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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
Pediatric Brain Tumor Foundation
 
Resource Report
Resource Website
1+ mentions
Pediatric Brain Tumor Foundation (RRID:SCR_004755) PBTF data or information resource, funding resource, portal, topical portal, disease-related portal The Pediatric Brain Tumor Foundation (PBTF) is a nonprofit organization dedicated to eradicating childhood brain tumors and providing support to families. It is a 501(c)(3) nonprofit charitable organization that seeks to * find the cause of and cure for childhood brain tumors by supporting medical research * increase public awareness about the severity and prevalence of childhood brain tumors * aid in the early detection and treatment of childhood brain tumors * support a national database on all primary brain tumors * provide educational and emotional support for children and families affected by this life-threatening disease. As the world''s largest non-governmental source of funding for childhood brain tumor research, we''re dedicated to not only eradicating this disease, but to providing support to families. Our educational resources deliver comfort and hope to families in need of information, and our college scholarship program gives brain tumor survivors a boost for the future. Through our efforts to raise public awareness, more attention has been focused on this deadly disease. Whether addressing congressional briefings or funding international conferences, the PBTF is an unwavering advocate. Together, we''re making a difference in the lives of children with brain tumors. And with your continued help, we will cure the kids! pediatric, brain, tumor, cancer, child, human nlx_143893 SCR_004755 2026-08-10 09:32:21 3
WSDbfetch (SOAP)
 
Resource Report
Resource Website
1+ mentions
WSDbfetch (SOAP) (RRID:SCR_004593) web service, data access protocol, software resource WSDbfetch is a webservice implementation of Dbfetch, a generic DB retrieval system that allows you to retrieve entries from various up-to-date biological databases using entry identifiers or accession numbers. It aims to provide programmatic access for sequence retrieval. This involves a service running on a SOAP server responding to remote client invocations. This is equivalent to the CGI based dbfetch service and like the CGI service a request can return a maximum of 200 entries. wsdl, service api, soap, gold standard is related to: EBI Dbfetch
has parent organization: European Bioinformatics Institute
nlx_58252 SCR_004593 WSDbfetch 2026-08-10 09:32:23 1
GeneDB Tbrucei
 
Resource Report
Resource Website
10+ mentions
GeneDB Tbrucei (RRID:SCR_004786) GeneDB_Tbrucei, GeneDB Tbrucei, GeneDB T. brucei data or information resource, analysis service resource, production service resource, database, service resource, data analysis service Database of the most recent sequence updates and annotations for the T. brucei genome. New annotations are constantly being added to keep up with published manuscripts and feedback from the Trypanosomatid research community. You may search by Protein Length, Molecular Mass, Gene Type, Date, Location, Protein Targeting, Transmembrane Helices, Product, GO, EC, Pfam ID, Curation and Comments, and Dbxrefs. BLAST and other tools are available. T. brucei possesses a two-unit genome, a nuclear genome and a mitochondrial (kinetoplast) genome with a total estimated size of 35Mb/haploid genome. The nuclear genome is split into three classes of chromosomes according to their size on pulsed-field gel electrophoresis, 11 pairs of megabase chromosomes (0.9-5.7 Mb), intermediate (300-900 kb) and minichromosomes (50-100 kb). The T. brucei genome contains a ~0.5Mb segmental duplication affecting chromosomes 4 and 8, which is responsible for some 75 gene duplicates unique to this species. A comparative chromosome map of the duplicons can be accessed here (PubmedID 18036214). Protozoan parasites within the species Trypanosoma brucei are the etiological agent of human sleeping sickness and Nagana in animals. Infections are limited to patches of sub-Saharan Africa where insects vectors of the Glossina genus are endemic. The most recent estimates indicate between 50,000 - 70,000 human cases currently exist, with 17 000 new cases each year (WHO Factsheet, 2006). In collaboration with GeneDB, the EuPathDB genomic sequence data and annotations are regularly deposited on TriTrypDB where they can be integrated with other datasets and queried using customized queries. blast, sequence, annotation, genome is used by: NIF Data Federation
is related to: AmiGO
is related to: TriTrypDB
has parent organization: GeneDB
Wellcome Trust PMID:16020726 nlx_78417 SCR_004786 Trypanosoma brucei TREU927 homepage on GeneDB, Trypanosoma brucei TREU927 on GeneDB 2026-08-10 09:32:23 17
Causal Cognition Group
 
