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Resource Name Proper Citation Abbreviations Resource Type Description Keywords Resource Relationships Related Condition Funding Defining Citation Availability Specification URL Alternate IDs Alternate URLs Old URLs Parent Organization Resource ID Synonyms Record Last Update Mentions Count
Zinc
 
Resource Report
Resource Website
1000+ mentions
Zinc (RRID:SCR_008596) data or information resource, database Welcome to ZINC, a free database of commercially-available compounds for virtual screening. ZINC contains over 13 million purchasable compounds in ready-to-dock, 3D formats. ZINC is provided by the Shoichet Laboratory in the Department of Pharmaceutical Chemistry at the University of California, San Francisco (UCSF). To cite ZINC, please reference: Irwin and Shoichet, J. Chem. Inf. Model. 2005;45(1):177-82 PDF, DOI. We thank NIGMS for financial support (GM71896). There are release notes for ZINC 10. - We have a survey where you can give us feedback. FASEB list r3d100010372, nif-0000-31930 https://doi.org/10.17616/R3JG77, https://doi.org/10.17616/R3JG77 SCR_008596 Zinc 2026-08-10 09:33:31 1047
Neuron-Restrictive Silencer Factor
 
Resource Report
Resource Website
1+ mentions
Neuron-Restrictive Silencer Factor (RRID:SCR_008546) data or information resource, database THIS RESOURCE IS NO LONGER IN SERVICE, documented on July 15, 2013. A database containing all genomic human and mouse binding sites of the Repressor Element 1 Silencing Transcription factor (REST), identified by PSSM. The RE1 silencing transcription factor (REST; also known as the neuron-restrictive silencer factor), is a nine zinc-finger transcription factor, related to the Gli-Kruppel family. REST binds to a conserved 21-nucleotide element, known as repressor element 1 (RE1; also known as the neuron-restrictive silencer element). REST was proposed to be a ''master'' silencer of neuron specific gene expression in non-neuronal tissues and undifferentiated neuroepithelium (precursor of neuronal cells), preventing the default expression of the neuronal phenotype during embryogenesis. It has been shown to function independently of orientation and distance from a gene promoter. REST has an important role during embryonic development, as homozygous gene knockout mice (Rest-/-) die by embryonic day 11.5. The constitutive expression of REST has also been shown to disrupt neuronal gene expression and cause axon path finding errors in chicken embryos (Paquette et al. 2000). RE1 sequences that are known to bind REST have also been found near to non-neuronal genes, including keratin and cytochrome P450 genes. molecular neuroanatomy resource has parent organization: University of Leeds; West Yorkshire; United Kingdom THIS RESOURCE IS NO LONGER IN SERVICE nif-0000-31400 SCR_008546 RE1 2026-08-10 09:33:30 1
Discover Magazine
 
Resource Report
Resource Website
10+ mentions
Discover Magazine (RRID:SCR_008787) Discover data or information resource, blog, narrative resource Popular science magazine which includes news and blogs on topics including Health & Medicine, Mind & Brain, Technology, Space, Human origins, Living World, Environment, and Physics & Math. NIF Indexes include: The Brain: DISCOVER blogger, columnist, and contributing editor Carl Zimmer''s monthly column will make your brain happy. Discover Interview: The magazine''s signature in-depth discussion with the leading lights of the world of science Vital Signs: A medical mystery, as written by the doctor involved. health, medicine, mind, brain, technology, magazine is used by: NIF Data Federation
is used by: Integrated Blogs
is parent organization of: Neuroskeptic
is parent organization of: The Loom
nlx_144214 SCR_008787 2026-08-10 09:33:33 15
Alizadehlab: MeeboChip and HeeboChip Open Source Project
 
