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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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Moffitt Cancer Center Tissue Core Resource Report Resource Website |
Moffitt Cancer Center Tissue Core (RRID:SCR_004406) | MCC TC | biomaterial supply resource, material resource, tissue bank | A central tissue repository at Moffitt specializing in protocol-driven human tissue collection, storage, processing and dissemination. Tissue Core provides investigators with access to high quality, well-annotated human specimens obtained from representative of the patient populations. The advent of powerful molecular technologies has opened the door to developing more effective treatments of patients with cancer. Access to high quality specimens with associated clinical, treatment, recurrence outcome data will be critical to developing and validating the tests needed for diagnosis and prediction of response to therapy. Since its commencement in 1993, the Tissue Core has collected more than 8,000 cases of human liquid cancers and solid primary and metastatic tumors both malignant and benign with adjacent normal, from variety of sites and diagnoses. Collected samples are mostly remnant tissues obtained from patients undergoing therapeutic surgical procedures at the Center. The core also ensures tissue release compliance with USF-IRB and Privacy Board recommendations. * Protocol driven sample collection, processing and distribution * Collection of sample and patient demographic information. * Nucleic acid extractions from tissue sections, FNA, core biopsies blood and bone marrow. * Histology services: H&E slides, staining, sectioning, paraffin blocks, OCT blocks, sample microdissection * WBC, plasma and serum isolation. * Project development and support: Facility staff provides advice and guidance to researchers. | cancer, liquid cancer, solid primary tumor, solid tumor, metastatic tumor, malignant, benign, normal, tumor, clinical data, h&e slide, stain, section, paraffin block, oct block, sample microdissection, white blood cell, plasma, serum, private (moffitt cancer center), research |
is listed by: One Mind Biospecimen Bank Listing has parent organization: Moffitt Cancer Center |
Cancer, Normal, Malignant, Benign, Tumor | Private, (Moffitt Cancer Center) | nlx_143721 | http://www.moffitt.org/Site.aspx?spid=2DB275A62C464E15B6E7039BCEA1EB43 | SCR_004406 | 2026-08-04 09:41:08 | 0 | ||||||
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Tumorbank Basel Foundation Resource Report Resource Website |
Tumorbank Basel Foundation (RRID:SCR_004962) | Tumorbank Basel Foundation | biomaterial supply resource, material resource, tissue bank | Since 1995 the Tumorbank Basel Foundation (German: Stiftung Tumorbank Basel) is a non-for-profit foundation acting in cancer translation research. The purpose of the Tumorbank Basel Foundation is to support in promoting optimization of decision making process for the management of solid cancer personalized treatment modalities to the benefit of the patient. Our Aims: * Acquisition and storage of biological material and clinical data of patients suffering of solid cancer diseases in particular breast and prostate cancer. * Promoting and supporting cancer research using the acquired material and data for clinical studies and translational research. * The development of molecular tumor analyses / tools for cancer patients and the performance of the resulting diagnostic services for personalized treatment modalities. The Tumorbank Basel Foundation has acquired * Data about more than 10''000 breast cancer patients * Data comprise clinical and pathological (histology & IHC) characteristics and biochemical (continuous quantified protein expression levels) features, which are available for almost all samples as well as clinical follow-ups now available for more than 2''000 patients * The RNA expression level of 65 genes has been assessed in >800 samples by Real-Time PCR (317 retrospectively in cases with follow-up, the remaining on a routine basis, prospectively since 2004) The Tumorbank Basel Foundation is storing in Freezers at - 80 degrees C * Ca. 6''000 fresh frozen tissue samples of breast cancer patients * Ca. 9''000 particulate fractions (cytosol / membrane) of all samples analyzed * Ca. 1''000 paired non-malignant adjacent tissue material samples * More than 1''000 extracted RNA samples of good quality * Serum and plasma collection from patients has been started since 2005 All data are stored in a relational SQL data bank using an application. The Tumorbank Basel Foundation is collaborating with several pathology institutes allowing to perform studies correlating results obtained from fresh frozen and paired paraffin embedded tissue samples. The Tumorbank Basel Foundation has started a prostate carcinoma project in Collaboration