Resource Report
Resource Website
1+ mentions
Causal Cognition Group (RRID:SCR_004780) CCG data or information resource, organization portal, portal, university At the Website of the Causal Cognition Group (CCG) of the University of M��laga, you may read information about our group, its members, our research, main activities, and more. Our main interests are cognitive psychology and learning, and more recently cognitive neuroscience, physiological correlates of learning and cognitive control. This site is in constant evolution... though there are things that hardly change: Cognitio rei per causas. computational neuroscience, cognitive neuroscience, learning, cognitive control, erp, eeg, cognitive psychology, neuroscience has parent organization: University of Malaga; Andalusia; Spain Junta de Andalucia ;
Spanish Ministry of Science ;
European Union
nlx_143899 SCR_004780 Grupo Investigaci��n Aprendizaje Causal 2026-08-10 09:32:22 1
NCBI Probe
 
Resource Report
Resource Website
10+ mentions
NCBI Probe (RRID:SCR_004816) NCBI Probe data or information resource, data repository, database, service resource, storage service resource Public registry of nucleic acid reagents designed for use in a wide variety of biomedical research applications including genotyping, gene expression studies, SNP discovery, genome mapping, and gene silencing. Probe records contain information on reagent distributors, probe effectiveness, and computed sequence similarities. The database is constantly updated, with over 11,000,000 probes available. Users may deposit their data into NCBI Probe Database. reagent, probe, registry, nucleic acid, gene expression, gene mapping, gene silencing, dna data bank, nucleic acid probe, gold standard, bio.tools is listed by: re3data.org
is listed by: bio.tools
is listed by: Debian
is related to: UniSTS
has parent organization: NCBI
Public, The community can contribute to this resource nlx_80513, r3d100010780, biotools:ncbi_dbprobe http://www.ncbi.nlm.nih.gov/sites/entrez?db=probe, https://bio.tools/ncbi_dbprobe, https://doi.org/10.17616/R3D041 SCR_004816 NCBI Probe Database, Entrez Probe Database, ProbeDB, Probe Database, dbProbe 2026-08-10 09:32:25 17
Protocol Online - Your labs reference book
 
Resource Report
Resource Website
10+ mentions
Protocol Online - Your labs reference book (RRID:SCR_004937) Protocol Online data or information resource, narrative resource, experimental protocol Database of research protocols in a variety of life science fields, it contains protocols contributed by worldwide researchers as well as links to web protocols hosted by worldwide research labs, biotech companies, personal web sites. The data is stored in a MySql relational database. Protocol Online also hosts discipline specific discussion forums (BioForum), and provides a free PubMed search and alerting service (PubAlert). bioinformatics, molecular biology, immunology, microbiology, proteomics, cell biology, database is used by: NIF Data Federation
is used by: Integrated Blogs
Eppendorf ;
Invitrogen ;
Chang Bioscience ;
Mirus ;
KPL ;
Oligomaster ;
Abcam ;
Nature Publishing Group
nlx_90492 SCR_004937 Protocol Online Your lab''s reference book, Protocol-Online 2026-08-10 09:32:26 11
Human Brain and Spinal Fluid Resource Center
 