Resource Report
Resource Website
1+ mentions
Alizadehlab: MeeboChip and HeeboChip Open Source Project (RRID:SCR_008384) data or information resource, database This is an open-source Mouse Exonic Evidence-Based Oligonucleotide Chip (MEEBOChip), and are in the process of building the human counterpart, HEEBOChip. The set of 70mers for MEEBOChip is already available from Illumina, Inc., with synthesis of HEEBOChip 70mers in progress. Both arrays are based on a novel selection of exonic long-oligonucleotides (70-mers) from a genomic annotation of the corresponding complete genome sequences, using a transcriptome-based annotation of exon structure for each genomic locus. Using a combination of existing and custom-tailored tools and datasets (including millions of mRNA and EST sequences), we built and performed a systematic examination of transcript-supported exon structure for each genomic locus at the base-pair level (i.e., exonic evidence). This strategy allowed them to select both constitutive and in many cases alternative exons for nearly every gene in the corresponding genome (e.g., protocadherin locus), allowing an unprecedented exploration of human and mouse biology. Furthermore, they used experimentally derived data to hone the selection of these 70mers, helping maximize their performance under typical fluorescent labeling and hybridization conditions. Specifically, they applied and refined the ArrayOligoSelector algorithm from Joe DeRisis laboratory to select 70mers, considering not only their uniqueness (i.e., hybridization specificity) within the content of the entire genome, but also to overcome the known biases of labeling and hybridization methods (e.g., 3-biased reverse transcription and in vitro transcription reactions). mouse, exonic, evidence, oligonucleotide, chip, human, array, genomic, annoation, sequence, transcriptome, annotation, dataset, mrna, est, systematic, transcript, exon, locus, biology has parent organization: Stanford University; Stanford; California Stanford University ;
UCSF ;
Stowers-Institute ;
Rockefeller University ;
Basel University
nif-0000-30030 SCR_008384 MeeboChip and HeeboChip 2026-08-10 09:33:30 7
HIV Brain Sequence Database
 
Resource Report
Resource Website
1+ mentions
HIV Brain Sequence Database (RRID:SCR_008819) HIVBrainSeqDB data or information resource, database The HIV Brain Sequence Database (HIVBrainSeqDB) is a public database of HIV envelope sequences, directly sequenced from brain and other tissues from the same patients. For inclusion in the database, sequences must: (i) be deposited in Genbank; (ii) include some portion of the HIV env region; (iii) be clonal, amplified directly from tissue; and (iv) be sampled from the brain, or sampled from a patient for which the database already contains brain sequence. Sequences are annotated with clinical data including viral load, CD4 count, antiretroviral status, neurocognitive impairment, and neuropathological diagnosis, all curated from the original publication. Tissue source is coded using an anatomical ontology, the Foundational Model of Anatomy, to capture the maximum level of detail available, while maintaining ontological relationships between tissues and their subparts. 44 tissue types are represented within the database, grouped into 4 categories: (i) brain, brainstem, and spinal cord; (ii) meninges, choroid plexus, and CSF; (iii) blood and lymphoid; and (iv) other (bone marrow, colon, lung, liver, etc). Currently, the database contains 2517 envelope sequences from 90 patients, obtained from 22 published studies. 1272 sequences are from brain; the remaining 1245 are from blood, lymph node, spleen, bone marrow, colon, lung and other non-brain tissues. The database interface utilizes a faceted interface, allowing real-time combination of multiple search parameters to assemble a meta-dataset, which can be downloaded for further analysis. This online resource will greatly facilitate analysis of the genetic aspects of HIV macrophage tropism, HIV compartmentalization and evolution within the brain and other tissue reservoirs, and the relationship of these findings to HIV-associated neurological disorders and other clinical consequences of HIV infection. human immunodeficiency virus, hiv, brain, sequence, hiv envelope sequence, brain sequence, clone, tissue, brainstem, spinal cord, meninges, choroid plexus, csf, blood, lymphoid, bone marrow, colon, lung, liver, aids is related to: FMA
has parent organization: Harvard University; Cambridge; United States
Human immunodeficiency virus ARRA ;
NIMH 3ROI MH83588-12S1;
NIMH MH83588
PMID:21156070 nlx_149217 SCR_008819 The HIV Brain Sequence Database 2026-08-10 09:33:41 1
Kannisto-Thatcher Database on Old Age Mortality
 
