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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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Stroke Patient Recovery Research Database (SPReD) Resource Report Resource Website |
Stroke Patient Recovery Research Database (SPReD) (RRID:SCR_005508) | SPReD | data or information resource, database, image | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 28,2025. The Stroke Patient Recovery Research Database (SPReD) initiative creates the infrastructure needed for the collection of a wide range of data related to stroke risk factors and to stroke recovery. It also promotes the analysis and management of large brain and vessel images. A major goal is to create a comprehensive electronic database Stroke Patient Recovery Research Database or SPReD and populate it with patient data, including demographic, biomarker, genetic and proteomic data and imaging data. SPReD will enable us to combine descriptions of our stroke patients from multiple projects that are geographically distributed. We will do this in a uniform fashion in order to enhance our ability to document rates of recovery; to study the effects of vascular risk factors and inflammatory biomarkers; and to use these data to improve their physical and cognitive recovery through innovative intervention programs. This comprehensive database will provide an integrated repository of data with which our researchers will investigate and test original ideas, ultimately leading to knowledge that can be applied clinically to benefit stroke survivors. | stroke, demographic, biomarker, genetic, proteomic, imaging, clinical, brain, vessel, risk factor, recovery | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_144609 | SCR_005508 | Stroke Patient Recovery Research Database | 2026-02-16 09:46:29 | 0 | ||||||||
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Tennenbaum Center for the Biology of Creativity Resource Report Resource Website |
Tennenbaum Center for the Biology of Creativity (RRID:SCR_000668) | data or information resource, organization portal, portal | The purpose of this center is to study the molecular, cellular, systems and cognitive mechanisms that result in cognitive enhancements and explain unusual levels of performance in gifted individuals, including extraordinary creativity. Additionally, by understating the mechanisms responsible for enhancements in performance we may be better suited to intervene and reverse disease states that result in cognitive deficits. One of the key topics addressed by the Center is the biological basis of cognitive enhancements, a topic that can be studied in human subjects and animal models. In the past much of the focus in the brain sciences has been on the study of brain mechanisms that degrade cognitive performance (for example, on mutations or other lesions that cause cognitive deficits). The Tennenbaum Center for the Biology of Creativity at UCLA enables an interdisciplinary team of leading scientists to advance knowledge about the biological bases of creativity. Starting with a pilot project program, a series of investigations was launched, spanning disciplines from basic molecular biology to cognitive neuroscience. Because the concept of creativity is multifaceted, initial efforts targeted refinement of the component processes necessary to generate novel, useful cognitive products. The identified core cognitive processes: 1.) Novelty Generation the ability to flexibly and adaptively generate products that are unique; 2.) Working Memory and Declarative Memory the ability to maintain, and then use relevant information to guide goal-directed performance, along with the capacity to store and retrieve this information; and 3.) Response Inhibition the ability to suppress habitual plans and substitute alternate actions in line with changing problem-solving demands. To study the basic mechanisms underlying these complex brain functions we use translational strategies. Starting from foundational studies in basic neuroscience, we forged an interdisciplinary strategy that permits the most advanced techniques for genetic manipulation and basic neurobiological research to be applied in close collaboration with human studies that converge on the same core cognitive processes. Our integrated research program aims to reveal the genetic architecture and fundamental brain mechanisms underlying creative cognition. The work holds enormous promise for both enhancing healthy cognitive performance and designing new treatments for diverse cognitive disorders. Sponsors: The Tennenbaum Center for the Biology of Creativity was inspired by the vision and generosity of Michael Tennenbaum. | generation, genetic, animal, biological, brain, brain science, cellular, cognitive, cognitive deficit, cognitive disorder, cognitive neuroscience, creativity, declarative memory, disease, habitual, human, inhibition, mechanism, memory, model, molecular, molecular biology, neurobiological, performance, response, working memory | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-10497 | SCR_000668 | UCLA CBC | 2026-02-16 09:45:19 | 0 | |||||||||
