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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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Gene Array Analyzer Resource Report Resource Website 1+ mentions |
Gene Array Analyzer (RRID:SCR_008323) | GAA | production service resource, service resource, data analysis service, analysis service resource | Data analysis service that allows to process CEL files from Affymetrix, Inc. GeneChip Gene 1.0 ST Arrays to identify alternative splicing. | bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools |
PMID:22123740 | Acknowledgement requested | OMICS_00759, biotools:gene_array_analyzer | https://bio.tools/gene_array_analyzer | SCR_008323 | 2026-02-16 09:47:09 | 5 | ||||||
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CRCView Resource Report Resource Website |
CRCView (RRID:SCR_007092) | CRCView | production service resource, service resource, data analysis service, analysis service resource | Web-based microarray data analysis and visualization system powered by CRC, or Chinese Restaurant cluster, a Dirichlet process model-based clustering algorithm recently developed by Dr. Steve Qin. It also incorporates several gene expression analysis programs from Bioconductor, including GOStats, genefilter, and Heatplus. CRCView also installs from the Bioconductor system 78 annotation libraries of microarray chips for human (31), mouse (24), rat (14), zebrafish (1), chicken (1), Drosophila (3), Arabidopsis (2), Caenorhabditis elegans (1), and Xenopus Laevis (1). CRCView allows flexible input data format, automated model-based CRC clustering analysis, rich graphical illustration, and integrated Gene Ontology (GO)-based gene enrichment for efficient annotation and interpretation of clustering results. CRC has the following features comparing to other clustering tools: 1) able to infer number of clusters, 2) able to cluster genes displaying time-shifted and/or inverted correlations, 3) able to tolerate missing genotype data and 4) provide confidence measure for clusters generated. You need to register for an account in the system to store your data and analyses. The data and results can be visited again anytime you log in. | microarray, gene expression, cluster, gene, expression profile, data repository, bio.tools |
is listed by: bio.tools is listed by: Debian is related to: Bioconductor is related to: Gene Ontology has parent organization: University of Michigan; Ann Arbor; USA |
University of Michigan; Michigan; USA ; Institutional Fund ; NIH U013422; NIAID 1R21AI057875-01 |
PMID:17485426 | Registration required | biotools:crcview, nlx_99864 | https://bio.tools/crcview | http://helab.bioinformatics.med.umich.edu/crcview/ | SCR_007092 | Chinese Restaurant ClusterView | 2026-02-16 09:46:53 | 0 | |||
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Aged Rodent Tissue Bank Resource Report Resource Website 1+ mentions |
Aged Rodent Tissue Bank (RRID:SCR_010607) | NIA Tissue Bank | tissue bank, material resource, biomaterial supply resource | A repository of tissue collected from the NIA Aged Rodent Colonies under contractual arrangement with BioReliance. The NIA colonies are barrier maintained and Specific Pathogen Free. Tissues are fresh frozen and stored at -80 degrees Celsius. Tissue from the NIA Aged Rodent Tissue Bank is available to investigators at academic and nonprofit research institutions who are engaged in funded research on aging. The project name and source of funding must accompany all orders. It may not be possible to ship tissue to foreign countries that have restrictions on the import of animal tissues or products. Please Note: Incomplete order forms will be returned. We can only offer following week delivery for those orders for which completed order forms are received by the deadline of Tuesday noon, Eastern time. Starting April 1, 2012, a copy (.pdf) of the purchase order must be emailed along with the order form. | tissue, rodent, fresh frozen, frozen, male, wild type, caloric restricted, ad lib control, control, dwarf, ames dwarf, b6d2f1, f344bn f1 hybrid rat, f344 rat, balb/c, c57bl/6, cb6f1, f344xbn f1, fisher 344, rat, :category:embryonic mouse |
is listed by: One Mind Biospecimen Bank Listing is related to: BioReliance is related to: NIA Aged Rodent Colonies has parent organization: NIA Scientific Resources is parent organization of: Aged Rodent Tissue Arrays |
Aging, Control | NIA | Available to projects directly related to aging and funded by the NIH, Other U.S. Federal government agencies (ex., VA, CDC) or U.S. private, Non-profit research foundations (ex. AHA, AFAR). Not available for commercial projects. | nlx_51483 | http://www.nia.nih.gov/ResearchInformation/ScientificResources/AgedRodentTissueBankHandbook/ | SCR_010607 | NIA Aged Rodent Tissue Bank, NIA Aged Rodent Tissue Bank Handbook | 2026-02-16 09:47:50 | 1 | ||||
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Waxholm Space Atlas of the Sprague Dawley Rat Brain Resource Report Resource Website 10+ mentions |