Resource Report
Resource Website
1+ mentions
Kannisto-Thatcher Database on Old Age Mortality (RRID:SCR_008936) K-T database data or information resource, database A database that includes data on death counts and population counts classified by sex, age, year of birth, and calendar year for more than 30 countries. This database was established for estimating the death rates at the highest ages (above age 80). The core set of data in the database was assembled, tested for quality, and converted into cohort mortality histories by V��in�� Kannisto, the former United Nations advisor on demographic and social statistics. Comparable materials on England and Wales, was made available by A. Roger Thatcher, the former Director of the Office of Population Censuses and Surveys and Registrar-General of England and Wales (Kannisto, 1994). The Kannisto-Thatcher database was computerized under the supervision of James W. Vaupel at the Aging Research Unit of the Centre for Health and Social Policy at Odense University Medical School in 1993. Currently, the database is maintained by the Max Planck Institute for Demographic Research, Germany. mortality, death, population, late adult human, international has parent organization: Max Planck Institute for Demographic Research; Mecklenburg-Vorpommern; Germany Aging, Death Danish Research Councils ;
NIA
Public; must register and agree to terms. For scientific purposes only. nlx_151834 SCR_008936 Kannisto-Thatcher Database on Old Age Mortality at the Max Planck Institute for Demographic Research 2026-08-10 09:33:35 1
GOstat
 
Resource Report
Resource Website
100+ mentions
GOstat (RRID:SCR_008535) GOstat production service resource, data analysis service, analysis service resource, service resource GOstat is a tool that allows you to find statistically overrepresented Gene Ontologies within a group of genes. The Gene-Ontology database (GO: http://www.geneontology.org) provides a useful tool to annotate and analyze the function of large numbers of genes. Modern experimental techniques, as e.g. DNA microarrays, often result in long lists of genes. To learn about the biology in this kind of data it is desirable to find functional annotation or Gene-Ontology groups which are highly represented in the data. This program (GOstat) should help in the analysis of such lists and will provide statistics about the GO terms contained in the data and sort the GO annotations giving the most representative GO terms first. Run GOstat: * Go to search form - Computes GO statistics of a list of genes selected from a microarray. * GOstat Display - You can store results from a previously run and view them here, either by uploading them as a file or putting them on a selected URL. * Upload Custom GO Annotations - This allows you to upload your own GO annotation database and use it with GOstat. Variants of GOstat: * Rank GOstat - Takes input from all genes on microarray instead of using a fixed cutoff and uses ranks using a Wilcoxon test or either ranks or pvalues to score GOs using Kolmogorov-Smirnov statistics. * Gene Abundance GOstats - Takes input from all genes on microarray and sums up the gene abundances for each GO to compute statistics. * Two list GOstat - Compares GO statistics in two independent lists of genes, not necessarily one of them being the complete list the other list is sampled from. Platform: Online tool, THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. gene, gene ontology, annotation, statistical analysis, FASEB list is listed by: Gene Ontology Tools
is related to: Gene Ontology
has parent organization: Walter and Eliza Hall Institute of Medical Research; Victoria; Australia
DFG PMID:14962934 THIS RESOURCE IS NO LONGER IN SERVICE nif-0000-30625 SCR_008535 2026-08-10 09:33:30 159
Embase Biomedical Answers
 
Resource Report
Resource Website
1000+ mentions
Embase Biomedical Answers (RRID:SCR_008498) data or information resource, database You can begin your search immediately using the Quick form on the home page or you can access the other specialized search forms in Embase. You can choose any section from the options on the top menu bar: Search, Emtree, Journals, Authors, or Help. You can start to search without logging in but if you would like to set up an email alert or save a search, then you may Login or Register from the upper-right part of the screen. Note: if you are outside your institution IP range, you will first be directed to the info site before accessing the Embase Home page. For more information on remote access, please see Login section. Search Forms Search is at the core of Embase and all search forms are designed to allow you to look for biomedical and pharmaceutical clinical and research information easily and quickly, whether you are a new or experienced searcher. The Embase search engine allows Boolean searching with wildcard and truncation features, as well as many predefined search limits. Search is divided into five options: Quick, Advanced, Drug, Disease and Article. Quick lets you perform easy yet powerful searches without having to learn a complex search language. It is perfect if you are starting your research and looking for an overview of the literature or good terms to include in your search strategy. Autocomplete will help you to search using the bext terminology. Advanced incorporates options from Emtree term mapping including explosion searching for maximum precision in subject searching (see Emtree) and Drug and Disease provide access to specialized features useful to search these topics, such as ''Adverse Drug Reaction''''Drug Combination''. Generally speaking, drug searches are best carried out in the Drug form, diseases in the Disease form and non-drug and disease searches in the Advanced form. Article allows you to pinpoint individual articles. Embase is owned and operated by Elsevier B.V., Radarweg 29, 1043 NX Amsterdam, The Netherlands, Reg. No. 33156677, BTW No. 002967455B65 (Elsevier). FASEB list nif-0000-30513 SCR_008498 Embase 2026-08-10 09:33:35 1135
Emsdiasum
 