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Center for Computational Biology at UCLA Resource Report Resource Website |
Center for Computational Biology at UCLA (RRID:SCR_000334) | CCB, UCLA CCB, USC CCB | data or information resource, organization portal, portal | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on August 31, 2022. Center focused on the development of computational biological atlases of different populations, subjects, modalities, and spatio-temporal scales with 3 types of resources: (1) Stand-alone computational software tools (image and volume processing, analysis, visualization, graphical workflow environments). (2) Infrastructure Resources (Databases, computational Grid, services). (3) Web-services (web-accessible resources for processing, validation and exploration of multimodal/multichannel data including clinical data, imaging data, genetics data and phenotypic data). The CCB develops novel mathematical, computational, and engineering approaches to map biological form and function in health and disease. CCB computational tools integrate neuroimaging, genetic, clinical, and other relevant data to enable the detailed exploration of distinct spatial and temporal biological characteristics. Generalizable mathematical approaches are developed and deployed using Grid computing to create practical biological atlases that describe spatiotemporal change in biological systems. The efforts of CCB make possible discovery-oriented science and the accumulation of new biological knowledge. The Center has been divided into cores organized as follows: - Core 1 is focused on mathematical and computational research. Core 2 is involved in the development of tools to be used by Core 3. Core 3 is composed of the driving biological projects; Mapping Genomic Function, Mapping Biological Structure, and Mapping Brain Phenotype. - Cores 4 - 7 provide the infrastructure for joint structure within the Center as well as the development of new approaches and procedures to augment the research and development of Cores 1-3. These cores are: (4)Infrastructure and Resources, (5) Education and Training, (6) Dissemination, and (7) Administration and Management. The main focus of the CCB is on the brain, and specifically on neuroimaging. This area has a long tradition of sophisticated mathematical and computational techniques. Nevertheless, new developments in related areas of mathematics and computational science have emerged in recent years, some from related application areas such as Computer Graphics, Computer Vision, and Image Processing, as well as from Computational Mathematics and the Computational Sciences. We are confident that many of these ideas can be applied beneficially to neuroimaging. | functional, genetic, biological system, brain, clinical, computational, computational mathematic, disease, health, image processing, physiological, population, structural, neuroimaging, computational neuroscience, imaging genomics, magnetic resonance, pet, spect |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: National Centers for Biomedical Computing has parent organization: Laboratory of Neuro Imaging |
NCRR U54 RR021813 | PMID:22081221 | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-10492 | http://ccb.loni.ucla.edu/ | http://www.nitrc.org/projects/ccb, http://cms.loni.ucla.edu/CCB/ | SCR_000334 | CCB at UCLA, Center for Computational Biology | 2026-02-16 09:45:14 | 0 | |||
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SOAP Resource Report Resource Website 100+ mentions |
SOAP (RRID:SCR_000689) | SOAP, | data processing software, software application, software resource | Software package that provides full solution to next generation sequencing data analysis consisting of an alignment tool (SOAPaligner/soap2), a re-sequencing consensus sequence builder (SOAPsnp), an indel finder ( SOAPindel ), a structural variation scanner ( SOAPsv ), a de novo short reads assembler ( SOAPdenovo ), and a GPU-accelerated alignment tool for aligning short reads with a reference sequence. (SOAP3/GPU)., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | gene, genetic, genomic, next generation sequencing, alignment, short read, bio.tools |
lists: SOAPfusion lists: SOAPfuse lists: SOAPnuke lists: GapCloser is listed by: Genetic Analysis Software is listed by: bio.tools is listed by: Debian has parent organization: BGI; Shenzhen; China is parent organization of: SOAP3 is parent organization of: SOAPaligner/soap2 |