with the ZeTuP (www.zetup.ch) and pathology institute of St. Gallen. Fresh frozen samples of more than 150 prostate carcinoma patients have been collected and are under investigation. | tissue, tumor tissue, serum, plasma, rna, particulate fraction, clinical data, frozen, fresh frozen, paraffin embedded, cancer, breast cancer, prostate cancer, solid cancer disease | is listed by: One Mind Biospecimen Bank Listing | Cancer, Breast cancer, Prostate cancer, Solid cancer disease | Collaborators: The Tumorbank Basel Foundation is collaborating with several pathology institutes allowing to perform studies correlating results obtained from fresh frozen and paired paraffin embedded tissue samples. | nlx_143986 | SCR_004962 | Stiftung Tumorbank Basel | 2026-08-04 09:41:15 | 0 | ||||||
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Brain-Net Resource Report Resource Website 10+ mentions |
Brain-Net (RRID:SCR_005017) | biomaterial supply resource, material resource, tissue bank | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on June 28,2022. A network of several university centers in Germany that classifies neurological and psychiatric disorders neuropathologically and collects and provides brain tissue for research. The aim and task of the Brain-Net are: the collection of clinically and neuropathologically well-characterized brain tissue samples; the standardization of neuropathological diagnoses according to internationally accepted criteria; and providing a basis for future research projects using genetic, epidemiological, biometric and other issues to neurological and psychiatric disorders. | brain, tissue, autopsy, neurological disorder, mental disease, parkinson's disease, dementia, schizophrenia, suicidal tendency, depressive disorder, suicide, alzheimer's disease, amyotrophic lateral sclerosis, post mortem |
is listed by: One Mind Biospecimen Bank Listing has parent organization: Ludwig-Maximilians-University; Munich; Germany |
Neurological disorder, Mental disease, Parkinson's disease, Dementia, Schizophrenia, Suicidal tendency, Depressive disorder, Alzheimer's disease, Amyotrophic lateral sclerosis | German Federal Ministry of Research and Education | THIS RESOURCE IS NO LONGER IN SERVICE. | nlx_144007 | SCR_005017 | BrainNet Germany, BrainNet | 2026-08-04 09:41:16 | 13 | ||||||
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Alabama Organ Center Resource Report Resource Website |
Alabama Organ Center (RRID:SCR_004721) | AOC | biomaterial supply resource, material resource, tissue bank | The Alabama Organ Center (AOC) is the federally designated organ procurement organization for the state of Alabama. We work with all of the hospitals in the state to coordinate their donation services. Like all organ procurement organizations, the AOC is a non-profit organization. We provide a variety of services: * Hospital education * Public education * Screening of potential donors * Coordination of the donation process * Family support The AOC is committed to providing a better quality of life for those who require an organ or tissue transplant, while respecting the families who share the gift of life. | is listed by: One Mind Biospecimen Bank Listing | nlx_71444 | SCR_004721 | 2026-08-04 09:41:12 | 0 | ||||||||||
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ILSbio Resource Report Resource Website |
ILSbio (RRID:SCR_004682) | ILSbio | biomaterial supply resource, material resource, tissue bank | THIS RESOURCE IS NO LONGER IN SERVICE, documented May 10, 2017. A pilot effort that has developed a centralized, web-based biospecimen locator that presents biospecimens collected and stored at participating Arizona hospitals and biospecimen banks, which are available for acquisition and use by researchers. Researchers may use this site to browse, search and request biospecimens to use in qualified studies. The development of the ABL was guided by the Arizona Biospecimen Consortium (ABC), a consortium of hospitals and medical centers in the Phoenix area, and is now being piloted by this Consortium under the direction of ABRC. You may browse by type (cells, fluid, molecular, tissue) or disease. Common data elements decided by the ABC Standards Committee, based on data elements on the National Cancer Institute''s (NCI''s) Common Biorepository Model (CBM), are displayed. These describe the minimum set of data elements that the NCI determined were most important for a researcher to see about a biospecimen. The ABL currently does not display information on whether or not clinical data is available to accompany the biospecimens. However, a requester has the ability to solicit clinical data in the request. Once a request is approved, the biospecimen provider will contact the requester to discuss the request (and the requester''s questions) before finalizing the invoice and shipment. The ABL is available to