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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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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 | |||||
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Anxiety Insights Resource Report Resource Website |
Anxiety Insights (RRID:SCR_008717) | data or information resource, blog, narrative resource | THIS RESOURCE IS NO LONGER IN SERVICE, documented September 6, 2016. | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_13334 | SCR_008717 | 2026-08-10 09:33:32 | 0 | |||||||||||
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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 | ||||||
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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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George E. Palade EM Slide Collection. Resource Report Resource Website |
George E. Palade EM Slide Collection. (RRID:SCR_008675) | data or information resource, database | The images in this collection are derived from high resolution scans of glass 3.25 X 4 inch lantern slides that were part of a large collection of slides covering his years at the Rockefeller University and Yale University School of Medicine. These selected images were scanned by James D. Jamieson, M.D., Ph.D., a student of Palade. The images also include some of the earliest electron micrographs taken by collaborators of George Palade both at the Rockefeller University (1945 - 1973) and at Yale (1973 - 1990). They include micrographs taken by Professor Marilyn Farquhar, Ph.D., whose studies elucidated the function of the glomerular basement membrane in renal filtration. There are 5 ways to find information in this collection: search for particular words that appear in the text by clicking the Search button; browse documents by Title by clicking the Titles button; browse documents by Subject by clicking the Subjects button; browse documents by Creator by clicking the Creators button, and browse documents by References by clicking the References button. Sponsors: This collection is the result of a collaboration between James D. Jamieson, M.D., Ph.D., Professor, Dept. of Cell Biology, and Arthur R. Belanger, OBE, Systems Manager, Harvey Cushing/John Hay Whitney Medical Library, both at the Yale University School of Medicine. | electron micrograph, em, resolution, image, slide | has parent organization: Yale University; Connecticut; USA | nif-0000-33438 | SCR_008675 | EM Slide Collection | 2026-08-10 09:33:32 | 0 | |||||||||
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Pediatric Imaging Neurocognition and Genetics Resource Report Resource Website 50+ mentions |
Pediatric Imaging Neurocognition and Genetics (RRID:SCR_008953) | PING | data or information resource, database | A large multi-site pediatric MRI and genetics data resource to facilitate studies of the genomic landscape of the developing human brain. It includes information about the developing mental and emotional functions of the children to understand the genetic basis of individual differences in brain structure and connectivity, cognition, and personality. Investigators on the project are studying 1400 children between the ages of 3 and 20 years so that links between genetic variation and developing patterns of brain connectivity can be examined. Investigators interested in the effects of a particular gene will be able to search the database for any brain areas or connections between areas that differ as a function of variation in a particular gene, and also to determine if the genes appear to affect the course of brain development at some point during childhood. A data exploration tool has been created for mapping and analyzing MRI data sets collected for PING and related developmental studies. Approved investigators will be able to view raw image sets and derived 3D brain maps of MRI and DTI data, conduct hypothesis testing, and graph brain area measures as they change across the time course of development. PING Cores * Coordinating Core: Functions include project management, screening of participants and maintaining the database * Neuroimaging Core: applying a standardized high-resolution structural MRI protocol involving 3-D T1-weighted scans, a T2-weighted volume, and a set of diffusion-weighted scans with multiple b values and diffusion directions, scans to estimate MRI relaxation rates, and gradient echo EPI scans for resting state fMRI. Importantly, adaptive motion compensation, using ����??PROMO����??, a novel real-time motion correction algorithm will be used. Specific PING protocols for each scanner manufacturer: ** PING MRI Protocol - GE ** PING MRI Protocol - Philips ** PING MRI Protocol - Siemens * Assessment Core: Cognitive assessments for the PING project are conducted using the NIH Toolbox for Cognition. * Genomics Core: functions as a central repository for receipt of saliva samples collected