Resource Report
Resource Website
1+ mentions
Human Brain and Spinal Fluid Resource Center (RRID:SCR_004811) HBSFRC brain bank, material resource, tissue bank, biomaterial supply resource A biomaterial supply resource which collects, stores, and distributes donated tissue to research scientists around the world. Collection occurs through the an anatomical donor program which accepts tissue donation from people with neurological/ psychiatric disorders. The Center also provides a continuous boost to biomedical research by providing high quality and quantity of pre- and post-mortem brains, spinal cords, cerebrospinal fluid (CSF), serum, blood cells and urine to use in investigations of neurological and psychiatric diseases. Scientists without a clinical site may use the Center''s readily available, high quality banked specimens. neurological disorder, mental disease, tissue, pre-mortem, brain, post-mortem, spinal cord, cerebral spinal fluid, serum, blood cell, urine, blood is listed by: One Mind Biospecimen Bank Listing
is listed by: Multiple Sclerosis Discovery Forum
is related to: One Mind Biospecimen Bank Listing
is related to: Multiple Sclerosis Discovery Forum
has parent organization: University of California at Los Angeles; California; USA
Neurodegenerative disease, Mental disease, Neurological disorder NIH Blueprint for Neuroscience Research Public, For the research community nif-0000-00231 http://www.loni.ucla.edu/uclabrainbank/, http://www.loni.ucla.edu/uclabrainbank/index.html SCR_004811 Human Brain and Spinal Fluid Resource Center (HBSFRC), The Human Brain and Spinal Fluid Resource Center (HBSFRC), UCLA Brainbank, Human Brain Spinal Fluid Resource Center, UCLA Brain Bank 2026-08-10 09:32:25 6
Wikipedia
 
Resource Report
Resource Website
1000+ mentions
Wikipedia (RRID:SCR_004897) Wikipedia data or information resource, wiki, narrative resource, database Wikipedia is a free, web-based, collaborative, multilingual encyclopedia project supported by the non-profit Wikimedia Foundation. Its 19 million articles (over 3.6 million in English) have been written collaboratively by volunteers around the world, and almost all of its articles can be edited by anyone with access to the site. As of July 2011, there were editions of Wikipedia in 282 languages. Wikipedia was launched in 2001 by Jimmy Wales and Larry Sanger and has become the largest and most popular general reference work on the Internet, ranking around seventh among all websites on Alexa and having 365 million readers. The name Wikipedia was coined by Larry Sanger and is a combination of wiki (a technology for creating collaborative websites, from the Hawaiian word wiki, meaning quick) and encyclopedia. Wikipedia''s departure from the expert-driven style of encyclopedia building and the large presence of unacademic content has been noted several times. Some have noted the importance of Wikipedia not only as an encyclopedic reference but also as a frequently updated news resource because of how quickly articles about recent events appear. Although the policies of Wikipedia strongly espouse verifiability and a neutral point of view, critics of Wikipedia accuse it of systemic bias and inconsistencies (including undue weight given to popular culture), and allege that it favors consensus over credentials in its editorial processes. Its reliability and accuracy are also targeted. A 2005 investigation in Nature showed that the science articles they compared came close to the level of accuracy of Encyclopedia Britannica and had a similar rate of serious errors. is used by: DBpedia
is related to: ImpactStory
is related to: WikiProject Clinical Trials
is parent organization of: Comparison of web annotation systems
is parent organization of: Gene Wiki
is parent organization of: Cumulative Distribution Function
is parent organization of: Wikibooks
Wikimedia Foundation nlx_86719 SCR_004897 2026-08-10 09:32:26 1760
SEQanswers Wiki
 
Resource Report
Resource Website
1+ mentions
SEQanswers Wiki (RRID:SCR_004810) SEQwiki data or information resource, narrative resource, software repository, software resource, wiki Wiki forum providing an extensive catalogue of manually categorized analysis tools, technologies and information about service providers, maintained by the members of the SEQanswers community. * Minimum Information about a high-throughput Sequencing Experiment * Software Hub: The place to add to, edit or browse the software database on SEQwiki. * Service Providers: Browse or edit the list of NGS service facilities. * How-to Hub: Mini reviews for the most used tools broken down by common tasks. * Developers Hub: The place to discuss the development of the SEQwiki site and its associated data. See also publishing SEQ*. * Publications: Publication about SEQwiki and selected citations. sequencing, high-throughput sequencing, service provider, next generation sequencing, next-generation genomics, genomics, data set, wiki, software is listed by: 3DVC
is listed by: OMICtools
has parent organization: SEQanswers
PMID:22086956 The community can contribute to this resource OMICS_01743, nlx_143911 SCR_004810 2026-08-10 09:32:22 1
NCBI Sequence Read Archive (SRA)
 
