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A network for supporting resting-state fMRI (R-fMRI) related studies. It connects R-fMRI researchers (as nodes) by their sharings (as edges). Through the network, ideas, comments, resources, tools, experiences, and data can be shared. Researchers (nodes) with basic neuroscience, methodological, or clinical backgrounds can connect with each other in the network. It also contains a preprint server that allows neuroscientists to share their preprints, comment on each others research and get back valuable information about their experiments from their colleagues. This is based on the arXiv model. Ultimately, the network aims to enhance collaborations among researchers, especially to translate knowledge of basic neuroscience and methodology to clinical applications (bench to bedside).
Proper citation: RFMRI.ORG (RRID:SCR_004042) Copy
http://www.cancerresearchuk.org/
Cancer Research UK is UK's largest charity funding cancer research. Cancer Research UK is a registered charity in England and Wales (1089464) and in Scotland (SC041666). Registered as a company limited by guarantee in England & Wales No. 4325234.
Proper citation: Cancer Research UK (RRID:SCR_004041) Copy
A multi-national pharmaceutical and diagnostics company that develops, manufactures, and distributes an extensive array of diagnostics and therapeutics for a wide range of indications and conditions. They focus on production of cardiovascular products, vaccines, hormones, antibiotics, gastrointestinal products, and eye care. The company operates in the U.S., Chile, Israel, Mexico, Uruguay, and Spain. (Adapted from Wikipedia)
Proper citation: OPKO (RRID:SCR_004035) Copy
Disease-related portal with the objective to defeat neuromuscular diseases which are devastating muscle-wasting diseases. It has set itself two missions: curing neuromuscular diseases and reducing the disabilities they cause.
Proper citation: French Muscular Dystrophy Association (RRID:SCR_004033) Copy
Contract research organization, clinical trial services, and pharmaceutical consulting service company. Now IQVIA after merger of Quintiles and IMS Health, Inc.
Proper citation: Quintiles (RRID:SCR_004039) Copy
http://www.antibodyresource.com/
A complete guide to antibody research and suppliers. Serving the scientific community since 1997, the Antibody Resource Page is a guide designed by scientists for scientists to find companies that sell catalog antibodies and custom monoclonal and polyclonal antibodies. See our other pages on antibody-related databases, software, and educational websites. If you wish to suggest or update a link, please see our FAQ.
Proper citation: Antibody Resource Page (RRID:SCR_004069) Copy
Commercial company delivering content for personalized medicine in the areas of Biomarker Services, Biomarker Assays, Isobaric and Isotopic Reagents and Proprietary Biomarkers. A global leader in applied proteomics, they use high sensitivity proprietary technologies to detect biomarkers (differentially expressed proteins in diseases) and to develop rapid assays for testing. The biomarkers discovered in body fluids or tissues are validated, developed and commercialized as diagnostic, prognostic or therapeutic products through strategic alliances and out-licensing.
Proper citation: Proteome Sciences (RRID:SCR_004106) Copy
An independent scientific research organization dedicated to the improvement of the use, quality and cost-effectiveness of pharmaceuticals. They collect, maintain and perform research on patient-centric data to derive real-life insights for tailoring of medicines. They maintain a large and high quality database network and work closely with (inter)national medical universities and European databases. Through its studies with longitudinal and real-life patient data, they contribute to risk management, outcomes research and provides solutions for decision makers in market access, health economics and health outcomes domains. Academics from Dutch universities or research institutes are granted the opportunity to perform scientific studies using the PHARMO Database Network.