for each study participant. Once received, samples are catalogued, maintained, and DNA is extracted using state-of-the-field laboratory techniques. Ultimately, genome-wide genotyping is performed on the extracted DNA using the Illumina Human660W-Quad BeadChip. PING involves 10 sites throughout the country including UCSD, University of Hawaii, Scripps Genomics, UCLA, UC Davis, Kennedy Krieger Institute/Johns Hopkins, Sacker Institute/Cornell University, University of Massachusetts, Massachusetts General Hospital/Harvard, and Yale. Families who may want to participate in the study, or others who want to know more about it, may email questions to ping (at) ucsd.edu. | pediatric, neuroimaging, genetics, child, early adult human, adolescent, genetic variant, magnetic resonance imaging, brain, gene, brain structure, connectivity, function, brain development, cognition, experimental protocol, saliva, dna, diffusion tensor imaging, image, genotype, dicom, imaging genomics, magnetic resonance, nifti, FASEB list |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: NIH Toolbox - Assessment of Neurological and Behavioral Function has parent organization: University of California at San Diego; California; USA has parent organization: Multimodal Imaging Laboratory |
NIDA ; ARRA ; NICHD |
Data Use Agreement required. | nlx_151904 | http://www.nitrc.org/projects/ping | http://ping.chd.ucsd.edu/ | SCR_008953 | PING Study, Pediatric Imaging Neurocognition and Genetics (PING) | 2026-08-10 09:33:35 | 80 | ||||
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Recombineering Information Resource Report Resource Website 10+ mentions |
Recombineering Information (RRID:SCR_008556) | data or information resource, database | Recombineering (recombination-mediated genetic engineering) is a powerful method for fast and efficient construction of vectors for subsequent manipulation of the mouse genome or for use in cell culture experiments. It is also an efficient way of manipulating the bacterial genome directly. Recombineering is a method based on homologous recombination in E. Coli using recombination proteins provided from ? phage. Our bacterial strains contain a defective ? prophage inserted into the bacterial genome. The phage genes of interest, exo, bet, and gam, are transcribed from the ?PL promoter. This promoter is repressed by the temperature-sensitive repressor cI857 at 32C and derepressed (the repressor is inactive) at 42C. When bacteria containing this prophage are kept at 32C no recombination proteins are produced. However, after a brief (15 minutes) heat-shock at 42C a sufficient amount of recombination proteins are produced. exo is a 5''-3'' exonuclease that creates single-stranded overhangs on introduced linear DNA. bet protects these overhangs and assists in the subsequent recombination process. gam prevents degradation of linear DNA by inhibiting E. Coli RecBCD protein. Linear DNA (PCR product, oligo, etc.) with sufficient homology in the 5'' and 3'' ends to a target DNA molecule already present in the bacteria (plasmid, BAC, or the bacterial genome itself) can be introduced into heat-shocked and electrocompetent bacteria using electroporation. The introduced DNA will now be modified by exo and bet and undergo homologous recombination with the target molecule. The method is so efficient that co-electroporation of a supercoiled plasmid and a linear piece of DNA into heat-shocked, electrocompetent bacteria will work as well. | FASEB list | nif-0000-31427 | SCR_008556 | Recombineering Information | 2026-08-10 09:33:36 | 35 | ||||||||||
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Biobehavioral Resource Report Resource Website 10+ mentions |
Biobehavioral (RRID:SCR_008710) | data or information resource, blog, narrative resource | THIS RESOURCE IS NO LONGER IN SERVCE, documented September 6, 2016. Biobehavioral blog on research and medicine as a continuum from biological mechanisms to behavioural phenomena., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_11905 | SCR_008710 | Biobehavioral | 2026-08-10 09:33:32 | 14 | ||||||||||
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MIPS FunCat Resource Report Resource Website 50+ mentions |
MIPS FunCat (RRID:SCR_008709) | MIPS FunCat | data or information resource, database | THIS RESOURCE IS NO LONGER IN SERVICE, documented on August 19, 2019. The Functional Catalogue is an annotation scheme for the functional description of proteins of prokaryotic and eukaryotic origin. Taking into account the broad and highly diverse spectrum of known protein functions, the FunCat consists of 28 main functional categories (or branches) that cover general fields like cellular transport, metabolism and cellular communication/signal transduction. The main branches exhibit a hierarchical, tree like structure with up to six levels of increasing specificity. In total, the FunCat version 2.1 includes 1362 functional categories. This general concept was retained since