Resource Report
Resource Website
5000+ mentions
NCBI Sequence Read Archive (SRA) (RRID:SCR_004891) SRA data or information resource, data repository, database, service resource, storage service resource Repository of raw sequencing data from next generation of sequencing platforms including including Roche 454 GS System, Illumina Genome Analyzer, Applied Biosystems SOLiD System, Helicos Heliscope, Complete Genomics, and Pacific Biosciences SMRT. In addition to raw sequence data, SRA now stores alignment information in form of read placements on reference sequence. Data submissions are welcome. Archive of high throughput sequencing data,part of international partnership of archives (INSDC) at NCBI, European Bioinformatics Institute and DNA Database of Japan. Data submitted to any of this three organizations are shared among them. sequence, blast, next-generation sequence, alignment, read placement, reference sequence, roche 454 gs system, illumina genome analyzer, applied biosystems solid system, helicos heliscope, complete genomics, pacific biosciences smrt, high-throughput sequencing, data analysis service, gold standard is recommended by: National Library of Medicine
is recommended by: NIDDK Information Network (dkNET)
is listed by: OMICtools
is related to: European Nucleotide Archive (ENA)
is related to: RecountDB
is related to: SRAdb
is related to: DDBJ Sequence Read Archive
is related to: Bgee: dataBase for Gene Expression Evolution
is related to: NCBI BioSample
is related to: DDBJ Sequence Read Archive
is related to: METAGENOTE
has parent organization: NCBI
works with: SARS-CoV-2-Sequences
works with: Signaling Pathways Project
NLM PMID:22009675
PMID:21062823
Free, Available for download, Freely available OMICS_01031, nlx_86174, r3d100010775 https://doi.org/10.17616/R31S69 SCR_004891 Sequence Read Archive, , SRA, NCBI SRA 2026-08-10 09:32:26 7247
Classifier for Metagenomic Sequences
 
Resource Report
Resource Website
100+ mentions
Classifier for Metagenomic Sequences (RRID:SCR_004929) ClaMS software application, software resource, data analysis software, data processing software THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 2nd, 2023. Sequence composition based classifier for metagenomic sequences. It works by capturing signatures of each sequence based on the sequence composition. Each sequence is modeled as a walk in a de Bruijn graph with underlying Markov chain properties. ClaMS captures stationary parameters of the underlying Markov chain as well as structural parameters of the underlying de Bruijn graph to form this signature. In practice, for each sequence to binned, such a signature is computed and matched to similar signatures computed for the training sets. The best match that also qualifies the normalized distance cut-off wins. In the case that the best match does not qualify this cut-off, the sequence remains un-binned. metagenome, classification, sequence is listed by: OMICtools
has parent organization: DOE Joint Genome Institute
DOE contract DE-AC02-05CH11231 THIS RESOURCE IS NO LONGER IN SERVICE SCR_005519, nlx_144629, OMICS_01452 SCR_004929 2026-08-10 09:32:24 150
MethodBox
 
Resource Report
Resource Website
1+ mentions
MethodBox (RRID:SCR_004928) MethodBox data or information resource, source code, data repository, portal, data set, service resource, software resource, community building portal, storage service resource Collaboration environment for sharing variable sets and statistical methods for analysis across social science survey data. MethodBox enables you to browse and download datasets, share methods and scripts, find fellow researchers with similar interests and share your knowledge. MethodBox source available on Google code. Finding the variables you need to support a particular research question can be time consuming. Wading through hundreds of pages of PDF documents, codebooks and metadata and then trying to find the exact column in a huge spreadsheet can be very frustrating. MethodBox gets you to the variables faster and lets you download only the data you need. You can also share your scripts with others to allow them to adopt best practice quicker than before. variable, survey data, method, script, data sharing, social science has parent organization: University of Manchester; Manchester; United Kingdom ESRC PMID:20841736 Account required nlx_89127 SCR_004928 2026-08-10 09:32:26 1
Anatomy Atlases
 