PMID:18227114 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154652, biotools:soap | https://bio.tools/soap | SCR_000689 | SOAP: short oligonucleotide alignment program, Short Oligonucleotide Analysis Package | 2026-02-16 09:45:19 | 402 | |||||
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Zebrafish Atlas Resource Report Resource Website 1+ mentions |
Zebrafish Atlas (RRID:SCR_006722) | Zebrafish Atlas | reference atlas, data or information resource, atlas | Atlas containing 2- and 3-dimensional, anatomical reference slides of the lifespan of the zebrafish to support research and education worldwide. Hematoxylin and eosin histological slides, at various points in the lifespan of the zebrafish, have been scanned at 40x resolution and are available through a virtual slide viewer. 3D models of the organs are reconstructed from plastic tissue sections of embryo and larvae. The size of the zebrafish, which allows sections to fall conveniently within the dimensions of the common 1 x 3 glass slide, makes it possible for this anatomical atlas to become as high resolution as for any vertebrate. That resolution, together with the integration of histology and organ anatomy, will create unique opportunities for comparisons with both smaller and larger model systems that each have their own strengths in research and educational value. The atlas team is working to allow the site to function as a scaffold for collaborative research and educational activity across disciplines and model organisms. The Zebrafish Atlas was created to answer a community call for a comprehensive, web-based, anatomical and pathological atlas of the zebrafish, which has become one of the most widely used vertebrate animal models globally. The experimental strengths of zebrafish as a model system have made it useful for a wide range of investigations addressing the missions of the NIH and NSF. The Zebrafish Atlas provides reference slides for virtual microscopic viewing of the zebrafish using an Internet browser. Virtual slide technology allows the user to choose their own field of view and magnification, and to consult labeled histological sections of zebrafish. We are planning to include a complete set of embryos, larvae, juveniles, and adults from approximately 25 different ages. Future work will also include a variety of comparisons (e.g. normal vs. mutant, normal vs. diseased, multiple stages of development, zebrafish with other organisms, and different types of cancer)., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | embryo, eosin, expression, genetic, adult, anatomical, anatomy, cancer, development, hematoxylin, histological, histology, juvenile, larvae, lifespan, model, slide, sagittal, coronal, transverse, stage, embryonic zebrafish, juvenile zebrafish, immature zebrafish, larval zebrafish, young zebrafish, adult zebrafish | has parent organization: Pennsylvania State University | Normal, Mutant, Cancer | NCRR | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-24352 | SCR_006722 | Penn State Zebrafish Atlas, Zebrafish Atlas - A Lifespan Atlas of the Zebrafish, PSU Zebrafish Atlas | 2026-02-16 09:46:47 | 3 | |||||
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LDHEATMAP Resource Report Resource Website 100+ mentions |
LDHEATMAP (RRID:SCR_006312) | software application, software resource | Software application that plots measures of pairwise linkage disequilibria for SNPs (entry from Genetic Analysis Software) | gene, genetic, genomic, r | is listed by: Genetic Analysis Software | nlx_154424, SCR_009347, nlx_154561 | http://stat-db.stat.sfu.ca:8080/statgen/research/LDheatmap | SCR_006312 | R/LDHEATMAP | 2026-02-16 09:46:41 | 160 | ||||||||
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HCLUST Resource Report Resource Website 1000+ mentions |
HCLUST (RRID:SCR_009154) | HCLUST | software application, software resource | Software application that is a simple clustering method that can be used to rapidly identify a set of tag SNP's based upon genotype data (entry from Genetic Analysis Software), THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | gene, genetic, genomic, r, bio.tools |
is listed by: Genetic Analysis Software is listed by: bio.tools is listed by: Debian |
THIS RESOURCE IS NO LONGER IN SERVICE | biotools:h-clust, SCR_009102, nlx_154195, nlx_154331 | https://bio.tools/h-clust | SCR_009154 | R/HCLUST | 2026-02-16 09:47:21 | 1459 | ||||||
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MUGA Resource Report Resource Website 100+ mentions |
