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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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Semantic MediaWiki Resource Report Resource Website 1+ mentions |
Semantic MediaWiki (RRID:SCR_006246) | SMW | software resource | A free, open-source extension to MediaWiki - the wiki software that powers Wikipedia - that helps to search, organize, tag, browse, evaluate, and share the wiki''s content. While traditional wikis contain only text which computers can neither understand nor evaluate, SMW adds semantic annotations that allow a wiki to function as a collaborative database. Semantic MediaWiki introduces some additional markup into the wiki-text which allows users to add semantic annotations to the wiki. While this first appears to make things more complex, it can also greatly simplify the structure of the wiki, help users to find more information in less time, and improve the overall quality and consistency of the wiki. A large number of related extensions have been created that extend the ability to edit, display and browse through the data stored by SMW: the term Semantic MediaWiki is sometimes used to refer to this entire family of extensions. | extension, wiki, semantic annotation, authoring tool |
is listed by: FORCE11 has parent organization: MediaWiki |
European Union | Open unspecified license | nif-0000-06677 | SCR_006246 | Semantic Media Wiki | 2026-08-01 12:03:06 | 3 | ||||||
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pepStat Resource Report Resource Website 1+ mentions |
pepStat (RRID:SCR_006240) | software resource | Software for statistical analysis of peptide microarrays. It uses an integrated analytical method for analyzing peptide microarray antibody binding data, from normalization through subject-specific positivity calls and data integration and visualization. | standalone software | is listed by: OMICtools | PMID:23770318 | OMICS_04027 | SCR_006240 | 2026-08-01 12:03:06 | 8 | |||||||||
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estMOI Resource Report Resource Website 10+ mentions |
estMOI (RRID:SCR_006192) | estMOI | software resource | A per-based software to estimate multiplicity of infection (MOI) in parasite genomic sequence data. It is primarily developed to address the limitations of current laboratory (PCR) based estimates of multiplicity using high throughput sequence data. It requires a BAM (alignment output of short reads to the reference genome), VCF (a file with information on variant calls) and FASTA (reference genome) files. # Short reads are aligned to a reference genome using BWA, BOWTIE, SMALT or other short read aligners to generate a BAM file. # Single Nucleotide Polymorphisms (SNPs) are then identified using SAMTools/BCFtools and stored in the VCF format. # The reference FASTA file is expected to be indexed using ''samtools faidx'' to generate a *.fai file. estMOI generates files containing MOI estimates for each SNP combinations (file with name *.log) and a summary for all chromosomes (file with name *.txt). | multiplicity of infection, parasite, genome, high throughput sequencing, single nucleotide polymorphism, chromosome | is listed by: OMICtools | PMID:24443379 | Free, Public | OMICS_02240 | SCR_006192 | estMOI - Estimating multiplicity of infection using parasite deep sequencing data | 2026-08-01 12:03:06 | 10 | ||||||
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R and D Systems Resource Report Resource Website 500+ mentions |
R and D Systems (RRID:SCR_006140) | commercial organization | An Antibody supplier who also provides assay services and products. | antibody supplier, assay, service | Commercially available, Available to the research community | grid.437628.c, nlx_152445, Wikidata: Q30291645 | https://ror.org/05k887p27 | SCR_006140 | R&D Systems | 2026-08-01 12:03:05 | 935 | ||||||||
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Childrens Tumor Foundation Resource Report Resource Website 1+ mentions |
Childrens Tumor Foundation (RRID:SCR_006280) | CTF | institution | A non-profit dedicated to ending neurofibromatosis (NF) through research. It is the leading nonprofit funding source of NF research in the world. The mission of The Children''s Tumor Foundation is to: * Encourage and support research and the development of treatments and cures for neurofibromatosis types 1 and 2, schwannomatosis, and related disorders (hereafter collectively referred to as NF); * Support persons with NF, their families, and caregivers by providing thorough, accurate, current, and readily accessible information; * Assist in the development of clinical centers, best practices, and other patient support mechanisms (but not including direct