Resource Report
Resource Website
1+ mentions
Anatomy Atlases (RRID:SCR_004888) Anatomy Atlases data or information resource, portal, narrative resource, topical portal, book, image collection, atlas An anatomy digital health sciences library to educate patients, healthcare providers, and students in a free and anonymous manner while using current, authoritative, trustworthy health information. Anatomy Atlases addresses the continuum of anatomy education and may be of use primarily to three distinct populations. It is written for and intended primarily for use by Medical Students, Residents, Fellows, or Attending Physicians studying anatomy. Other Health Care Providers studying anatomy should find it useful. Finally, Patients (including patient''s family members or friends) may find it helpful. Anatomy Textbooks and Anatomy Atlases: * Atlas of Human Anatomy * Atlas of Human Anatomy in Cross Section * Illustrated Encyclopedia of Human Anatomic Variation * Atlas of Microscopic Anatomy - A Functional Approach: Companion to Histology and Neuroanatomy: Second Edition * Anatomy of First Aid - A Case Study Approach * Lessons From a Bone Box Lessons From a Bone Box anatomy, atlas, first aid, histology, neuroanatomy, bone, anatomic variation Michael P. D'Alessandro M.D. nlx_85752 SCR_004888 2026-08-10 09:32:24 3
Parallel-META
 
Resource Report
Resource Website
1+ mentions
Parallel-META (RRID:SCR_000121) software application, software resource, data analysis software, data processing software THIS RESOURCE IS NO LONGER IN SERVICE. Documented on August 30,2023. Open source pipeline for metagenomic data analysis, which enables efficient and parallel analysis of multiple metagenomic datasets and visualization of results for multiple samples. Can perform rapid data mining among microbial community data for comparative taxonomic and functional analysis. data mining, microbial community data, comparative taxonomics, metagenomic analysis, parallel algorithms is listed by: OMICtools PMID:23046922 THIS RESOURCE IS NO LONGER IN SERVICE OMICS_01519 SCR_000121 Parallel META, Parallel Meta 2026-08-10 09:31:04 4
RefFinder
 
Resource Report
Resource Website
10+ mentions
RefFinder (RRID:SCR_000472) RefFinder analysis service resource, production service resource, web service, service resource, software resource, data access protocol THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 1,2023. Web-based tool for evaluating and screening reference genes from extensive experimental datasets. It integrates major computational programs (geNorm, Normfinder, BestKeeper, and the comparative delta-Ct method) to compare and rank the tested candidate reference genes. Based on the rankings from each program, it assigns an appropriate weight to an individual gene and calculated the geometric mean of their weights for the overall final ranking., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. gene, gene expression, reference gene, web based tool uses: BestKeeper
uses: NormFinder
uses: geNORM
is listed by: OMICtools
has parent organization: East Carolina University; Carolina; USA
THIS RESOURCE IS NO LONGER IN SERVICE OMICS_02321 http://www.leonxie.com/referencegene.php SCR_000472 2026-08-10 09:31:10 45
Human Disease Ontology
 
Resource Report
Resource Website
1+ mentions
Human Disease Ontology (RRID:SCR_000476) DO data or information resource, database, controlled vocabulary, ontology Comprehensive hierarchical controlled vocabulary for human disease representation.Open source ontology for integration of biomedical data associated with human disease. Disease Ontology database represents comprehensive knowledge base of inherited, developmental and acquired human diseases. obo, pathological, organismal, cellular, disease, biomedical, health, neurologic disease, neurological disorder, phenotype, bio.tools, is used by: DOAF
is listed by: BioPortal
is listed by: OBO
is listed by: bio.tools
is listed by: Debian
is related to: PharmGKB Ontology
is related to: GWASdb
is related to: NUgene Project
is related to: FunDO
is related to: Neurocarta
has parent organization: University of Maryland School of Medicine; Maryland; USA
NHGRI U24 HG012557 PMID:22080554 THIS RESOURCE IS NO LONGER IN SERVICE nif-0000-35926, nlx_157432, SCR_003491, biotools:disease_ontology http://disease-ontology.org/, https://bio.tools/disease_ontology, http://purl.obolibrary.org/obo/doid.obo, http://do-wiki.nubic.northwestern.edu/index.php/Main_Page SCR_000476 Human Disease Ontology Knowledgebase, Disease Ontology 2026-08-10 09:31:10 5
Gazetteer
 