the annotation of the Saccharomyces cerevisiae genome with only 4 revisions and later on also proved to be well suited for the annotation of genomes from different domains of life (Ruepp et al. 2004). The present and previous versions as well as a version mapping file of the FunCat and annotation data of our core projects can be downloaded via FTP. The MIPS Functional Catalogue Database provides a search tool to browse and search the Functional Categories including the FunCat Number, description, EC number, GO number or keywords associated with the categories. All FunCat annotated proteins and the amount of Co-annotated-FunCats can be retrieved starting with a specific category in a selected organism. A statistical survey of the functional distribution of a given set of genes/entries, e. g. a set of genes with up-regulated expression under a certain condition can be retrieved. | BMBF ; European Union BFAM 031U112C; European Union HNB 01SF9985; European Union Eu-Framework 5 QLRI-CT1999-01333 |
PMID:15486203 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_11495 | http://mips.helmholtz-muenchen.de/proj/funcatDB/ | SCR_008709 | FunCat, FunCatDB, Functional Catalogue, MIPS Functional Catalogue | 2026-08-10 09:33:37 | 50 | ||||||
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Census Microdata Samples Project Resource Report Resource Website |
Census Microdata Samples Project (RRID:SCR_008902) | Census Microdata Samples Project | data or information resource, database | A data set of cross-nationally comparable microdata samples for 15 Economic Commission for Europe (ECE) countries (Bulgaria, Canada, Czech Republic, Estonia, Finland, Hungary, Italy, Latvia, Lithuania, Romania, Russia, Switzerland, Turkey, UK, USA) based on the 1990 national population and housing censuses in countries of Europe and North America to study the social and economic conditions of older persons. These samples have been designed to allow research on a wide range of issues related to aging, as well as on other social phenomena. A common set of nomenclatures and classifications, derived on the basis of a study of census data comparability in Europe and North America, was adopted as a standard for recoding. This series was formerly called Dynamics of Population Aging in ECE Countries. The recommendations regarding the design and size of the samples drawn from the 1990 round of censuses envisaged: (1) drawing individual-based samples of about one million persons; (2) progressive oversampling with age in order to ensure sufficient representation of various categories of older people; and (3) retaining information on all persons co-residing in the sampled individual''''s dwelling unit. Estonia, Latvia and Lithuania provided the entire population over age 50, while Finland sampled it with progressive over-sampling. Canada, Italy, Russia, Turkey, UK, and the US provided samples that had not been drawn specially for this project, and cover the entire population without over-sampling. Given its wide user base, the US 1990 PUMS was not recoded. Instead, PAU offers mapping modules, which recode the PUMS variables into the project''''s classifications, nomenclatures, and coding schemes. Because of the high sampling density, these data cover various small groups of older people; contain as much geographic detail as possible under each country''''s confidentiality requirements; include more extensive information on housing conditions than many other data sources; and provide information for a number of countries whose data were not accessible until recently. Data Availability: Eight of the fifteen participating countries have signed the standard data release agreement making their data available through NACDA/ICPSR (see links below). Hungary and Switzerland require a clearance to be obtained from their national statistical offices for the use of microdata, however the documents signed between the PAU and these countries include clauses stipulating that, in general, all scholars interested in social research will be granted access. Russia requested that certain provisions for archiving the microdata samples be removed from its data release arrangement. The PAU has an agreement with several British scholars to facilitate access to the 1991 UK data through collaborative arrangements. Statistics Canada and the Italian Institute of statistics (ISTAT) provide access to data from Canada and Italy, respectively. * Dates of Study: 1989-1992 * Study Features: International, Minority Oversamples * Sample Size: Approx. 1 million/country Links: * Bulgaria (1992), http://www.icpsr.umich.edu/icpsrweb/ICPSR/studies/02200 * Czech Republic (1991), http://www.icpsr.umich.edu/icpsrweb/ICPSR/studies/06857 * Estonia (1989), http://www.icpsr.umich.edu/icpsrweb/ICPSR/studies/06780 * Finland (1990), http://www.icpsr.umich.edu/icpsrweb/ICPSR/studies/06797 * Romania (1992), http://www.icpsr.umich.edu/icpsrweb/ICPSR/studies/06900 * Latvia (1989), http://www.icpsr.umich.edu/icpsrweb/ICPSR/studies/02572 * Lithuania (1989), http://www.icpsr.umich.edu/icpsrweb/ICPSR/studies/03952 * Turkey (1990), http://www.icpsr.umich.edu/icpsrweb/ICPSR/studies/03292 * U.S. (1990), http://www.icpsr.umich.edu/icpsrweb/ICPSR/studies/06219 | housing condition, international, minority, population, census, census data, social, economic, middle adult human, late adult human, social science, behavioral science, housing census, social condition, economic condition |