Proper citation: PHARMO Institute (RRID:SCR_004105) Copy
A collection of free, open-source model organism databases designed specifically to enable comprehensive, dynamic simulations of entire cells and organisms. WholeCellKB provides comprehensive, quantitative descriptions of individual species including: * Their subcellular organization, * Their chromosome sequences, * The essentiality, location, length, direction, and homologs of each gene, * The organization and promoter of each transcription unit, * The expression and degradation rate of each RNA gene product, * The specific folding and maturation pathway of each RNA and protein species including the localization, N-terminal cleavage, signal sequence, prosthetic groups, disulfide bonds, and chaperone interactions of each protein species, * The subunit composition of each macromolecular complex, * Their genetic code, * The binding sites and footprint of every DNA-binding protein, * The structure, charge, and hydrophobicity of every metabolite, * The stoichiometry, catalysis, coenzymes, energetics, and kinetics of every chemical reaction, * The regulatory strength of each transcription factor on each promoter, * Their chemical composition, and * The composition of its typical SP-4 laboratory growth medium. WholeCellKB currently contains a single database of Mycoplasma genitalium, an extremely small gram-positive bacterium and common human pathogen. This database is the most comprehensive description of any single organism to date, and was used to develop the first whole-cell computational model. Users can download the WholeCellKB source code and content to create and customize - including the content, data model, and user interface - their own model organism database.
Proper citation: WholeCellKB (RRID:SCR_004104) Copy
http://mendel.stanford.edu/sidowlab/downloads/quest/
A Kernel Density Estimator-based package for analysis of massively parallel sequencing data from chromatin immunoprecipitation (ChIP-seq) experiments.
Proper citation: Quantitative Enrichment of Sequence Tags (RRID:SCR_004065) Copy
THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 9, 2023.This project attempts to establish a platform for spike sorting with two different goals: First, to provide a sophisticated benchmark data set which could be used for future publications on this topic. Second, to give researchers using spike sorting software the possibility to evaluate their data under different conditions and compare their results to other spike sorters. Extracellular recordings are a standard procedure to analyzing the activity of neurons. A problem with this kind of recording is the simultaneous recording of not a single neuron but a small local population of neurons. It is not straight-forward to reconstruct the single neuronal activities. To estimate the single neuron activity (the so called spike train) from this multi neuron activity, spike sorting is applied. Many different algorithms for spike sorting were proposed. However, despite many efforts to tackle this problem, it is still difficult to tell under which circumstances which spike sorting algorithm is the best. If you are interested in some basic reading about spike sorting please consult the following references. A review of methods for spike sorting: the detection and classification of neural action potentials M. S. Lewicki (1998), Network: Computation in Neural Systems, Vol. 9, No. 4. (1998), pp. 53-78 Towards reliable spike-train recordings from thousands of neurons with multielectrodes. Einevoll GT, Franke F, Hagen E, Pouzat C, Harris KD (2011), Curr Opin Neurobiol. 2011 Oct 22.
Proper citation: Spike Sorting Evaluation Project (RRID:SCR_004063) Copy
http://www.thebindingsite.com/
Company provides specialist diagnostic products to clinicians and laboratory professionals worldwide. Specialist protein company committed to research, development, manufacture and distribution of immunodiagnostic assays for global laboratory market. Specialized in antibody specificity technology, Binding Site gives clinicians and laboratory staff tools to significantly improve diagnosis and management of those patients with specific cancers and immune disorders. Binding Site manufactures wide range of products for plasma protein analysis including Freelite, Hevylite and SPAplus.
Proper citation: Binding Site (RRID:SCR_004051) Copy
https://brightoncollaboration.org/
A non-profit partnership and global research network providing high quality vaccine safety information. Their mission is to enhance the science of vaccine research by providing standardized, validated, and objective methods for monitoring safety profiles and benefit to risk ratios of vaccines. Products and services to promote high quality vaccine safety research include: * Standardized case definitions of adverse events following immunization * Guidelines for collection, analysis, and presentation of vaccine safety data * Template protocols for vaccine safety research * Automatic Case Classification Tool (ABC tool) * Library of vaccine safety publications * Links to high quality vaccine safety resources * Vaccine Safety Quarterly - Newsletter
Proper citation: Brighton Collaboration (RRID:SCR_004089) Copy
A partnership of academic and research institutions, offering a collection of millions of titles digitized from libraries around the world. Their goals are: * To build a reliable and increasingly comprehensive digital archive of library materials converted from print that is co-owned and managed by a number of academic institutions. * To dramatically improve access to these materials in ways that, first and foremost, meet the needs of the co-owning institutions. * To help preserve these important human records by creating reliable and accessible electronic representations. * To enable the digital archive to be accessible to persons who have print disabilities. * To stimulate redoubled efforts to coordinate shared storage strategies among libraries, thus reducing long-term capital and operating costs of libraries associated with the storage and care of print collections. * To create and sustain this public good in a way that mitigates the problem of free-riders. * To create a technical framework that is simultaneously responsive to members through the centralized creation of functionality and sufficiently open to the creation of tools and services not created by the central organization.