MUGA (RRID:SCR_014072) | data set, data or information resource | MUGA genotypes for 458 samples from the developing CC lines described in the February 2012 issue of Genetics. Genotypes for 168 reference strains that include biological and technical replicates for the the 8 CC founder strains and their F1 crosses are also provided. Genotype calls are those reported by Illumina. All results are provided as comma separated files with one row per marker. Each marker is identified by a probe name and its genomic position in NCBI Build 37. | genetic, genotype, reference strain, cc line |
is affiliated with: Mutant Mouse Resource and Research Center has parent organization: University of North Carolina at Chapel Hill; North Carolina; USA |
PMID:22345608 | SCR_014072 | 2026-02-16 09:48:31 | 262 | ||||||||||
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Vermont University Genetics Network Bioinformatics Core Facility Resource Report Resource Website 1+ mentions |
Vermont University Genetics Network Bioinformatics Core Facility (RRID:SCR_017686) | service resource, core facility, access service resource | Core provides expertise in biostatistics, microarray data analysis, proteome informatics, next generation sequencing data analysis, functional analysis, database development and information technology, including data storage infrastructure and high performance computing. Working closely with VGN Proteomics Facility, offers investigators experimental design consultations, comprehensive data analysis, data management and publishing, and manuscript and grant support. Core personnel also engage in teaching and training activities for data analysis and compute resources necessary for VGN network investigators. Our goal is to provide network researchers with bioinformatics expertise. | Vermont, genetic, network, bioinformatic, core, data, analysis, microarray, proteome, next, generation, sequencing, functional, database, core | Open | SCR_017707, ABRF_8 | SCR_017686 | Vermont Genetics Network Bioinformatics Core | 2026-02-16 09:49:17 | 1 | |||||||||
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Steve and Cindy Rasmussen Institute for Genomic Medicine Clinical Laboratory Core Facility at Nationwide Children�s Hospital Resource Report Resource Website 1+ mentions |
Steve and Cindy Rasmussen Institute for Genomic Medicine Clinical Laboratory Core Facility at Nationwide Children�s Hospital (RRID:SCR_017840) | IGM | service resource, core facility, access service resource | Core performs and analyzes integrated clinical genomic, molecular, microarray, FISH, and cytogenetic analyses to diagnose broad range of inherited diseases and cancer. Serves as centralized clinical testing laboratory for Children Oncology Group leukemia, Wilms tumor, medulloblastoma, and rhabdomyosarcoma studies. Emphasizes collaborative interactions between clinicians, physician-scientists, and basic science investigators to quickly transition cutting edge research results into cutting edge diagnostics, using technology platforms. Services include Whole Exome Sequencing (WES),cytogenetic chromosome analysis,Fluorescence in situ Hybridization,Chromosomal microarray analysis,Molecular Genetic Testing - Inherited Diseases,Molecular Genetic Testing - Cancer. | Clinical, genomic, molecular, microarray, FISH, cytogenetic, inherited, disease, cancer, testing, children, oncology, leukemia, medulloblastoma, rhadomyosarcoma, diagnosis, whole, exome, sequencing, chromosomal, microarray, analysis, molecular, genetic, service, core, ABRF | is listed by: ABRF CoreMarketplace | Restricted | ABRF_631 | SCR_017840 | Institute for Genomic Medicine Clinical Laboratory | 2026-02-16 09:49:20 | 8 | |||||||
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Albert Einstein College of Medicine Molecular Cytogenetics Core Facility Resource Report Resource Website |
Albert Einstein College of Medicine Molecular Cytogenetics Core Facility (RRID:SCR_017815) | MC | service resource, core facility, access service resource | Core provides tools for preparation of human and murine samples suitable for molecular genetic and cytogenetic analysis of entire genome. These tools include establishment of EBV transformed cell lines; isolation of DNA and mRNA from variety of tissue culture samples as well as primary biopsies; preparation of metaphase chromosomes suitable for fluorescence in situ hybridization (FISH) and Spectral Karyotyping (SKY) or whole chromosome paints for human and mouse genome. Core personnel is trained to hybridize commercial probes and to designed locus specific probes for regions of interest to investigators. All probes are custom designed and in house generated. | Molecular, cytogenetic, preparation, human, murine, sample, genetic, analysis, genome, DNA, mRNA, isolation, metaphase, chromosome, fluorescence, in situ, hybridization, spectra, kayotyping, commercial, design, locus, specific, probe, service, core, ABRF | is listed by: ABRF CoreMarketplace | Open | ABRF_580 | SCR_017815 | Molecular Cytogenetics Core Albert Einstein College of Medicine | 2026-02-16 09:49:20 | 0 | |||||||