Resource Report
Resource Website
50+ mentions
Emsdiasum (RRID:SCR_008497) data or information resource, database A complete online Product Catalog of chemicals, supplies, accessories, and equipment for Electron and Light Microscopy, Histology, Cell Biology, Neuroscience, and all biological related research fields. At the site, you can find technical tips and recommended articles of interest, technical and product data sheets, Material Safety Data Sheets, and many revolutionary new products and exclusive items. A complete product catalog of the entire Diatome collection of Diamond knives, tools, and accessories for Electron and Light microscopy for Biological and Materials Science at room and cryo temperatures. Available on-line as well is information on our services, programs, specials, and policies. The complete handling and use technical manual as well as troubleshooting can also be found at our site. The Summers Optical on-line catalog including a complete line of optical cements and adhesives, decementing agents, hardness testers, ultrasonic baths and UV lights as well as technical and transmission data and problem solving can be found at this site. As well as, our unique bonding manual including troubleshooting and charts for how to choose a cement for specific applications and a complete set of MSDS on all of our products can be seen here. EMS Contract Packaging is a total service contract manufacturer, packager, and formulator with over 40 years experience in drug and cosmetic formulating and packaging. Negafile furniture quality wood filing systems and storage cases for grids, negatives, film and microscope glass slides. And a full line of shipping and packaging solutions for all your traditional or digital media. FASEB list nif-0000-30510 SCR_008497 Emsdiasum 2026-08-10 09:33:29 54
3D Macromolecular Analysis and Kinemage Home Page
 
Resource Report
Resource Website
1+ mentions
3D Macromolecular Analysis and Kinemage Home Page (RRID:SCR_008569) data or information resource, database Resources for macromolecular X-ray crystallography from the Richardson Laboratory, including kinemages (a scientific illustration presented as an interactive computer display), databases, software, training materials and images x-ray crystallography has parent organization: Duke University; North Carolina; USA nif-0000-31460 SCR_008569 Richardson Lab and Kinemage 2026-08-10 09:33:37 1
Molecular Brain: Transcription Profiles of Mouse and Human Brains
 
Resource Report
Resource Website
1+ mentions
Molecular Brain: Transcription Profiles of Mouse and Human Brains (RRID:SCR_008689) data or information resource, database MolecularBrain is an attempt to collect, collates, analyze and present the microarray derived gene expression data from various brain regions side by side. Transcription Profile of any gene in Mouse (online) and Human Brain (not yet) can be accessed as a histogram along with links to access various aspects of that gene. The expression levels were calculated from microarray data deposited at GEO (Gene expression omnibus). The molecular brain database could be searched using the built in search tool with the terms Entrez GeneID, gene symbol, synonym or description. Gene information along with their expression values can be also accessed from the alphabetical list of gene symbols on the footer. The protocol and GEO sample information is available. molecular, molecule, brain, transcription, mouse, human, gene, microarray, data, expression, database, tool, expression, molecular neuroanatomy resource has parent organization: National Institutes of Health nif-0000-37035 SCR_008689 Molecular Brain 2026-08-10 09:33:36 3
Biomedical Search: Medical Research and Health Resources
 
Resource Report
Resource Website
1+ mentions
Biomedical Search: Medical Research and Health Resources (RRID:SCR_008683) data or information resource, database BioMedSearch is a biomedical search engine that contains NIH/PubMed documents, plus a large collection of theses, dissertations, and other publications not found anywhere else for free, making it the most comprehensive free search on the web. :Besides free-form search, users can search based on Author, Journal Title, Publication Date, the Language in which the article was published (many non-English articles have English language abstracts), MeSH (Medical Subject Headings) and more. : The goal of BioMedSearch.com is to provide free access to a massive collection of authoritative documents relating to the biomedical field. Our mission is to make these important works available to the community in a way that is fast and easy, while still offering the advanced features demanded by power users such as portfolios, collaboration features, bibliographical citation export, alerts, and more. Whether you are doctor, scientist, or someone interested in researching a medical topic out of personal interest, BioMedSearch aggregates a vast number of authoritative documents in one place to make finding medical information easy, fast and free. biomedical, doctor, health, medical, research, scientist, search engine nif-0000-33767 SCR_008683 BioMedSearch 2026-08-10 09:33:39 4
CytoSVM statistics
 