the public to browse. In order to request biospecimens from the ABL, the researcher will be required to submit the requested required information. Upon submission of the information, shipment of the requested biospecimen(s) will be dependent on the scientific and institutional review approval. Account required. Registration is open to everyone., documented on August 17, 2021.Biospecimens and support services to advance translational research including a wide range of specimen types, including matched sets of normal and diseased tissue, Formalin-Fixed, Paraffin-Embedded (FFPE), blood, and serum, focusing primarily on cancer. They stock a wide range of sample formats to help meet research goals quickly and on budget. Collections are preformed to be ideal for a wide range of studies including genomic, proteomic, molecular and histologic analysis. ILSbio provides tissue and tissue derivatives that are high quality, cost effective and procured in compliance with current and anticipated regulations. The company obtains its clinical specimens under strict IRB approved protocols with informed consent and the utmost attention to issues of patient safety, anonymity and confidentiality. Clinical and pathological data is available for all specimens. Researchers use the tissue products at all levels of scientific study ranging from large pharma and biotech organizations to small labs and university research facilities. They also participate in wholesale distribution to other bio-banking organizations. | disease, tissue, formalin-fixed paraffin-embedded, blood, serum | is listed by: One Mind Biospecimen Bank Listing | Cancer, Normal | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_68031 | SCR_004682 | ILSbio LLC, ILSbio LLC (Integrated Laboratory Services - Biotech), Integrated Laboratory Services - Biotech, ILSbio: Wolrd''s Most Comprehensive Tissue Collection Network | 2026-08-04 09:41:11 | 0 | ||||||
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ToppCluster Resource Report Resource Website 100+ mentions |
ToppCluster (RRID:SCR_001503) | ToppCluster | data analysis service, resource, analysis service resource, production service resource, service resource | A tool for performing multi-cluster gene functional enrichment analyses on large scale data (microarray experiments with many time-points, cell-types, tissue-types, etc.). It facilitates co-analysis of multiple gene lists and yields as output a rich functional map showing the shared and list-specific functional features. The output can be visualized in tabular, heatmap or network formats using built-in options as well as third-party software. It uses the hypergeometric test to obtain functional enrichment achieved via the gene list enrichment analysis option available in ToppGene. | term enrichment, gene, analysis, gene enrichment analysis, connectivity, heatmap, ortholog, microarray, function, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian is related to: GenitoUrinary Development Molecular Anatomy Project is related to: ToppGene Suite |
NIDDK 1U01DK70219; NIDDK P30DK078392; NCRR U54 RR025216; NIDCR U01DE020049 |
PMID:20484371 | Free | OMICS_02225, nlx_152801, biotools:toppcluster | https://bio.tools/toppcluster | SCR_001503 | ToppCluster: A multiple gene list feature analyzer for the dissection of biological systems | 2026-08-04 09:40:24 | 144 | ||||
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vIST/e Resource Report Resource Website 1+ mentions |
vIST/e (RRID:SCR_001627) | vIST/e | data processing software, software resource, software application, image processing software, image analysis software, software toolkit | Open source, platform-independent application for the visualization and analysis of complex, high-dimensional imaging data such as Diffusion Tensor Imaging (DTI) and High Angular Resolution Diffusion Imaging (HARDI). It has a plugin-based architecture which allows third parties to develop new plugins to extend the tool. Overview of the many features: * vIST/e is programmed in C++. It uses the Visualization Toolkit for visualization and pipelined data processing, as well as the cross-platform toolkit Qt Framework for an easy-to-use Graphical User Interface. * vIST/e introduces a powerful new plugin system, which allows for modular development with increased extensibility and stability. * Powerful GPU-based visualization techniques allow for smooth, real-time visualization of large data sets. Using custom ray tracing algorithms created with OpenGL, vIST/e can render DTI ellipsoids and HARDI spherical harmonics glyphs up to 4th order. The high frame rates offered by modern GPU technology allows for interactive exploration of this complex data. * Diffusion Tensor Imaging data can be visualized and interactively explored in a number of ways, including multiple cross-sections, volume rendering, and tensor glyphs. Derived scalar