcare delivery. | healthcare, clinical, prediction model, visualization, platform |
is related to: Clinical and Translational Science Awards Consortium has parent organization: University of Kansas Medical Center; Kansas; USA |
nlx_152166 | SCR_006386 | Patient Refined Information Services Manager | 2026-09-12 12:56:39 | 3 | ||||||||
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SNPdryad Resource Report Resource Website 1+ mentions |
SNPdryad (RRID:SCR_006414) | SNPdryad | service resource | Service to predict deleterious non-synonymous human Single Nucleotide Polymorphisms (SNPs) using only orthologous protein sequences. | non-synonymous, single nucleotide polymorphism, ortholog, protein sequence |
is listed by: OMICtools has parent organization: University of Toronto; Ontario; Canada |
PMID:24389653 | OMICS_02198 | SCR_006414 | SNPdryad - Deleterious Non-Synonymous SNP Predictions for Human | 2026-09-12 12:56:39 | 3 | |||||||
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Alzheimer's Research Forum Resource Report Resource Website 100+ mentions |
Alzheimer's Research Forum (RRID:SCR_006416) | ALZForum, ARF | community building portal, data or information resource, discussion, disease-related portal, narrative resource, portal, topical portal | A community building portal dedicated to understanding Alzheimer's disease and related disorders, it reports on the latest scientific findings from basic research to clinical trials, creates and maintains public databases of essential research data and reagents, and produces discussion forums to promote debate, speed the dissemination of new ideas, and break down barriers across disciplines. | alzheimer's disease, human, mouse, community building portal, forum, FASEB list |
is related to: MSGene is related to: ALZPEDIA is parent organization of: AlzSWAN Knowledge Base is parent organization of: AlzGene: Field Synopsis of Genetic Association Studies in AD is parent organization of: Alzforum Antibody Directory for Neuroscience Research |
Alzheimer's disease | grants ; individual donations |
Free, Acknowledgement requested | nif-0000-00095 | SCR_006416 | 2026-09-12 12:56:39 | 127 |
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The NIDDK Information Network (dkNET) serves the needs of basic and clinical investigators by providing seamless access to large pools of data and research resources relevant to the mission of The National Institute of Diabetes Digestive and Kidney Diseases (NIDDK). dkNET is hosted at University of California San Diego, and is supported by NIH NIDDK grant U24DK097771.
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