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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Organism Tractability Atlas Resource Report Resource Website |
Organism Tractability Atlas (RRID:SCR_028829) | data or information resource, atlas | Tractability atlas for experimental organism selection. Surveyable map of the practical tractability landscape organisms across the tree of life. | tractability atlas, experimental organism selection, | DOI:10.57844/arcadia-h2nn-w619 | Free, Freely available, | SCR_028829 | 2026-08-12 10:54:07 | 0 | ||||||||||
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Skylign Resource Report Resource Website 10+ mentions |
Skylign (RRID:SCR_001176) | Skylign | analysis service resource, production service resource, service resource, data analysis service, software resource | A tool for creating logos representing both sequence alignments and profile hidden Markov models. The interactive logos enable scrolling, zooming, and inspection of underlying values. Skylign can avoid sampling bias in sequence alignments by down-weighting redundant sequences and by combining observed counts with informed priors. It also simplifies the representation of gap parameters, and can optionally scale letter heights based on alternate calculations of the conservation of a position. | sequence alignment, profile, logo, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: Janelia Research |
PMID:24410852 | Creative Commons Attribution License, v3 Unported | biotools:skylign, OMICS_02182 | https://bio.tools/skylign | SCR_001176 | Skylign - Interactive logos for alignments and profile HMMs | 2026-08-13 09:26:18 | 13 | |||||
|
WiggleTools Resource Report Resource Website 1+ mentions |
WiggleTools (RRID:SCR_001170) | WiggleTools | data processing software, software application, software toolkit, software library, software resource | A multithreaded software library that computes statistics on large numbers of datasets, generating statistical summaries within minutes with limited memory requirements, whether on the whole genome or on selected regions. | visualization, statistical analysis, parallel processing, genome |
is listed by: OMICtools has parent organization: European Bioinformatics Institute |
PMID:24363377 | Apache License, v2 | OMICS_02188 | SCR_001170 | 2026-08-13 09:26:20 | 2 | |||||||
|
sim4cc Resource Report Resource Website |
sim4cc (RRID:SCR_001204) | data processing software, software application, image analysis software, alignment software, software resource | Software tool as cross species spliced alignment program.Heuristic sequence alignment tool for comparing cDNA sequence with genomic sequence containing homolog of gene in another species. | Cross species spliced alignment, unix, sequence alignment, cdna sequence, genomic sequence, homolog, gene, splice, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools has parent organization: Johns Hopkins University; Maryland; USA |
NSF CLS20163A; Sloan Research Fellowship ; NLM R01 LM006845 |
PMID:19429899 | Free, Available for download, Freely available | biotools:sim4cc, OMICS_02145 | https://bio.tools/sim4cc | SCR_001204 | 2026-08-13 09:26:19 | 0 | ||||||
|
Phylogenetic Ontology Resource Report Resource Website |
Phylogenetic Ontology (RRID:SCR_000912) | PHYLONT | ontology, data or information resource, controlled vocabulary | Ontology for Phylogenetic Analysis | owl | is listed by: BioPortal | nlx_157550 | SCR_000912 | 2026-08-13 09:26:16 | 0 | |||||||||
|
Omixon Target Data Analysis Resource Report Resource Website |
Omixon Target Data Analysis (RRID:SCR_001207) | Omixon Target | data analysis software, data processing software, commercial organization, software application, software toolkit, software resource | Software application suite to help clinical labs adopt next generation sequencing for the analysis of diagnostic gene targets. | next-generation sequencing, gene target, windows, linux, mac, gene, diagnostic |
is listed by: OMICtools is parent organization of: Omixon Target HLA Typing |
License required | OMICS_02141 | SCR_001207 | 2026-08-13 09:26:19 | 0 | ||||||||
|
GVK Biosciences Labs and Facilities Resource Report Resource Website |
GVK Biosciences Labs and Facilities (RRID:SCR_001044) | data or information resource, core facility, service resource, access service resource, portal | A contract research organization based in India that provides services including Clinical Development, Contract Manufacturing and Informatics. | contract research organization, India, informatics, commercial |
is listed by: ScienceExchange is related to: GVK BIO Chemistry Group |
THIS RESOURCE IS NO LONGER IN SERVICE | SciEx_4904 | SCR_001044 | GVK Biosciences Labs & Facilities | 2026-08-13 09:26:17 | 0 | ||||||||
|
Bleeding History Phenotype Ontology Resource Report Resource Website |
Bleeding History Phenotype Ontology (RRID:SCR_001165) | BHO | ontology, data or information resource, controlled vocabulary | An application ontology devoted to the standardized recording of phenotypic data related to hemorrhagic disorders. | owl | is listed by: BioPortal | Hemorrhagic disorder | nlx_157338 | SCR_001165 | 2026-08-13 09:26:18 | 0 | ||||||||