volumes, including various different anisotropy measures, can be computed and visualized. Data from other modalities, such as structural MRI, can be shown alongside the DTI data. * Various fiber tracking methods allow for fast and accurate reconstruction of fiber pathways. Interactively defined Regions of Interest (ROIs) can be used for seeding and filtering of fibers. Fibers are visualized either as lines, optionally using a powerful, GPU-based lighting engine, or as 3D structures such as tubes. * Scalar volumes, glyphs, and fibers can be colored using a wide array of coloring option. Customizable color loop-up tables allow for highly flexible visualization of scalar data. * Visualization and processing of various different HARDI formats is supported. HARDI data is interactively visualized using highly detailed glyphs rendered on the GPU. HARDI glyphs can be visualized in combination with DTI glyphs, for a better overview of complex diffusion data. * vIST/e includes support for NVIDIA's Compute Unified Device Architecture (CUDA), which enables highly parallel, GPU-based data processing, allowing for significant speed-up of computationally expensive algorithms. | diffusion tensor imaging, high angular resolution diffusion imaging, visualization, cross-section, volume rendering, tensor glyph, mri, fiber tracking |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: Diffusion MRI of Traumatic Brain Injury has parent organization: Eindhoven University of Technology; North Brabant; Netherlands |
Free, Available for download, Freely available | nlx_153923 | http://www.nitrc.org/projects/viste | SCR_001627 | DTITool | 2026-08-04 09:40:26 | 4 | ||||||
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Mind Research Network - COINS Resource Report Resource Website 10+ mentions |
Mind Research Network - COINS (RRID:SCR_000805) | COINS | data set, storage service resource, data repository, service resource, data or information resource | A web-based neuroimaging and neuropsychology software suite that offers versatile, automatable data upload/import/entry options, rapid and secure sharing of data among PIs, querying and export all data, real-time reporting, and HIPAA and IRB compliant study-management tools suitable to large institutions as well as smaller scale neuroscience and neuropsychology researchers. COINS manages over over 400 studies, more than 265,000 clinical neuropsychological assessments, and 26,000 MRI, EEG, and MEG scan sessions collected from 18,000 participants at over ten institutions on topics related to the brain and behavior. As neuroimaging research continues to grow, dynamic neuroinformatics systems are necessary to store, retrieve, mine and share the massive amounts of data. The Collaborative Informatics and Neuroimaging Suite (COINS) has been created to facilitate communication and cultivate a data community. This tool suite offers versatile data upload/import/entry options, rapid and secure sharing of data among PIs, querying of data types and assessments, real-time reporting, and study-management tools suitable to large institutions as well as smaller scale researchers. It manages studies and their data at the Mind Research Network, the Nathan Kline Institute, University of Colorado Boulder, the Olin Neuropsychiatry Research Center (at) Hartford Hospital, and others. COINS is dynamic and evolves as the neuroimaging field grows. COINS consists of the following collaboration-centric tools: * Subject and Study Management: MICIS (Medical Imaging Computer Information System) is a centralized PostgreSQL-based web application that implements best practices for participant enrollment and management. Research site administrators can easily create and manage studies, as well as generate reports useful for reporting to funding agencies. * Scan Data Collection: An automated DICOM receiver collects, archives, and imports imaging data into the file system and COINS, requiring no user intervention. The database also offers scan annotation and behavioral data management, radiology review event reports, and scan time billing. * Assessment Data Collection: Clinical data gathered from interviews, questionnaires, and neuropsychological tests are entered into COINS through the web application called Assessment Manager (ASMT). ASMT's intuitive design allows users to start data collection with little or no training. ASMT offers several options for data collection/entry: dual data entry, for paper assessments, the Participant Portal, an online tool that allows subjects to fill out questionnaires, and Tablet entry, an offline data entry tool. * Data Sharing: De-identified neuroimaging datasets with associated clinical-data, cognitive-data, and associated meta-data are available through the COINS Data Exchange tool. The Data Exchange is an interface that allows investigators to request and share data. It also tracks data requests and keeps an inventory of data that has already been shared between users. Once requests for data have been approved, investigators can download the data directly from COINS. | mri, fmri, neuropsychological assessment, neuroimaging, diffusion tensor imaging assay, magnetic resonance imaging assay, functional mri assay, diffusion magnetic resonance imaging, magnetoencephalography, electroencephalography, brain, behavior, data sharing, data management, clinical, computed tomography, magnetic resonance, single photon emission computed tomography, positron emission tomography, clinical assessment clinical neuroinformatics, image collection, mri 2d image, database application |