is listed by: Inter-university Consortium for Political and Social Research (ICPSR) is related to: National Archive of Computerized Data on Aging (NACDA) |
Aging, Social phenomena | United Nations Population Fund ; NIA ; United Nations Economic Commission for Europe |
Variable | nlx_151430 | SCR_008902 | Status of Older Persons in UNECE Countries, Dynamics of Population Aging in ECE Countries, PAU Census Microdata Samples Project, Population Activities Unit Census Microdata Samples Project, Dynamics of Population Aging in Economic Commission for Europe Countries | 2026-08-10 09:33:43 | 0 | |||||
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BioNOT Resource Report Resource Website |
BioNOT (RRID:SCR_008743) | BioNOT | data or information resource, database | Database of negated biomedical sentences in literature consisting of more than 32 million negated sentences. Negated sentences were detected using the algorithm described in - Shashank Agarwal, Hong Yu Biomedical negation scope detection with Conditional Random Fields Journal of the American Medical Informatics Association (JAMIA), 2010; 17:696-701. After entering your query in the search box (for example MeCP2 autism), the search results with the negated sentence and the sentences preceding and following the negated sentences are displayed. A link to the source of the sentence is also provided, which links to the article from which the negated sentence was extracted. BioNOT is no longer updated. Documented 2013. | biomedical, negated sentence, bibliographic |
is used by: NIF Data Federation is related to: Integrated Auto-Extracted Annotation |
PMID:20962133 | nlx_143912 | http://snake.ims.uwm.edu/bionot/index.php?searchterm=mecp2+autism&submit=Search | SCR_008743 | 2026-08-10 09:33:37 | 0 | |||||||
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Exponentially Modified Protein Abundance Index Resource Report Resource Website 10+ mentions |
Exponentially Modified Protein Abundance Index (RRID:SCR_008616) | data or information resource, database | emPAI (exponentially modified protein abundance index), developed by Ishihama et al., is a measure to describe the protein composition in sample solutions. When the total protein amount in the sample is available, emPAI can be converted to the absolute amount of each protein in the sample. emPAI is derived from PAI, which is defined as the number of the observed peptides divided by the number of the observable peptides per protein. We recently found that log (PAI) had linear relationship to the protein amounts, and that emPAI, 10^(PAI)-1, was proportional to the protein amounts for whole cell lysate digested by trypsin. The accuracy of this method was within factor 5, similar or better than determination of abundance by protein staining | nif-0000-31967 | SCR_008616 | emPAI | 2026-08-10 09:33:37 | 24 | |||||||||||
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LSID Web Resolver Resource Report Resource Website 10+ mentions |
LSID Web Resolver (RRID:SCR_009737) | data or information resource, database | A web based life sciences identifier (LSID) resolution service allows you to view the data and metadata of an LSID with a web browser. This service will display the metadata, formatted as a standard webpage, for any LSID. | nlx_156874 | SCR_009737 | 2026-08-10 09:33:47 | 12 | ||||||||||||
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Manually Labeled MRI Brain Scan Database Resource Report Resource Website 1+ mentions |
Manually Labeled MRI Brain Scan Database (RRID:SCR_009604) | data or information resource, database | Collection of neuroanatomically labeled MRI brain scans, created by neuroanatomical experts. Regions of interest include the sub-cortical structures (thalamus, caudate, putamen, hippocampus, etc), along with ventricles, brain stem, cerebellum, and gray and white matter and sub-divided cortex into parcellation units that are defined by gyral and sulcal landmarks. | collection, neuroanatomical, MRI, brain, scan, data, thalamus, caudate, putamen, hippocampus, ventricle, cerebellum, cortex |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Neuromorphometrics works with: MRI Neuroanatomy Labeling Services works with: MRI Neuroanatomy Labeling Services |
NIMH R43 MH60507; NIMH R44 MH60507; NIMH R43 MH084358 |
Commercially available | nlx_155805 | http://www.nitrc.org/projects/manuallabels | SCR_009604 | 2026-08-10 09:33:49 | 1 | |||||||
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Autism Genetic Database Resource Report Resource Website 1+ mentions |