Resource Report
Resource Website
1+ mentions
CytoSVM statistics (RRID:SCR_008442) data or information resource, database Cytokines are a diverse group of cell intercellular messengers responsible for signaling variety of cell functions, such as immunity, hematopoiesis, chemotactic activities, cell maturation, proliferation, growth and differentiation through their interactions with respective receptors on cell membranes. Currently, a number of cytokines have been identified and classified has parent organization: Xiamen University; Xiamen; China nif-0000-30403 http://bioinf.xmu.edu.cn/software/cytosvm/statistics.php SCR_008442 CytoSVM 2026-08-10 09:33:34 2
Exon Array Analyzer
 
Resource Report
Resource Website
1+ mentions
Exon Array Analyzer (RRID:SCR_008684) Exon Array Analyzer production service resource, data analysis service, analysis service resource, service resource Service that allows you to process CEL files from Affymetrix, Inc. GeneChip Exon 1.0 ST Arrays to identify alternative splicing. is listed by: OMICtools OMICS_00754 SCR_008684 2026-08-10 09:33:36 4
Regulatory Sequence Analysis Tools
 
Resource Report
Resource Website
100+ mentions
Regulatory Sequence Analysis Tools (RRID:SCR_008560) data or information resource, database THIS RESOURCE IS NO LONGER IN SERVICE. Documented on February 28,2023. Retrieve-ensembl-seq is included in the software suite regulatory sequence analysis tools (RSAT), allowing instant submission of retrieved sequences to further analysis tools. AVAILABILITY: retrieve-ensembl-seq is integrated in the RSAT suite: http://rsat.ulb.ac.be/rsat. Web site: http://rsat.ulb.ac.be/rsat/retrieve-ensembl-seq_form.cgi. Web services: http://rsat.ulb.ac.be/rsat/web_services/RSATWS.wsdl. Stand-alone distribution: freely available under an academic licence to download from the RSAT web site. The complete manual, a convenient tutorial and demos are available from the RSAT website. Additional help can be found on the RSAT public forum. bio.tools, FASEB list is listed by: Debian
is listed by: bio.tools
is related to: Yeast Search for Transcriptional Regulators And Consensus Tracking
DOI:10.1093/nar/gkv362 THIS RESOURCE IS NO LONGER IN SERVICE biotools:rsat, nif-0000-31437, OMICS_08097 https://bio.tools/rsat https://sources.debian.org/src/rsat/ SCR_008560 RSAT 2026-08-10 09:33:36 108
VetBioBank
 
Resource Report
Resource Website
1+ mentions
VetBioBank (RRID:SCR_008716) material resource, tissue bank, biomaterial supply resource Not yet vetted by NIF curator nlx_13310 http://www.vetmeduni.ac.at/vetcore/research/research-resources/vetbiobank-tissue-list/ http://www.vu-wien.ac.at/VetOMICS/content/e879/e926/index_eng.html SCR_008716 2026-08-10 09:33:37 6
PROTOTYPE - Suspected Overlap Among OBO Foundry Candidate Ontologies
 
Resource Report
Resource Website
1+ mentions
PROTOTYPE - Suspected Overlap Among OBO Foundry Candidate Ontologies (RRID:SCR_008834) PROTOTYPE Suspected Overlap Among OBO Foundry Candidate Ontologies production service resource, data analysis service, analysis service resource, service resource THIS RESOURCE IS NO LONGER IN SERVCE, documented September 2, 2016. Service that determines the Suspected Overlap Among OBO Foundry Candidate Ontologies. has parent organization: National Center for Biomedical Ontology THIS RESOURCE IS NO LONGER IN SERVICE nlx_144632 SCR_008834 2026-08-10 09:33:34 2
Exon Array Browser
 