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Northwestern University High Throughput Analysis Laboratory Core Facility Resource Report Resource Website 1+ mentions |
Northwestern University High Throughput Analysis Laboratory Core Facility (RRID:SCR_017879) | NU-HTA | service resource, core facility, access service resource | Core provides expertise and resources for large scale biology. Helps to set up, run, gather data and perform analysis in drug discovery research, biochemistry, cell and organismal biology, functional genomic screening, and synthetic genetic. Works with proteins, nucleic acids, small model organisms, and microbial strains. Provides tissue culture,produces and uses lentivirus particles, screens compound libraries, does experiments for investigators,generates preliminary data to figure out if idea is workable, discusses project development. Services include Macromolecular binding, biochemical, and cell-based assays,High content screening with widefield or confocal optics,Nanoliter liquid handling up to 1536-well density,Whole-plate kinetic assays (ion currents, GPCR signaling),Compound library screening,CRISPR/Cas9 screening (multiplexed libraries),Analysis of large data sets,Fluorescence Thermal Shift assay (measures protein melting),Complex liquid handling work flows. | Collect, perform, analysis, drug, discovery, biochemistry, cell, organisational, biology, functional, genomic, screening, synthetitc, genetic, data, assay, library, CRISPR, Cas9, kinetic, fluorescence, shift, protein, melting, core, service |
is listed by: ABRF CoreMarketplace has parent organization: Northwestern University; Illinois; USA |
Open | SCR_017771, ABRF_724 | https://coremarketplace.org/?FacilityID=724&citation=1 | SCR_017879 | Northwestern Highthroughput Analysis Laboratory | 2026-02-16 09:49:22 | 2 | ||||||
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coloc Resource Report Resource Website 50+ mentions |
coloc (RRID:SCR_026041) | software toolkit, source code, software resource | Software package to perform genetic colocalisation analysis of two potentially related phenotypes, to ask whether they share common genetic causal variant(s) in a given region.Colocalisation Tests of Two Genetic Traits. | Colocalisation tests, two genetic traits, genetic colocalisation analysis, genetic, colocalisation, two potentially related phenotypes, share common genetic causal variant, | Free, Available for download, Freely available, | https://CRAN.R-project.org/package=coloc | SCR_026041 | , coloc v5.2.3 | 2026-02-16 09:51:04 | 57 | |||||||||
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Columbia University Zuckerman Institute Molecular Tools Core Facility Resource Report Resource Website 1+ mentions |
Columbia University Zuckerman Institute Molecular Tools Core Facility (RRID:SCR_026201) | service resource, core facility, access service resource | Full service viral vector production core that provides investigators access to vector technology for preclinical studies and other basic research applications. Staff will provide expert consultation services for advanced study design, safe use of viral vector technologies and viral construction services for multiple viral vector types. | Virology, antibodies, genetic, access tool, viral vector production, viral construction services, multiple viral vector types, | Open | SCR_026201 | The Zuckerman Institute Molecular Tools Core, , Antibodies and Genetic Access Tools, Zuckerman Institute: Molecular Tools - Virology | 2026-02-16 09:51:12 | 1 | ||||||||||
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Cell Model Passports Resource Report Resource Website 1+ mentions |
Cell Model Passports (RRID:SCR_027682) | database, data or information resource, catalog | Hub for clinical, genetic and functional datasets of preclinical cancer models.Provides details of cell model relationships, patient and clinical information, as well as access to associated genetic and functional datasets. Passports database contains curated details and standardized annotation for cell models, including cancer organoid cultures. Users can navigate database via tissue, cancer-type, genetic feature and data availability to select model. REST-API provides programmatic data access and exploration. | clinical, genetic, functional, datasets, preclinical cancer models, | has parent organization: Wellcome Trust Sanger Institute; Hinxton; United Kingdom | Wellcome Trust ; Wellcome Sanger Institute |
PMID:30260411 | Free, Freely available | SCR_027682 | 2026-02-16 09:51:27 | 2 |
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