medical care) to create better access to quality healthcare for affected individuals; and, * Expand public awareness of NF to promote earlier and accurate diagnoses by the medical community, increase the non-affected population''s understanding of the challenges facing people with NF, and encourage financial and other forms of support from public and private sources. Through the implementation of the Foundation''s research initiatives, progress is being made on all fronts and for all types of NF; from discovery studies understanding the molecular signaling deficits that cause the manifestations of NF to the growth of preclinical drug screening initiatives and the emergence of a growing number of clinical trials. The Foundation advances research through strategically integrated programs that speed therapies from the lab to the patient. | child, award, grant, contract, drug discovery, clinical | Neurofibromatosis, Schwannomatosis | Wikidata: Q5098233, nlx_151890, ISNI: 0000 0004 5906 2417, grid.421144.6, Crossref funder ID: 100001545 | https://ror.org/01hx92781 | SCR_006280 | Children's Tumor Foundation, Children's Tumor Foundation: Ending Neurofibromatosis Through Research | 2026-08-01 12:03:06 | 9 | |||||||
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HyBrow (Hypothesis Browser) Resource Report Resource Website 1+ mentions |
HyBrow (Hypothesis Browser) (RRID:SCR_006272) | HyBrow | software resource | A prototype bioinformatics tool for designing hypotheses and evaluating them for consistency with existing knowledge. It consists of a modeling framework with the ability to accommodate diverse biological information sources, an event-based ontology for representing biological processes at different levels of detail, a database to query information in the ontology, and programs to perform hypothesis design and evaluation. There are five key components involved in making HyBrow work. # The Event-based ontology for representing biological knowledge # The Discreet Event Systems based conceptual framework which provides the theory that allows us to make statements in a context free formal language (made up of the ontology) and evaluate the statements for validity using constraints declared on existing data # The rule library that provides the steps to apply those constraints and decide support, contradiction or no comment. # The relational database that stores existing information structured into the ontology. # The user interface. | hypothesis, rhetorical structure |
is listed by: FORCE11 has parent organization: Stanford University; Stanford; California |
nif-0000-06707 | SCR_006272 | Hypothesis Browser, HyBrow: A prototype system for computer-aided hypothesis evaluation | 2026-08-01 12:03:06 | 1 | ||||||||
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Bill and Melinda Gates Foundation Resource Report Resource Website 500+ mentions |
Bill and Melinda Gates Foundation (RRID:SCR_006346) | Gates Foundation | institution | Foundation to help all people lead healthy, productive lives, this funding and job resource is focused on health, poverty, and opportunity. They work with partner organizations worldwide to tackle critical problems in four program areas. Their Global Development Division works to help the world''s poorest people lift themselves out of hunger and poverty. Their Global Health Division aims to harness advances in science and technology to save lives in developing countries. Their United States Division works to improve U.S. high school and postsecondary education and support vulnerable children and families in Washington State. And their Global Policy & Advocacy Division seeks to build strategic relationships and promote policies that will help advance their work. Our approach to grantmaking in all four areas emphasizes collaboration, innovation, risk-taking, and, most importantly, results. The foundation is unable to make grants directly to individuals. The majority of our funding is proactive and made to U.S. tax-exempt organizations that are independently identified by our staff. | development, health, education, grant, science, technology, career, global health, global development, agricultural development, emergency response, family planning, maternal health, neonatal health, child health, nutrition, polio, vaccine, sanitation, hygiene | Enteric disease, Diarrheal disease, HIV, Malaria, Neglected infectious disease, Infectious disease, Pneumonia, Tuberculosis | nlx_152065, ISNI: 0000 0000 8990 8592, grid.418309.7, Crossref funder ID: 100000865, Wikidata: Q655286 | https://ror.org/0456r8d26 | SCR_006346 | Bill & Melinda Gates Foundation | 2026-08-01 12:03:07 | 833 | |||||||
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Ben and Catherine Ivy Foundation Resource Report Resource Website 1+ mentions |