Proper citation: HathiTrust (RRID:SCR_004128) Copy
A wiki knowledge base for the life sciences that combines the collaborative and largely altruistic possibilities of wikis with explicit authorship. Authors are provided credit even while the knowledge can evolve via continual revision and traditional peer review into a rigorous scientific tool.
Proper citation: Wikigenes (RRID:SCR_004126) Copy
http://purl.bioontology.org/ontology/NIGO
Ontology that is a subset of GO directed for neurological and immunological systems. It was created by clipping those GO terms that are not associated to any gene in human, rat and mouse, and by clipping terms not found to be relevant to the neural and/or immune domains.
Proper citation: Neural-Immune Gene Ontology (RRID:SCR_004120) Copy
Commercial organization providing the GRID software to scientists working on the field of drug design. All the products are based on the GRID force field, which is used in connection with experimental design and multivariate analysis tools to transform information into knowledge. The main field of application is drug discovery, property design and prediction by merging molecular modelling techniques and Quantitative structure-activity relationship (QSPR) methods into 3D-QSPR models. The same strategies can also be used in virtual screening, ADME prediction and profile and prediction of human drug metabolism, where selection or prioritization of candidates is required from large collections of compounds to minimize drug failures. Molecular Discovery offers training courses on all MD programs. Workshops and seminars on Drug Design methodologies, DMPK prediction and QSPR are also offered. Consulting agreements are also offered in research areas related with chemometrics and drug discovery. Products * GRID, a program for rational or structure-based design using molecular interaction fields * MetaSite, a program for predicting metabolic hotspots or soft spots and subsequent metabolite formation * Mass-MetaSite, a program for identifying metaoblites based on experimental LC-MSMS data * WebMetaBase, a program for storing, visualising, and data-mining the results from Mass-MetaSite * VolSurf+, a program for modelling pharmacokinetic or ADME properties * SHOP, a program for scaffold replacement * MoKa, a program for modelling pKa and tautomerisation * Pentacle, a program for 3D-QSAR (an update of Almond) * FLAP, a program for virtual screening, pharmacophore modelling, docking, water prediction, and 3D-QSAR
Proper citation: Molecular Discovery (RRID:SCR_004085) Copy
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 12, 2021. Commercial organization with expertise in lead generation, such as compound selection, iterative screens, fragment based lead generation (FBLG), HTS evaluation (clustering, scoring and actives selection), development of clusters into lead series (expansion via compound libraries, scaffold hopping and multi-parameter optimization), management of secondary screens (physical properties, ADMET), project management and presentation for customers or scientific committees. Synthetic organic chemistry is an important area of lead generation which is why both single compound synthesis and compound library synthesis are integrated. The scientists are skilled in predictive models including target modelling, virtual screening, high quality compound library design, compound triage and design, compound synthesis (including parallel synthesis) and automated purification. KeytoLead management team also has experience in leadership, line management, international collaborations, intellectual property and continuous improvement.
Proper citation: KeytoLead (RRID:SCR_004084) Copy
http://www.brl.bcm.tmc.edu/pash/pashDownload.rhtml
Performs sequence comparison and read mapping and can be employed as a module within diverse configurable analysis pipelines, including ChIP-Seq and methylome mapping by whole-genome bisulfite sequencing.
Proper citation: Pash 3.0 (RRID:SCR_004078) Copy
Commercial organization that provides cheminformatics software platforms, applications and services to optimize the value of chemistry information in life science and other R&D. This software enables structure visualization and management, property predictions and calculations, virtual synthesis, screening, clustering and drug design.
Proper citation: ChemAxon (RRID:SCR_004111) Copy
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