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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | ||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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SOAPfuse Resource Report Resource Website 1+ mentions |
SOAPfuse (RRID:SCR_000078) | SOAPfuse | software resource | THIS RESOURCE IS NO LONGER IN SERVICE.Documented on August 23,2022. An open source tool developed for genome-wide detection of fusion transcripts from human being paired-end RNA-Seq data. This tool is a part of a larger set of tools to efficiently align oligonucleotides onto reference sequences . | software, resource, open license, DNA sequencing, genome, transcripts, RNA, oligonucleotide |
is listed by: OMICtools is listed by: SourceForge is listed by: SOAP |
PMID:23409703 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_01357 | SCR_000078 | SciCrunch Registry | 2026-09-26 02:12:41 | 7 | |||||||
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Molegro Virtual Docker Resource Report Resource Website 1+ mentions |
Molegro Virtual Docker (RRID:SCR_000190) | Molegro Virtual Docker | software resource | An integrated platform for predicting protein-ligand interactions, the visualization of new ideas and analyzing protein targets. | protein ligand, protein target, visualization, integrated platform | is listed by: OMICtools | Free, Available for download, Freely available | OMICS_01603 | SCR_000190 | SciCrunch Registry | 2026-09-26 02:12:43 | 9 | ||||||||
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Genemed Resource Report Resource Website 1+ mentions |
Genemed (RRID:SCR_000070) | commercial organization | A supplier of cancer and infectious disease diagnostic reagents. The company also provides services such as tissue-based and molecular diagnostics to their partners to accelerate their in vitro diagnostic device (IVD) product development and commercialization. | antibody, diagnostic, research, development, commercialization, in vitro diagnostic device, IVD, cancer, infectious diseases | Commercial | nlx_152371 | SCR_000070 | SciCrunch Registry | 2026-09-26 02:12:41 | 1 | ||||||||||
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JChemPaint Resource Report Resource Website 1+ mentions |
JChemPaint (RRID:SCR_000095) | JCP | software resource | Chemical 2D structure editor and viewer application/applet based on the Chemistry Development Kit (CDK). | applet, mac os x, unix/linux, windows, java | is listed by: OMICtools | Free, Available for download, Freely available | OMICS_04959 | https://github.com/JChemPaint/jchempaint | SCR_000095 | SciCrunch Registry | 2026-09-26 02:12:41 | 1 | |||||||
|
EPIGEN Resource Report Resource Website 10+ mentions |
EPIGEN (RRID:SCR_000093) | EPIGEN | consortium, data or information resource, organization portal, portal | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on August 16,2023. Group of clinical care and epilepsy research centers who are committed to improving the lives of people with epilepsy through an understanding of the genetics of epilepsy. The consoritum was in an effort to speed discovery to epilepsy genetics by pooling the resources of several research centres., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | epilepsy, genetics, gene, mri, genetic variation, clinical |
has parent organization: Duke University; North Carolina; USA has parent organization: University College London; London; United Kingdom has parent organization: Beaumont Hospital; Dublin; Ireland has parent organization: Royal College of Surgeons in Ireland; Dublin; Ireland has parent organization: Free University of Brussels; Brussels; Belgium |
Epilepsy | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_143740 | SCR_000093 | SciCrunch Registry | EPIGEN: An international consortium dedicated to tackling epilepsy through genetics, EPIGEN Consortium | 2026-09-26 02:12:41 | 24 | ||||||
|
RmiR.Hs.miRNA Resource Report Resource Website |
RmiR.Hs.miRNA (RRID:SCR_000101) | software resource | Software package for various databases of microRNA Targets. | software package, unix/linux, mac os x, windows, r, annotation data, custom db schema, mirna |
is listed by: OMICtools is related to: CRAN has parent organization: Bioconductor |
Free, Available for download, Freely available | OMICS_05797 | SCR_000101 | SciCrunch Registry | RmiR.Hs.miRNA: Various databases of microRNA Targets | 2026-09-26 02:12:42 | 0 | ||||||||
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MODENT - A Tool For Reconstructing Gene Regulatory Networks Resource Report Resource Website 1+ mentions |
MODENT - A Tool For Reconstructing Gene Regulatory Networks (RRID:SCR_000220) | ModEnt | software resource | A computational tool that reconstructs gene regulatory networks from high throughput experimental data. | gene regulatory network, experimental data, computation, computational tool, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: Tel Aviv University; Ramat Aviv; Israel |
PMID:22216865 | Free, Available for download, Freely available | biotools:modent, OMICS_01685 | https://bio.tools/modent | SCR_000220 | SciCrunch Registry | 2026-09-26 02:12:43 | 1 | ||||||
|
Context Likelihood of Relatedness Resource Report Resource Website 1+ mentions |