is used by: Consortium for Reliability and Reproducibility is used by: DataLad is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: NKI-RS Enhanced Sample has parent organization: Mind Research Network is parent organization of: MCIC |
Aging | NIBIB 1 R01 EB 000840; NIBIB 1 R01 EB 006841; NIBIB 1 R01 EB 005846 |
PMID:22275896 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_144067 | http://www.nitrc.org/projects/coins | SCR_000805 | Mind Research Network - Collaborative Informatics and Neuroimaging Suite, Collaborative Informatics Neuroimaging Suite, Collaborative Informatics and Neuroimaging Suite | 2026-08-04 09:40:14 | 20 | |||
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RAVEN Resource Report Resource Website 100+ mentions |
RAVEN (RRID:SCR_001937) | RAVEN | data analysis service, analysis service resource, production service resource, service resource, database, data or information resource | Tool to search for putative regulatory genetic variation in your favorite gene. Single nucleotide polymorphisms (SNPs) (from dbSNP and user defined) are analyzed for overlap with potential transcription factor binding sites (TFBS) and phylogenetic footprinting using UCSC phastCons scores from multiple alignments of 8 vertebrate genomes., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | transcription factor binding site, phylogenetic footprint, regulatory sequence variation, genetic variation, in silico, regulatory sequence, FASEB list |
uses: Embassy-domsearch is listed by: OMICtools has parent organization: University of British Columbia; British Columbia; Canada |
PMID:18208319 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_01932 | SCR_001937 | Regulatory analysis of Variation in Enhancers, RAVEN - Regulatory analysis of Variation in ENhancers | 2026-08-04 09:40:30 | 127 | ||||||
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Penn Alzheimer's Disease Center Resource Report Resource Website |
Penn Alzheimer's Disease Center (RRID:SCR_004444) | topical portal, portal, disease-related portal, data or information resource | A national Alzhiemer's disease research center funded by the National Institute on Aging, and the research arm of the Penn Memory Center. | alzheimer's disease, memory, dementia, late adult human, disease related portal |
has parent organization: University of Pennsylvania Center for Neurodegenerative Disease Research is parent organization of: University of Pennslyvania Brain Bank |
Alzheimer's disease, Dementia, Aging | National Institute on Aging | nlx_144494 | http://www.med.upenn.edu/cndr/pennsalzheimers.shtml | SCR_004444 | Penn Alzheimer's Disease Center, Penn ADC, University of Pennsylvania Alzheimer's Disease Center | 2026-08-04 09:41:08 | 0 | ||||||
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MEGSIM Resource Report Resource Website |
MEGSIM (RRID:SCR_002420) | MEGSIM | simulation software, data set, software resource, software application, data or information resource | Realistic simulated MEG datasets ranging from basic sensory to oscillatory sets that mimic functional connectivity; as well as basic visual, auditory, and somatosensory empirical sets. The simulated sets were created for the purpose of testing analysis algorithms across the different MEG systems when the truth is known. MEG baseline recordings were obtained from 5 healthy participants, using three MEG systems: VSM/CTF Omega, Elekta Neuromag Vectorview, 4-D Magnes 3600. Simulated signals were embedded within the CTF and Neuromag 306 baseline recordings (4-D to be added). Participant MRIs are available. Averaged simulation files are available as netcdf files. Neuromag 306 averaged simulations are also available in fif format. Also available: single trials of data where the simulated signal is jittered about a mean value, continuous fif files where the simulated signal is marked by a trigger, and simulations with oscillations added to mimic functional connectivity. | eeg, meg, electrocorticography, forward - inverse, mri, meg modeling, model, simulation, os independent, test data, image collection |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Mind Research Network |