Ben and Catherine Ivy Foundation (RRID:SCR_006333) | Ivy Foundation | funding resource | Funds patient-focused research on gliomas to develop better diagnostics and treatments that lead to long-term survival and a high quality of life for patients with brain tumors. The goal is to decrease the suffering of patients with brain tumors. With an ultimate goal to cure brain cancer, their immediate goal is to improve diagnostics and treatment. They are dedicated to improving the lives of all patients with brain cancer by funding research that they hope will lead to the doubling of life expectancy of patients with brain cancer. Their goal is to do this within the next seven years. Since 2005 they''ve committed more than $50 million to research into brain tumors, with the expectation that this will lead to better diagnostics and therapies. They are dedicated to this search because funding leads to answers, and answers lead to hope. | glioma, research, brain, tumor, brain tumor, diagnostic, treatment | Brain cancer, Cancer | nlx_152043 | SCR_006333 | 2026-08-01 12:03:07 | 2 | |||||||||
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DataWrangler Resource Report Resource Website 1+ mentions |
DataWrangler (RRID:SCR_006335) | Wrangler | service resource | Wrangler is an interactive tool for data cleaning and transformation. Spend less time formatting and more time analyzing your data. Why wrangle? * Too much time is spent manipulating data just to get analysis and visualization tools to read it. Wrangler is designed to accelerate this process: spend less time fighting with your data and more time learning from it. * Wrangler allows interactive transformation of messy, real-world data into the data tables analysis tools expect. Export data for use in Excel, R, Tableau, Protovis, ... * Want to learn more about Wrangler''s design? Take a look at our research paper. * Wrangler is still a work-in-progress. Please share your feedback and feature requests! | has parent organization: Stanford University; Stanford; California | nif-0000-06730 | SCR_006335 | 2026-08-01 12:03:07 | 3 | ||||||||||
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PhyloBayes Resource Report Resource Website 100+ mentions |
PhyloBayes (RRID:SCR_006402) | PhyloBayes | software resource | A Bayesian Monte Carlo Markov Chain (MCMC) sampler software for phylogenetic reconstruction. Its main distinguishing feature is the underlying probabilistic model, CAT (Lartillot and Philippe, 2004). CAT is an infinite mixture model accounting for site-specific amino-acid or nucleotide preferences. It is well suited to phylogenomic studies using large multigene alignments., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | phylogenomic, multigene alignment, alignment, reconstruction |
is listed by: OMICtools has parent organization: University of Montreal; Quebec; Canada |
PMID:24318999 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_02212 | SCR_006402 | PhyloBayes - phylogenetic reconstruction using infinite mixtures | 2026-08-01 12:03:11 | 485 | ||||||
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University of Oxford; Oxford; United Kingdom Resource Report Resource Website 1+ mentions |
University of Oxford; Oxford; United Kingdom (RRID:SCR_006361) | Oxford | university | Collegiate research university in Oxford, England. Teaching as early as 1096, making it the oldest university in English speaking world and world second oldest university in continuous operation. |
uses: ShareLaTeX uses: Overleaf uses: ReadCube uses: Sparrho uses: Writefull uses: LabArchives uses: Bioz is related to: Medical Research Council Harwell: An International Centre for Mouse Genetics is related to: European Gram Negative AntiBacterial Engine is related to: Kinetics for Drug Discovery is related to: Kidney Health Initiative is related to: READNA is related to: ONE Study is related to: European Management Platform for Emerging and Re-Emerging Infectious Disease Entities (EMPERIE) is related to: ShareLaTeX is related to: LabArchives is related to: Center for Expanded Data Annotation and Retrieval is parent organization of: University of Oxford Labs and Facilities is parent organization of: WTCHG Genome Scan Viewer is parent organization of: NeuroHub: the information environment for Neuroscientists is parent organization of: bioDBcore is parent organization of: FSL is parent organization of: Wellcome Trust Centre for Human Genetics is parent organization of: Structural Genomics Consortium is parent organization of: FAIRsharing is parent organization of: PeaKDEck is parent organization of: CiTO - the Citation Typing Ontology is parent organization of: Brain Bank