Context Likelihood of Relatedness (RRID:SCR_000216) | CLR | software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 31,2025. A software that infers regulatory interactions between transcription factors and their targets using a compendium of gene expression profiles. | transcription factors, gene expression profile, regulatory interactions, likelihood, relatedness | is listed by: OMICtools | PMID:17214507 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_01682 | http://gardnerlab.bu.edu/software&tools.html, | SCR_000216 | SciCrunch Registry | 2026-09-26 02:12:43 | 1 | ||||||
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Council for Scientific and Industrial Research; Gauteng; South Africa Resource Report Resource Website 1+ mentions |
Council for Scientific and Industrial Research; Gauteng; South Africa (RRID:SCR_000214) | CSIR | nonprofit organization | A leading scientific and technology research, development and implementation organization in Africa that undertakes directed research and development for socio-economic growth and improving the quality of life of South African citizens. | south africa, global economy, south african parliament, quality of life | is related to: Pharma-Planta Consortium | nlx_158309, Crossref funder ID: 501100001332, ISNI: 0000 0004 0607 1766, Wikidata: Q849145, grid.7327.1 | https://ror.org/05j00sr48 | SCR_000214 | SciCrunch Registry | CSIR South Africa, Council for Scientific and Industrial Research | 2026-09-26 02:12:43 | 3 | |||||||
|
Clinical Data Interchange Standards Consortium Resource Report Resource Website 10+ mentions |
Clinical Data Interchange Standards Consortium (RRID:SCR_000219) | CDISC | data or information resource, narrative resource, nonprofit organization, standard specification | A global, open, multidisciplinary, non-profit organization that has established standards to support the acquisition, exchange, submission and archive of clinical research data and metadata. Its mission is to develop and support global, platform-independent data standards that enable information system interoperability to improve medical research and related areas of healthcare. CDISC standards are vendor-neutral, platform-independent and freely available via the CDISC website. | clinical, data sharing, interoperability, medical, healthcare, clinical research data and metadata, |
is used by: TRANSFoRm Clinical Research Information Model is related to: Critical Path to TB Drug Regimens is related to: eTRIKS |
Free | nlx_157914 | SCR_000219 | SciCrunch Registry | 2026-09-26 02:12:43 | 11 | ||||||||
|
GENIE3 Resource Report Resource Website 10+ mentions |
GENIE3 (RRID:SCR_000217) | GENIE3 | software resource | An algorithm for the inference of gene regulatory networks from expression data. | javascript, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian |
PMID:20927193 | Free, Available for download, Freely available | biotools:genie3, OMICS_01683 | https://bio.tools/genie3 | http://www.montefiore.ulg.ac.be/~huynh-thu/software.html | SCR_000217 | SciCrunch Registry | 2026-09-26 02:12:43 | 10 | |||||
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Inferelator Resource Report Resource Website 1+ mentions |
Inferelator (RRID:SCR_000218) | software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 31,2025. Algorithm for learning parsimonious regulatory networks from systems biology data sets de novo. Software that utilizes inference algorithm to model genetic regulatory networks.Inferelator 2.0 is scalable framework for reconstruction of dynamic regulatory network models., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | modeling, inference algorithm, halobacterium, genetic regulatory network, learning regulatory network, model gene regulatory network | is listed by: OMICtools | PMID:23525069 PMID:16686963 PMID:19964678 |
THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_01684 | SCR_000218 | SciCrunch Registry | 2026-09-26 02:12:43 | 3 | ||||||||
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c3net Resource Report Resource Website 1+ mentions |
c3net (RRID:SCR_000212) | software resource | Software package that allows inferring gene regulatory networks with direct physical interactions from microarray expression data using C3NET. | gene regulation, microarray expression, c3net | is listed by: OMICtools | PMID:20920161 | Free, Available for download, Freely available | OMICS_01681 | SCR_000212 | SciCrunch Registry | 2026-09-26 02:12:43 | 4 | ||||||||
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Washington University School of Medicine Knight Alzheimers Disease Research Center Resource Report Resource Website 1+ mentions |
Washington University School of Medicine Knight Alzheimers Disease Research Center (RRID:SCR_000210) | ADRC, Knight ADRC | biomaterial supply resource, brain bank, data or information resource, material resource, organization portal, portal, tissue bank | The Charles F. and Joanne Knight Alzheimer Disease Research Center (Knight ADRC) supports researchers and our surrounding community in their pursuit of answers that will lead to improved diagnosis and care for persons with Alzheimer disease (AD). The Center is committed to the long-term goal of finding a way to effectively treat and prevent AD. The Knight ADRC facilitates advanced research on the clinical, genetic, neuropathological, neuroanatomical, biomedical, psychosocial, and neuropsychological aspects of Alzheimer disease, as well as other related brain disorders. | genetic, alzheimers disease, biomedical, brain, clinical, cure, dementia, development, disease, neuroanatomical, neurodegenerative disease, neuropathological, neuropsychological, research, senile, treatment, aging |
has parent organization: Washington University in St. Louis; Missouri; USA is parent organization of: Washington University School of Medicine Knight ADRC Request Center Resources Core Facility |