Resource Report
Resource Website
1+ mentions
Gazetteer (RRID:SCR_000473) GAZ data or information resource, topical portal, portal THIS RESOURCE IS NO LONGER IN SERVICE, documented on April 23, 2014. Description not available. obo, owl is listed by: BioPortal
is listed by: OBO
has parent organization: Genomic Standards Consortium
THIS RESOURCE IS NO LONGER IN SERVICE nlx_157412 http://purl.obolibrary.org/obo/gaz.owl, http://build.berkeleybop.org/job/build-gaz/lastSuccessfulBuild/artifact/gaz.obo http://gensc.org/gc_wiki/index.php/GAZ_Project SCR_000473 2026-08-10 09:31:10 1
AETIONOMY
 
Resource Report
Resource Website
1+ mentions
AETIONOMY (RRID:SCR_000232) AETIONOMY data or information resource, organization portal, consortium, portal Consortium founded to establish mechanism-based taxonomies for Alzheimer's and Parkinson's disease and other neurodegenerative disorders (NDD), with the goal of facilitating development of more effective and targeted treatments. To do this, the consortium collects and analyzes data to: * Create new ways to combine underutilized data currently available in the literature, public databases, and from private companies * Determine how to dynamically organize and structure different types of knowledge about NDD * Determine how to apply this knowledge to construct new patient group classification * Identify correlations between disease features at molecular, tissue or organ-specific, and clinical levels * Identify sub-groups of patients based on the molecular cause of their disease, as opposed to the nature and location of their symptoms * Deliver data, tools, and recommendations for the biomedical community in the treatment of NDD A mechanism-based taxonomy is hoped to advance the: # Description and organization of the indication-specific data # Linking of data to disease models, based on causal and correlative relationships The expected outcome of AETIONOMY is a new NDD taxonomy system that distinguishes mixed pathologies, allowing for new features or classes to be added into the taxonomy, all with the goal of aiding drug and biomarker discovery. drug development, drug, taxonomy, biomarker, etiology, epidemiology, neuroimaging, mechanism, clinical, clinical trial, database, classification, biological pathway, bio.tools is listed by: bio.tools
is listed by: Debian
has parent organization: Fraunhofer Institute for Algorithms and Scientific Computing SCAI; North Rhine-Westphalia; Germany
IMI ;
EFPIA
nlx_157972, biotools:AETIONOMY https://bio.tools/AETIONOMY SCR_000232 2026-08-10 09:31:06 3
National MS Society
 
Resource Report
Resource Website
10+ mentions
National MS Society (RRID:SCR_000104) National MS Society data or information resource, funding resource, portal, topical portal, disease-related portal THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 31,2025. Society helps people affected by Multiple Sclerosis by funding cutting-edge research, driving change through advocacy, facilitating professional education, and providing programs and services that help people with MS and their families move their lives forward. multiple sclerosis, award, grant, postdoctoral fellowship Multiple Sclerosis THIS RESOURCE IS NO LONGER IN SERVICE nlx_143693 SCR_000104 National Multiple Sclerosis Society 2026-08-10 09:31:04 34
RSEM
 
Resource Report
Resource Website
100+ mentions
RSEM (RRID:SCR_000262) software application, software resource, data analysis software, data processing software Software package for quantifying gene and isoform abundances from single end or paired end RNA Seq data. Accurate transcript quantification from RNA Seq data with or without reference genome. Used for accurate quantification of gene and isoform expression from RNA-Seq data. quantifying, gene, isoform, abundance, single, end, paired, RNA seq, data, transcript, reference, genome, bio.tools is listed by: OMICtools
is listed by: GitHub
is listed by: bio.tools
is listed by: Debian
has parent organization: University of Wisconsin-Madison; Wisconsin; USA
PMID:21816040 Free, Available for download, Freely available OMICS_01966, OMICS_01287, biotools:rsem, SCR_013027 https://github.com/deweylab/RSEM, https://github.com/deweylab/RSEM/releases, https://bio.tools/rsem, https://sources.debian.org/src/rsem/ SCR_000262 RSEM, RNA-Seq by Expectation-Maximization, RSEM-v1.3.0 2026-08-10 09:31:07 115

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