for Autism is parent organization of: Oxford Science Blog is parent organization of: Oxford Centre for Functional MRI of the Brain is parent organization of: JISC Open Citations is parent organization of: Open Provenance Model Vocabulary is parent organization of: Computational Genomics Analysis Tools is parent organization of: Alpha-7 Database is parent organization of: FMRIB Software Library is parent organization of: PairsDB is parent organization of: RNA Virus Database is parent organization of: Cellular Open Resource is parent organization of: DTU is parent organization of: Bioinformatics and Statistical Genetics is parent organization of: elk-reasoner is parent organization of: CGDB is parent organization of: Potassium Channel Database is parent organization of: Oxford Central Proteomics Facility is parent organization of: Colwiz is parent organization of: myExperiment is parent organization of: ISA Infrastructure for Managing Experimental Metadata is parent organization of: EMIF is parent organization of: CPFP is parent organization of: IonChannelGenealogy is parent organization of: Orthologous and Paralogous Transcripts in Clades is parent organization of: HomeoDB is parent organization of: Open Trials is parent organization of: OVAL is parent organization of: easyGV is parent organization of: iHOMA2 is parent organization of: microC is parent organization of: University of Oxford Computational Biology Research Group Core Facility is parent organization of: University of Oxford Medical Sciences Division Computational Genomics: Analysis and Training Core Facility is parent organization of: ARGON is parent organization of: FAIRassist.org |
Crossref funder ID:501100000769, Wikidata:Q34433, ISNI:0000 0004 1936 8948, grid.4991.5, nlx_59631 | https://ror.org/052gg0110 | SCR_006361 | Oxford University | 2026-08-01 12:03:10 | 6 | ||||||||
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University of Oviedo; Oviedo; Spain Resource Report Resource Website 1+ mentions |
University of Oviedo; Oviedo; Spain (RRID:SCR_006359) | university | Public university in Asturias. It is the only university in the region. It has three campus and research centres, located in Oviedo, Gijón and Mieres. |
is parent organization of: Mammalian Degradome Database is parent organization of: Human Hereditary Diseases of Proteolysis is parent organization of: Ancillary Domains Associated With Human and Mouse Proteases |
nlx_53766, ISNI:0000 0001 2164 6351, grid.10863.3c, Wikidata:Q2303432, Crossref funder ID:501100006382 | https://ror.org/006gksa02 | SCR_006359 | 2026-08-01 12:03:08 | 1 | ||||||||||
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WebScope Resource Report Resource Website 10+ mentions |
WebScope (RRID:SCR_006355) | WebScope | image collection, data or information resource | Expansive collection of high-quality wholeslide images | nlx_152089 | SCR_006355 | Aperio WebScope | 2026-08-01 12:03:08 | 17 | ||||||||||
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SNPdryad Resource Report Resource Website 1+ mentions |
SNPdryad (RRID:SCR_006414) | SNPdryad | service resource | Service to predict deleterious non-synonymous human Single Nucleotide Polymorphisms (SNPs) using only orthologous protein sequences. | non-synonymous, single nucleotide polymorphism, ortholog, protein sequence |
is listed by: OMICtools has parent organization: University of Toronto; Ontario; Canada |
PMID:24389653 | OMICS_02198 | SCR_006414 | SNPdryad - Deleterious Non-Synonymous SNP Predictions for Human | 2026-08-01 12:03:11 | 3 | |||||||
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QCGWAS Resource Report Resource Website 1+ mentions |
QCGWAS (RRID:SCR_006408) | QCGWAS | software resource | Software tools for (automated and manual) quality control of the results of Genome Wide Association Studies. | quality control, genome wide association study, windows, os x, r, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools |
PMID:24395754 | GNU General Public License, v3 or later | OMICS_02203, biotools:qcgwas | https://bio.tools/qcgwas | SCR_006408 | QCGWAS: Quality Control of Genome Wide Association Study results, Quality Control of Genome Wide Association Study | 2026-08-01 12:03:09 | 7 | |||||
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Worcester Polytechnic Institute; Massachusetts; USA Resource Report Resource Website 1+ mentions |
Worcester Polytechnic Institute; Massachusetts; USA (RRID:SCR_006328) | WPI | institution | Private research university in Worcester, Massachusetts, focusing on the instruction and research of technical arts and applied sciences. | University | is parent organization of: Medical Image Visualization and Analysis | grid.268323.e, nlx_155573, ISNI: 0000 0001 1957 0327, Wikidata: Q195046 | https://ror.org/05ejpqr48 | SCR_006328 | Worcester Polytechnic Institute | 2026-08-01 12:03:07 | 1 | |||||||