Waxholm Space Atlas of the Sprague Dawley Rat Brain (RRID:SCR_017124) | WHS-SD-atlas | data or information resource, waxholm atlas, atlas | Open access volumetric atlas of anatomical delineations of rat brain based on structural contrast in isotropic magnetic resonance and diffusion tensor images acquired ex vivo from 80 day old male Sprague Dawley rat at Duke Center for In Vivo Microscopy. Spatial reference is provided by Waxholm Space coordinate system. Location of bregma and lambda are identified as anchors towards stereotaxic space. Application areas include localization of signal in non structural images. Atlas, MRI and DTI volumes, and diffusion tensor data are shared in NIfTI format. | volumetric, atlas, anatomical, delineation, rat, brain, structural, contrast, isotropic, MIR, DTI, male, Sprague Dawley, image |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: ITK-SNAP is related to: PMOD Software is related to: Duke University; North Carolina; USA has parent organization: University of Oslo; Oslo; Norway works with: MeshView works with: VisuAlign |
Research Council of Norway ; EC Human Brain Project ; NIBIB P41 EB015897; NCI U24 CA092656 |
PMID:24726336 PMID:25585022 |
Free, Available for download, Freely available | SCR_017124 | WHS SD rat atlas, WHS_SD_rat_atlas, WHS-SD-rat-atlas | 2026-02-16 09:49:10 | 35 | ||||||
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Rodrigo Quian Quiroga EEG ERP and single cell recordings database Resource Report Resource Website |
Rodrigo Quian Quiroga EEG ERP and single cell recordings database (RRID:SCR_001580) | EEG ERP and single cell recordings | data set, data or information resource | 5 EEG, ERP and single cell recordings data sets where each file corresponds to the recording on a different subject in the left occipital electrode (O1), with linked earlobes reference. Each file contains several artifact-free trials, each of them containing 512 data points (256 pre- and 256 post-stimulation) stored with a sampling frequency of 250 Hz. Trials are stored consecutively in a 1 column file. Data was pre-filtered in the range 0.1-70Hz. All trials correspond to target stimulation with an oddball paradigm. STAR R based Data Sets Used * Dataset # 1: Human single-cell recording * Dataset # 2: Simulated extracellular recordings * Dataset # 3: EEG signals from rats * Dataset # 4: Pattern visual evoked potentials. * Dataset # 5: Tonic-clonic (Grand Mal) seizures. | eeg, erp, single cell, recording, grand mal seizure, extracellular recording, single cell, recording, adult rat, male | is related to: Neural Cipher | Epilepsy | PMID:12005869 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_153817 | SCR_001580 | Rodrigo Quian Quiroga - EEG ERP and single cell recordings database | 2026-02-16 09:45:31 | 0 | |||||
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ReCount - A multi-experiment resource of analysis-ready RNA-seq gene count datasets Resource Report Resource Website 10+ mentions |
ReCount - A multi-experiment resource of analysis-ready RNA-seq gene count datasets (RRID:SCR_001774) | ReCount | data set, data or information resource | RNA-seq gene count datasets built using the raw data from 18 different studies. The raw sequencing data (.fastq files) were processed with Myrna to obtain tables of counts for each gene. For ease of statistical analysis, they combined each count table with sample phenotype data to form an R object of class ExpressionSet. The count tables, ExpressionSets, and phenotype tables are ready to use and freely available. By taking care of several preprocessing steps and combining many datasets into one easily-accessible website, we make finding and analyzing RNA-seq data considerably more straightforward. | rna-seq, gene count, gene, phenotype, r |
is listed by: OMICtools is related to: Myrna has parent organization: SourceForge has parent organization: Johns Hopkins Bloomberg School of Public Health; Maryland; USA |
NIGMS T32GM074906 | PMID:22087737 | Free, Available for download, Freely available | OMICS_01953 | SCR_001774 | 2026-02-16 09:45:37 | 35 | ||||||
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UniProt Chordata protein annotation program Resource Report Resource Website |
UniProt Chordata protein annotation program (RRID:SCR_007071) | Chordata protein annotation program | data set, data or information resource | Data set of manually annotated chordata-specific proteins as well as those that are widely conserved. The program keeps existing human entries up-to-date and broadens the manual annotation to other vertebrate species, especially model organisms, including great apes, cow, mouse, rat, chicken, zebrafish, as well as Xenopus laevis and Xenopus tropicalis. A draft of the complete human proteome is available in UniProtKB/Swiss-Prot and one of the current priorities of the Chordata protein annotation program is to improve the quality of human sequences provided. To this aim, they are updating sequences which show discrepancies with those predicted from the genome sequence. Dubious isoforms, sequences based on experimental artifacts and protein products derived from erroneous gene model predictions are also revisited. This work is in part done in collaboration with the Hinxton Sequence Forum (HSF), which allows active exchange between UniProt, HAVANA, Ensembl and HGNC groups, as well as with RefSeq database. UniProt is a member of the Consensus CDS project and thye are in the process of reviewing their records to support convergence towards a standard set of protein annotation. They also continuously update human entries with functional annotation, including novel structural, post-translational modification, interaction and enzymatic activity data. In order to identify candidates for re-annotation, they use, among others, information extraction tools such as the STRING database. In addition, they regularly add new sequence variants and maintain disease information. Indeed, this annotation program includes the Variation Annotation Program, the goal of which is to annotate all known human genetic diseases and disease-linked protein variants, as well as neutral polymorphisms. | chordata, protein, protein annotation, functional annotation, human, non-human vertebrate, xenopus laevis, xenopus tropicalis, zebrafish, protein sequence, protein sequencing, nucleotide sequence, sequence, annotation, sequence variant, disease, proteome, gold standard |