Alzheimer's disease, Dementia, Aging | NIA P50 AG05681 | Available to affiliated researchers, Public | SCR_008779, nif-0000-11285, nlx_144153 | SCR_000210 | SciCrunch Registry | Knight Alzheimers Disease Research Center, Washington University School of Medicine in St. Louis Knight ADRC, ADRC, WU Knight ADRC, WUADRC, Knight ADRC, Knight Alzheimer's Disease Research Center, Charles F. and Joanne Knight Alzheimer's Disease Research Center | 2026-09-26 02:12:43 | 2 | |||||
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Fiduswriter Resource Report Resource Website |
Fiduswriter (RRID:SCR_000204) | Fiduswriter | authoring tool, software application, software resource | An online collaborative editor for academics that use citations and/or formulas. The editor focuses on the content rather than the layout, so that with the same text, it can be published in multiple ways: On a website, as a printed book, or as an ebook. | authoring, collaboration, academic, citation | is listed by: FORCE11 | Free, Available for download, Freely available | nlx_156046 | http://www.force11.org/node/4729 | SCR_000204 | SciCrunch Registry | Fidus Writer | 2026-09-26 02:12:43 | 0 | ||||||
|
GraBCas Resource Report Resource Website |
GraBCas (RRID:SCR_000205) | GraBCas | software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 31,2025. A software tool for predicting granzyme B and caspase cleavage sites. | matlab, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian |
PMID:15980455 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_01674, biotools:grabcas | https://bio.tools/grabcas | SCR_000205 | SciCrunch Registry | 2026-09-26 02:12:43 | 0 | ||||||
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GPS-Calpain Cleavage Detector Resource Report Resource Website 1+ mentions |
GPS-Calpain Cleavage Detector (RRID:SCR_000202) | GPS-CCD | software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 31,2025. A software package for the prediction of calpain cleavage sites. | calpain, cleavage detector, prediction | is listed by: OMICtools | PMID:21533053 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_01673 | SCR_000202 | SciCrunch Registry | Calpain Cleavage Detector | 2026-09-26 02:12:43 | 4 | ||||||
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Queensland Cyber Infrastructure Foundation Ltd Resource Report Resource Website |
Queensland Cyber Infrastructure Foundation Ltd (RRID:SCR_000208) | QCIF | nonprofit organization | Provides digital infrastructure capabilities for research and innovation across Queensland and Australia. Provides services, infrastructure and support for computation and data driven collaborative research and its application in industry. Members are six Queensland universities – The University of Queensland, Queensland University of Technology, Griffith University, James Cook University, CQUniversity, and the University of Southern Queensland. The University of the Sunshine Coast is an associate member. Member employees provide support and development services. | bioinformatics, contract, software, infrastructure, proteomics, metabolomics, clinical, dataset, analysis |
is listed by: ScienceExchange has parent organization: University of Queensland; Brisbane; Australia is parent organization of: QFAB Bioinformatics |
Commonwealth Government of Australia ; funded through its members ; Queensland Government Department of Employment Economic Development and Innovation |
Available to the research community in Australia | SciEx_4541 | http://www.scienceexchange.com/facilities/4541 | SCR_000208 | SciCrunch Registry | Queensland Parallel Supercomputing Foundation, qcif, the Queensland Cyber Infrastructure Foundation | 2026-09-26 02:12:43 | 0 | |||||
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Multiple Myeloma Research Foundation Resource Report Resource Website 1+ mentions |
Multiple Myeloma Research Foundation (RRID:SCR_000207) | MMRF | institution | Research foundation that funds research to develop new treatments for multiple myeloma, an incurable blood cancer. | drug, treatment, cancer | is parent organization of: MMRF CoMMpass Study | Multiple myeloma | ISNI: 0000 0000 9350 5788, Crossref funder ID: 100001253, nlx_157895, Wikidata: Q6934894, grid.429426.f | https://ror.org/03ww1bx13 | SCR_000207 | SciCrunch Registry | 2026-09-26 02:12:43 | 9 | |||||||
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Faceted Search Based Ontology Visualizer Resource Report Resource Website |
Faceted Search Based Ontology Visualizer (RRID:SCR_000124) | ontologyviz | software resource | Software that allows user to do faceted search on an ontology and enables visualization of the search results on the 3D digital atlas. Currently supports faceted search of functional neuroanatomy. | computational neuroscience, magnetic resonance, ontology, functional neuroanatomy, facet, visualization | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | Free, Freely available | nlx_155874 | SCR_000124 | SciCrunch Registry | 2026-09-26 02:12:42 | 0 |
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The NIDDK Information Network (dkNET) serves the needs of basic and clinical investigators by providing seamless access to large pools of data and research resources relevant to the mission of The National Institute of Diabetes Digestive and Kidney Diseases (NIDDK). dkNET is hosted at University of California San Diego, and is supported by NIH NIDDK grant U24DK097771.
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