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ProtEra Resource Report Resource Website 10+ mentions |
ProtEra (RRID:SCR_006434) | commercial organization | An Antibody supplier | nlx_152440 | SCR_006434 | 2026-08-01 12:03:08 | 10 | ||||||||||||
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BC Cancer Foundation Resource Report Resource Website 1+ mentions |
BC Cancer Foundation (RRID:SCR_006428) | BC Cancer Foundation | institution | The fundraising partner of the BC Cancer Agency and the largest charitable funder of cancer research in this province. We enable donors to make contributions to leading-edge research that has a direct impact on improvements to cancer care for patients in British Columbia. By connecting philanthropy and research, we support the revolutionary advances that will help us achieve our vision of a world free from cancer. Our Cause: Supporting world-renowned cancer research in BC One in three British Columbians will be diagnosed with cancer in their lifetime. Because the BC Cancer Agency integrates research and treatment, the process from discovery to treatment is shorter, and researchers are asking questions focused on the needs of patients in BC. The BC Cancer Agency excels at translating exciting discoveries from the researcher''''s bench to the patient''''s bedside. This is the quickest and most effective way to impact cancer care, and it makes the Agency an international leader in cancer research. Our Donors: Leading the way in helping us advance our cause Our unique relationship with the BC Cancer Agency allows our donors to be part of research discoveries made right here in BC. We invite donors to become more connected to the BC Cancer Agency''''s world-leading research that is shaping the future of patient care. At the BC Cancer Foundation we are funding the areas of greatest priority and promise. We know, because we ask the scientists and clinicians at the BC Cancer Agency to identify the priorities and needs that will have the most significant and timely impact on cancer care and treatment. We then partner with our donors to raise the necessary funds in support of this life-saving work. Together we are funding and finding solutions that are having a direct impact on improving care for cancer patients in British Columbia. | british columbia, research | is related to: BC Cancer Agency | Cancer | nlx_151770, ISNI 0000 0001 0745 6244, grid.484001.9 | https://ror.org/03gqhbs95 | SCR_006428 | 2026-08-01 12:03:09 | 2 | |||||||
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Jalview Resource Report Resource Website 1000+ mentions |
Jalview (RRID:SCR_006459) | Jalview | software resource | A free program for multiple sequence alignment editing, visualisation and analysis that is available in two forms: a lightweight Java applet for use in web applications, and a powerful desktop application that employs web services for sequence alignment, secondary structure prediction and the retrieval of alignments, sequences, annotation and structures from public databases and any DAS 1.53 compliant sequence or annotation server. Use it to view and edit sequence alignments, analyse them with phylogenetic trees and principal components analysis (PCA) plots and explore molecular structures and annotation. Jalview has built in DNA, RNA and protein sequence and structure visualisation and analysis capabilities. It uses Jmol to view 3D structures, and VARNA to display RNA secondary structure. | edit, analysis, annotation, multiple sequence alignment, wysiwyg, bio.tools, FASEB list |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools is listed by: SoftCite has parent organization: University of Dundee; Scotland; United Kingdom |
BBSRC BBSB16542 | PMID:19151095 DOI:10.1093/bioinformatics/btp033 |
GNU General Public License, v3, Acknowledgement requested | OMICS_00885, biotools:Jalview | https://bio.tools/Jalview, https://sources.debian.org/src/jalview/ | SCR_006459 | 2026-08-01 12:03:10 | 3769 | |||||
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Yeungnam University; North Gyeongsang; South Korea Resource Report Resource Website 1+ mentions |
Yeungnam University; North Gyeongsang; South Korea (RRID:SCR_006575) | university | Private research university located in Gyeongsan, North Gyeongsang, South Korea. University includes colleges of Law and Medicine and teaching hospital. | is parent organization of: Death Domain database | nlx_149484 | http://www.yu.ac.kr/_under/index.html | SCR_006575 | Yeungnam University | 2026-08-01 12:03:12 | 1 |
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