NIMH R21MH080141 | PMID:22068921 | Free, Freely available | nlx_155793 | http://www.nitrc.org/projects/megsim | SCR_002420 | 2026-08-04 09:40:38 | 0 | |||||
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SNPeffect Resource Report Resource Website 50+ mentions |
SNPeffect (RRID:SCR_005091) | SNPeffect | data analysis service, analysis service resource, production service resource, service resource, database, data or information resource | A database for phenotyping human single nucleotide polymorphisms (SNPs)that primarily focuses on the molecular characterization and annotation of disease and polymorphism variants in the human proteome. They provide a detailed variant analysis using their tools such as: * TANGO to predict aggregation prone regions * WALTZ to predict amylogenic regions * LIMBO to predict hsp70 chaperone binding sites * FoldX to analyse the effect on structure stability Further, SNPeffect holds per-variant annotations on functional sites, structural features and post-translational modification. The meta-analysis tool enables scientists to carry out a large scale mining of SNPeffect data and visualize the results in a graph. It is now possible to submit custom single protein variants for a detailed phenotypic analysis., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | single nucleotide polymorphism, phenotyping, mutation, protein-coding variant, molecule, structure, phenotype, non-synonymous coding snp, allelic variation, gene, protein stability, functional site, protein phosphorylation, glycosylation, subcellular localization, protein turnover, protein aggregation, amyloidosis, chaperone interaction, protein variant, FASEB list |
is listed by: OMICtools has parent organization: Catholic University of Leuven; Flemish Brabant; Belgium |
PMID:22075996 PMID:18086700 PMID:16809394 PMID:15608254 |
THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_00187, nif-0000-03480 | http://snpeffect.switchlab.org/ | SCR_005091 | SNPeffect 4 Phenotyping Human Mutations | 2026-08-04 09:41:17 | 59 | |||||
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Nervous Tissue Color Images Resource Report Resource Website 10+ mentions |
Nervous Tissue Color Images (RRID:SCR_002416) | data or information resource, image collection | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 13,2026. An image collection of tissue from the central nervous system and peripheral nervous system. | central nervous system, peripheral nervous system, image collection, nervous tissue, color image | has parent organization: University of Delaware; Delaware; USA | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-21281 | SCR_002416 | University of Delaware Nervous Tissue Color Images, UD Nervous Tissue Color Images | 2026-08-04 09:40:39 | 16 | ||||||||
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ConnectomeDB Resource Report Resource Website 50+ mentions |
ConnectomeDB (RRID:SCR_004830) | ConnectomeDB | image collection, image repository, storage service resource, data repository, service resource, database, data or information resource | Data management platform that houses all data generated by the Human Connectome Project - image data, clinical evaluations, behavioral data and more. ConnectomeDB stores raw image data, as well as results of analysis and processing pipelines. Using the ConnectomeDB infrastructure, research centers will be also able to manage Connectome-like projects, including data upload and entry, quality control, processing pipelines, and data distribution. ConnectomeDB is designed to be a data-mining tool, that allows users to generate and test hypotheses based on groups of subjects. Using the ConnectomeDB interface, users can easily search, browse and filter large amounts of subject data, and download necessary files for many kinds of analysis. ConnectomeDB is designed to work seamlessly with Connectome Workbench, an interactive, multidimensional visualization platform designed specifically for handling connectivity data. De-identified data within ConnectomeDB is publicly accessible. Access to additional data may be available to qualified research investigators. ConnectomeDB is being hosted on a BlueArc storage platform housed at Washington University through the year 2020. This data platform is based on XNAT, an open-source image informatics software toolkit developed by the NRG at Washington University. ConnectomeDB itself is fully open source. | brain, connectivity, human, adult human, evaluation, clinical, behavior, data set, diffusion imaging, resting-state fmri, task-evoked fmri, t1-weighted mri, t2-weighted mri, structural mapping, myelin mapping, magnetoencephalography, electroencephalography, fmri, twin |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: XNAT - The Extensible Neuroimaging Archive Toolkit has parent organization: Washington University in St. Louis; Missouri; USA works with: Connectome Workbench |