is related to: Human Proteomics Initiative is related to: UniProtKB has parent organization: UniProt |
nlx_143879 | SCR_007071 | 2026-02-16 09:46:52 | 0 | |||||||||
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Integrated Nervous System Connectivity Resource Report Resource Website |
Integrated Nervous System Connectivity (RRID:SCR_006391) | NSC | data set, data or information resource | A data set of connectivity statements from BAMS, CoCoMac, BrainMaps, Connectome Wiki, the Hippocampal-Parahippocampal Table of Temporal-Lobe.com, and Avian Brain Circuitry Database. The data set lists which brain sites connectivity is to and from, the organism connectivity is mapped in, and journal references. | connectivity, nervous system, macaque, brain, bird, data set |
uses: Avian Brain Circuitry Database uses: Temporal-Lobe: Hippocampal - Parahippocampal Neuroanatomy of the Rat uses: Connectome Wiki uses: BrainMaps.org uses: CoCoMac uses: Brain Architecture Management System uses: BlueBrain Bluima Connectivity is used by: NIF Data Federation has parent organization: Integrated |
Data are licensed by their respective owners, Use and distribution is subject to the terms of use by the original resource | nif-0000-07732 | https://legacy.neuinfo.org/mynif/search.php?q=*&t=indexable&list=cover&nif=nlx_154697-8 https://neuinfo.org/mynif/search.php?q=*&t=indexable&list=cover&nif=nlx_154697-8, http://neuinfo.org/nif/nifgwt.html?query=nif-0000-07732, https://www.neuinfo.org/mynif/search.php?q=*&t=indexable&nif=nif-0000-07732-1 | SCR_006391 | NIF Integrated Nervous System Connectivity View, Neuroscience Information Framework Integrated Nervous System Connectivity, Integrated NSC View, Integrated NSC, NIF NSC, NIF Integrated NSC, Integrated Nervous System Connectivity View, Nervous System Connectivity | 2026-02-16 09:46:45 | 0 | ||||||
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WUSTL School of Medicine Embryonic Stem Cell Core Resource Report Resource Website |
WUSTL School of Medicine Embryonic Stem Cell Core (RRID:SCR_012441) | WUSM Embryonic Stem Cell Core | service resource, core facility, access service resource | The Murine Embryonic Stem Cell Core has been created to help you create mutations in murine embryonic stem cells. The core has several missions including development of state-of-the-art reagents for the production of targeted mutations in embryonic stem cells, the creation of quality-controlled embryonic stem cell lines, and the teaching of methods for embryonic stem cell culture and manipulation. The core utilizes quality-controlled cells developed here at Washington University. |
is listed by: ScienceExchange has parent organization: Washington University School of Medicine in St. Louis; Missouri; USA |
SciEx_13416 | SCR_012441 | WUSTL School of Medicine Murine Embryonic Stem Cell Core, WUSM Murine Embryonic Stem Cell Core | 2026-02-16 09:48:10 | 0 | |||||||||
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Marion Bessin Liver Research Center Animal Models Stem Cells and Cell Therapy Resource Report Resource Website |
Marion Bessin Liver Research Center Animal Models Stem Cells and Cell Therapy (RRID:SCR_015181) | service resource, core facility, access service resource, resource | Core that provides resources, technologies and scientific expertise to advance translational applications of animal and human liver cells. It also provides bred animals for research, isolation and culture of animal and human liver cells, as well as provision of cell culture additives and materials. | bred animals, animal models, stem cells, liver cells |
is listed by: NIDDK Information Network (dkNET) has parent organization: Albert Einstein College of Medicine; New York; USA has parent organization: Marion Bessin Liver Research Center is organization facet of: Marion Bessin Liver Research Center |
NIDDK P30DK041296 | Available to the research community | SCR_015181 | 2026-02-16 09:48:43 | 0 | |||||||||
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Yale Diabetes Research Center Physiology Core Facility Resource Report Resource Website |
Yale Diabetes Research Center Physiology Core Facility (RRID:SCR_015147) | service resource, core facility, access service resource | Fee-for-service core facility for DRC members to facilitate in vivo diabetes-related research dealing with biological outcomes in normal, diabetic, and genetically manipulated rodents and mice. Physiology Core is divided into two Sub-cores: the Animal Surgery and Experimental Procedure Sub-core, which provides assistance with in vivo rodent studies the Analytical Sub-core, which assists with measurement of various analytes in rat and mouse samples. | in vivo diabetes research, rodent studies, diabetes rodents |
is listed by: NIDDK Information Network (dkNET) has parent organization: Yale University; Connecticut; USA has parent organization: Yale Diabetes Research Center is organization facet of: Yale Diabetes Research Center |
Diabetes | NIDDK P30DK045735 | Restricted | SCR_015147 | Yale Diabetes Research Center Physiology Core | 2026-02-16 09:48:49 | 0 |
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