Autism Genetic Database (RRID:SCR_010545) | AGD | data or information resource, database | The Autism Genetic Database currently contains the full list of autism susceptibility genes as well as all Copy Number Variations (CNVs) found to have a relationship to autism. Additionally, all noncoding RNA molecules (snoRNA, miRNA, and piRNA) and chemically induced fragile sites are stored as well. This information is currently accessible via an in-house human genome browser focusing specifically on the chromosomal features associated with autism, and in a tabular format broken down by chromosome. Genome Browser:A genome browser that displays the genes, CNVs, ncRNAs and fragile sites in an easily accessible graphical visualization tool Tabular Data Display:A tabular data display that allows the user to observe the chromosomal spatial relationship between the genes, CNVs, ncRNAs and fragile sites. This also provides links to Entrez and pubmed for each gene, as well as miRBase for miRNAs, snoRNA-LBME-db for snoRNAs, and piRNABank for piRNAs. | has parent organization: University of Kansas; Kansas; USA | Autism Speaks 01.4506; NICRR P20 RR0146475 |
PMID:19778453 | nlx_29034 | SCR_010545 | Autism Genetic Database: A comprehensive database for autism susceptibility gene-CNVs integrated with known noncoding RNAs and fragile sites | 2026-08-10 09:34:01 | 5 | |||||||
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http://virginiahughes.com/ Resource Report Resource Website |
http://virginiahughes.com/ (RRID:SCR_010558) | data or information resource, blog, narrative resource | Virginia Hughes'' Research Blog | nlx_37352 | SCR_010558 | 2026-08-10 09:34:01 | 0 | ||||||||||||
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DaTo Resource Report Resource Website 10+ mentions |
DaTo (RRID:SCR_010280) | DaTo | data or information resource, database | A biological database and software tool catalog based on text mined and human annotated url mentions in PubMed abstracts. Data are annotated as to the author''''s country of origin and url status is checked. | metadata, catalog, text mining |
is related to: Cytoscape is related to: PubMed has parent organization: Zhejiang University; Zhejiang; China |
National Natural Science Foundation of China 30971743; National Natural Science Foundation of China 31371328 |
nlx_157296 | SCR_010280 | DA&TO - The Atlas of biology databases and tools, DAandTO, Da&To | 2026-08-10 09:33:59 | 12 | |||||||
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CiteAb Resource Report Resource Website 50+ mentions |
CiteAb (RRID:SCR_009653) | CiteAb | data or information resource, database | Citation-ranked antibody search engine that provides a simple way to find antibodies that work. They use the number of citations as a transparent method to rank antibodies. Nobody can pay to be ranked higher. They are always looking for more commercial and academic antibodies to make CiteAb better. There is no charge to list. | antibody, search engine, citation |
is listed by: FORCE11 is related to: PubMed has parent organization: University of Bath; North East Somerset; United Kingdom |
Free, The community can contribute to this resource | nlx_156037 | http://www.force11.org/node/4768 | SCR_009653 | CiteAb: The Antibody Search Engine | 2026-08-10 09:33:50 | 55 | ||||||
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Project Tycho Resource Report Resource Website 1+ mentions |
Project Tycho (RRID:SCR_010489) | data or information resource, database | Database to advance the availability and use of public health data for science and policy making that includes data from all weekly notifiable disease reports for the United States dating back to 1888. Additional U.S. and international data will be released twice yearly. | population, disease, metadata standard, vaccination, public health data, health, incidence rate, death, statistics | has parent organization: University of Pittsburgh; Pennsylvania; USA | Smallpox, Polio, Measles, Mumps, Rubella, Hepatitis A, Whooping cough, Diphtheria, Etc. | Bill and Melinda Gates Foundation ; NIH |
PMID:24283231 PMID:24611167 |
Account required, Creative Commons Attribution License | nlx_157982, r3d100011948 | SCR_010489 | Project Tycho Data for Health | 2026-08-10 09:34:00 | 3 | |||||
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Search Orphan Drug Designations and Approvals Resource Report Resource Website 1+ mentions |
Search Orphan Drug Designations and Approvals (RRID:SCR_010256) | data or information resource, database | Database of Orphan Drug Product designations. Searches may be run by entering the product name, orphan designation, and dates. Results can be displayed as a condensed list, detailed list, or an Excel spreadsheet. | has parent organization: U.S. Food and Drug Administration | nlx_156908 | SCR_010256 | 2026-08-10 09:33:59 | 6 |
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