Healthy, Twin, Non-twin sibling | NIH Blueprint for Neuroscience Research ; Washington University in St. Louis; Missouri; USA ; McDonnell Center for Systems Neuroscience ; NIMH 1U54MH091657 |
PMID:22366334 | Account required, Open unspecified license, Acknowledgement required, See Data Use Terms, The community can contribute to this resource | nlx_143923 | SCR_004830 | 2026-08-04 09:41:14 | 56 | |||||
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Gene Weaver Resource Report Resource Website 10+ mentions |
Gene Weaver (RRID:SCR_003009) | data analysis service, analysis service resource, storage service resource, data repository, production service resource, service resource, database, data or information resource | Freely accessible phenotype-centered database with integrated analysis and visualization tools. It combines diverse data sets from multiple species and experiment types, and allows data sharing across collaborative groups or to public users. It was conceived of as a tool for the integration of biological functions based on the molecular processes that subserved them. From these data, an empirically derived ontology may one day be inferred. Users have found the system valuable for a wide range of applications in the arena of functional genomic data integration. | phenotype, microarray, gene, genome, functional genomics, process, pathway, function, gene set, genomic data integration, analysis, visualization |
is used by: NIF Data Federation is used by: Integrated Datasets is listed by: OMICtools is related to: Integrated Manually Extracted Annotation has parent organization: Jackson Laboratory |
Integrative Neuroscience Initiative on Alcoholism ; NIAAA U01 AA13499; NIAAA U24 AA13513; NIAAA R01 AA18776 |
PMID:22080549 PMID:19733230 |
Free, Freely available | r3d100012464, OMICS_02232, nif-0000-00517 | http://ontologicaldiscovery.org/, https://doi.org/10.17616/R3248T | SCR_003009 | GeneWeaver, GeneWeaver - A system for the integration of functional genomics experiments, Ontological Discovery Environment, GeneWeaver.org | 2026-08-04 09:40:47 | 34 | |||||
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Biomedical Informatics Research Network Resource Report Resource Website 10+ mentions |
Biomedical Informatics Research Network (RRID:SCR_005163) | BIRN | storage service resource, software resource, data repository, service resource, atlas, database, data or information resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on February 22, 2023. National initiative to advance biomedical research through data sharing and online collaboration that provides data sharing infrastructure, software tools, strategies and advisory services. Groups may choose whether to share data internally or with external audiences. Hardware and data remain under control of individual user groups. | dti, fmri, alzheimer's disease, cognitive impairment, collaborative environment, cyberinfrastructure, data sharing, depressive disorder, information technology, infrastructure, memory dysfunction, microarray, mri, neurodegenerative disease, neuroinformatics, neuroimaging, genetics, biomedical material, neurobiology, electrophysiology, collaboration, biomedical, imaging, imaging system, biomedical engineering, brain, health |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is listed by: Biositemaps is listed by: re3data.org is listed by: DataCite has parent organization: University of Southern California; Los Angeles; USA is parent organization of: Morphometry BIRN is parent organization of: Knowledge Engineering from Experimental Design is parent organization of: Mouse Biomedical Informatics Research Network is parent organization of: NIH Topic Maps - A Topic Database of NIH Funded Grants is parent organization of: Human Imaging Database is parent organization of: Function BIRN is parent organization of: B0 and eddy current correction for DTI is parent organization of: BrainSuite is parent organization of: Open Access Series of Imaging Studies |
NIH Blueprint for Neuroscience Research ; NCRR 1U24-RR025736; NCRR U24-RR021992; NCRR U24-RR021760; NCRR 1U24-RR026057-01; NIGMS U24 GM104203 |
PMID:21515543 PMID:18348946 PMID:17238407 |
THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-00027, r3d100010770 | http://www.nitrc.org/projects/birn, https://doi.org/10.17616/R3F02K | http://www.birncommunity.org/, https://neuroscienceblueprint.nih.gov/factSheet/birn.htm | SCR_005163 | BIRN - The Conduit for Biomedical Research, Biomedical Informatics Research Network - The Conduit for Biomedical Research | 2026-08-04 09:41:18 | 12 | |||
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GeneTalk Resource Report Resource Website 10+ mentions |