Resource Report
Resource Website
1+ mentions
Exon Array Browser (RRID:SCR_008712) Exon Array Browser data or information resource, database, service resource Transcriptome database of acutely isolated purified astrocytes, neurons, and oligodendrocytes. Provides improved cell-type-specific markers for better understanding of neural development, function, and disease. mature mouse, forebrain, transcriptome, astrocyte, neuron, oligodendrocyte, brain development, brain function, molecular neuroanatomy resource, visualization has parent organization: Stanford University; Stanford; California NINDS R01NS045621;
NEI R01EY10257;
NEI EY07033;
Medical Scientist Training Program Grant MSTP GM07365;
Australian National Health and Medical Research Council CJ Martin Fellowship 400438;
NIDDK DK54388;
NCI CA095030
PMID:18171944 Free, Freely available nlx_143565 SCR_008712 2026-08-10 09:33:39 1
Channelrhodopsin-2 enables optical activation of neurons
 
Resource Report
Resource Website
1+ mentions
Channelrhodopsin-2 enables optical activation of neurons (RRID:SCR_008833) Channelrhodopsin-2 enables optical activation of neurons production service resource, resource, service resource, material service resource Laser tool that enables neurons to be optically silenced by pulses of yellow light, the light-activated chloride pump halorhodopsin (Halo), in a paper entitled Multiple-color optical activation, silencing, and desynchronization of neural activity, with single-spike temporal resolution. Temporally precise, noninvasive control of activity in well-defined neuronal populations is a long-sought goal of systems neuroscience. We adapted for this purpose the naturally occurring algal protein Channelrhodopsin-2, a rapidly gated light-sensitive cation channel, by using lentiviral gene delivery in combination with high-speed optical switching to photostimulate mammalian neurons. We demonstrate reliable, millisecond-timescale control of neuronal spiking, as well as control of excitatory and inhibitory synaptic transmission. This technology allows the use of light to alter neural processing at the level of single spikes and synaptic events, yielding a widely applicable tool for neuroscientists and biomedical engineers. The quest to determine how precise neural activity patterns mediate computation, behavior, and pathology would be greatly aided by a set of tools for reliably activating and inactivating genetically targeted neurons, in a temporally precise and rapidly reversible fashion. Having earlier adapted a light-activated cation channel, 1channelrhodopsin-2 (ChR2), for allowing neurons to be stimulated by blue light, we searched for a complementary tool that would enable optical neuronal inhibition, driven by light of a second color. Here we report that targeting the 1codon-optimized form of the light-driven chloride pump halorhodopsin from the archaebacterium Natronomas pharaonis (hereafter abbreviated Halo) to genetically-specified neurons enables them to be silenced reliably, and reversibly, by millisecond-timescale pulses of yellow light. We show that trains of yellow and blue light pulses can drive high-fidelity sequences of hyperpolarizations and depolarizations in neurons simultaneously expressing yellow light-driven Halo and blue light-driven ChR2, allowing for the first time manipulations of neural synchrony without perturbation of other parameters such as spiking rates. The Halo/ChR2 system thus constitutes a powerful toolbox for multichannel photoinhibition and photostimulation of virally or transgenically targeted neural circuits without need for exogenous chemicals, enabling systematic analysis and engineering of the brain, and quantitative bioengineering of excitable cells. hardware, instrument, equipment has parent organization: Massachusetts Institute of Technology; Massachusetts; USA; Anonymous donor ;
MIT Media Lab ;
Helen Hay Whitney Foundation
PMID:17375185 nlx_144630 http://channelrhodopsin.org SCR_008833 2026-08-10 09:33:39 3
Functional Neurogenesis
 
Resource Report
Resource Website
1+ mentions
Functional Neurogenesis (RRID:SCR_008830) Functional Neurogenesis data or information resource, blog, narrative resource A blog focusing on the function of adult neurogenesis in the dentate gyrus of the hippocampus, including discussion of scientific research papers, methods and protocols, and other trends or observations about the field. adult, neurogenesis, dentate gyrus, hippocampus, brain, neuron, anxiety, depressive disorder, memory, plasticity nlx_144587 SCR_008830 Functional Neurogenesis - New neurons in the adult brain. How they work and what they are good for. 2026-08-10 09:33:39 2

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