GeneTalk (RRID:SCR_005231) | GeneTalk | portal, storage service resource, blog, narrative resource, community building portal, data repository, service resource, database, data or information resource | A web-based tool, knowledgebase and community for analysis and interpretation of human variant files. VCFs (Variant Call Formats) are preprocessed and annotated, you can filter them, access all databases and provide your expertise to the community by creating annotations. | sequence variant, annotation, exome sequencing, genetic variant, gene, data sharing, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools |
PMID:22826540 | The community can contribute to this resource, Free, (during beta period) | OMICS_00270, biotools:genetalk | https://bio.tools/genetalk | SCR_005231 | GeneTalk - The Professional Network and Online Tool for Geneticists | 2026-08-04 09:41:19 | 29 | |||||
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Exemplar Microscopy Images of Tissues Resource Report Resource Website 1+ mentions |
Exemplar Microscopy Images of Tissues (RRID:SCR_021052) | EMIT | experimental protocol, data set, image collection, image repository, storage service resource, immuno detection protocol, narrative resource, 2d spatial image, data repository, service resource, image, data or information resource, immunofluorescence | Reference dataset of multiplexed immunofluorescence microscopy images collected at HMS Laboratory of Systems Pharmacology. Includes set of images of different types for development and benchmarking of computational methods for image processing. As of 4/2/2021, EMIT comprises tissue microarray containing cores from 34 cancer, non-neoplastic diseases, and normal tissue collected from clinical discards under IRB supervised protocol. TMA was imaged using cyclic immunofluorescence method. Additional extensions of EMIT are currently in the planning stages. Long term goal is to compose ImageNet like resource for highly multiplexed images of tissues and tumors by consolidating high quality curated datasets. | Reference dataset, multiplexed immunofluorescence microscopy images, tissue microarray, cyclic immunofluorescence, tissues images, tumors images |
is related to: Synapse is related to: Harvard Medical School; Massachusetts; USA |
glioblastoma, lung adenocarcinoma, prostate adenocarcinoma, seminoma, meningioma, mesothelioma, GI stromal tumor, liver cirrhosis, leiomyosarcoma, high-grade serous ovarian cancer, diverticulitis, acute appendicitis, metastatic melanoma, dedifferentiated liposarcoma | NIH U54 CA225088; NCI U2C CA233262; NCI U2C CA233280; Ludwig Center at Harvard Medical School and the Ludwig Cancer Research Foundation |
DOI:10.1101/2021.03.15.435473 | Restricted | SCR_021052 | Exemplar Microscopy Images of Tissues ( and Tumors) | 2026-08-04 09:44:42 | 3 | |||||
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Prevention of Lower Urinary Tract Symptoms Resource Report Resource Website |
Prevention of Lower Urinary Tract Symptoms (RRID:SCR_016923) | PLUS | portal, organization portal, data or information resource, consortium | Research consortium from many different fields to plan, perform and analyze the studies that are needed to help researchers conduct future prevention and intervention for Lower Urinary Tract Symptoms (LUTS) in women. | plan, perform, analyze, data, prevent, lower, urinary, track, symptom, women |
is listed by: NIDDK Information Network (dkNET) is listed by: Collaborating for the Advancement of Interdisciplinary Research in Benign Urology is related to: University of Minnesota Medical School; Minnesota; USA |
NIDDK | SCR_016923 | Prevention of Lower Urinary Tract Symptoms, Prevention LUTS, PLUS | 2026-08-04 09:44:01 | 0 | ||||||||
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The Human BioMolecular Atlas Program Resource Report Resource Website 10+ mentions |
The Human BioMolecular Atlas Program (RRID:SCR_016922) | HuBMAP | portal, funding resource, project portal, data or information resource | Project to facilitate research on single cells within tissues by supporting data generation and technology development to explore the relationship between cellular organization and function, as well as variability in normal tissue organization at the level of individual cells. Framework for functional mapping the human body with cellular resolution.Designed to support diverse spatial and non-spatial omics and imaging data types and to integrate with a wide range of analysis workflows. | organism, cell, tissue, data, generation, technology, organization, functional, mapping, human, body |
uses: Azimuth is listed by: NIDDK Information Network (dkNET) is related to: HuBMAP Data Portal |
NIH | https://humanatlas.io/omap, https://avr.hubmapconsortium.org/, https://commonfund.nih.gov/HuBMAP, https://zenodo.org/records/5244551 | SCR_016922 | Human BioMolecular Atlas Program, HuBMAP, The Human BioMolecular Atlas Program, NIH HuBMAP | 2026-08-04 09:44:02 | 22 |
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