|
Ottawa Hospital Research Institute Labs and Facilities Resource Report Resource Website |
Ottawa Hospital Research Institute Labs and Facilities (RRID:SCR_001045) | OHRI Labs and Facilities, OHRI Labs & Facilities | data or information resource, core facility, service resource, access service resource, portal | Portal to research facilities and services within the Ottawa Hospital Research Institute. Facilities and services include access to their bioinformatics facility, flow cytometry facility, human pluripotent stem cell facility, and their clinical research lab. | genomics, proteomics, biotechnology, bioinformatics, human health, ottawa, research service |
is listed by: ScienceExchange has parent organization: University of Ottawa; Ontario; Canada |
THIS RESOURCE IS NO LONGER IN SERVICE | SciEx_4969 | http://www.scienceexchange.com/facilities/4969 | SCR_001045 | , Research Institute Labs, Ottawa Hospital, Facilities, OHRI | 2026-08-13 09:26:17 | 0 | ||||||
|
icyou Health Videos Resource Report Resource Website |
icyou Health Videos (RRID:SCR_001167) | topical portal, data or information resource, portal, video resource | THIS RESOURCE IS NO LONGER IN SERVICE, documented on August 18, 2016. icyou is an internet resource of health-related video clips submitted by users. Health topics covered in videos can range anywhere from infectious diseases to fitness and exercise, with videos generally being shorter than 10 minutes in length. Videos also contain information on treatment and procedures, medical fields, and health politics and policy. These videos may or may not be authored by licensed medical personnel. All videos are searchable, and users can also choose to upload their own healthcare-related videos. In addition to gathering healthcare video from the best sources on the Web and beyond, icyou.com can call on its own award-winning health reporting team to cover the latest issues and trends. Through its parent company Benefitfocus, icyou.com has full access to the Benefitfocus Media Studio, a state-of-the-art HD facility located in Charleston, South Carolina. This studio is the only one of its kind devoted solely to creating healthcare-oriented video content. In it, the Benefitfocus Media team creates up-to-the-minute reports, tutorials, features and more that help illuminate its users about the complexities of the many facets of healthcare. | exercise, fitness, healthcare, health policy, health politics, health topic, medical fields, medical procedure, treatment | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-11652 | http://www.icyou.com | SCR_001167 | icyou | 2026-08-13 09:26:18 | 0 | ||||||||
|
HIV ontology Resource Report Resource Website |
HIV ontology (RRID:SCR_000908) | HIV | ontology, data or information resource, controlled vocabulary | Ontology that encompasses all knowledge about HIV | obo | is listed by: BioPortal | HIV | nlx_157422 | SCR_000908 | 2026-08-13 09:26:16 | 0 | ||||||||
|
Speech Perception Resource Report Resource Website |
Speech Perception (RRID:SCR_001114) | topical portal, data or information resource, portal | An entry of the Cognitive Atlas which defines the term speech perception. | cognitive science, language, processing language | is related to: Cognitive Atlas | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_145380 | SCR_001114 | 2026-08-13 09:26:18 | 0 | |||||||||
|
bsseq Resource Report Resource Website 1+ mentions |
bsseq (RRID:SCR_001072) | data analysis software, data processing software, software application, software resource, sequence analysis software | R package with tools for analyzing and visualizing bisulfite sequencing data. | bisulfite sequencing, analyze, r, sequence analysis software, data analysis software, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools has parent organization: Bioconductor |
Free, Available for download, Freely available | OMICS_01847, biotools:bsseq | https://bio.tools/bsseq | SCR_001072 | bsseq - Analyze manage and store bisulfite sequencing data | 2026-08-13 09:26:19 | 8 | |||||||
|
MmPalateMiRNA Resource Report Resource Website 1+ mentions |
MmPalateMiRNA (RRID:SCR_001070) | data analysis software, data processing software, software application, source code, software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 23,2022. Software R package written for analysis of murine palate miRNA two-color expression data. | murine, palate, mirna, two color expression, open source, r |
is listed by: OMICtools is hosted by: Bioconductor |
PMID:23298515 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_00788 | SCR_001070 | 2026-08-13 09:26:17 | 1 | ||||||||
|
Medscape Education - Medscape CME/CE Resource Report Resource Website |
Medscape Education - Medscape CME/CE (RRID:SCR_000936) | topical portal, data or information resource, continuing medical education, training resource, portal | A portal with listings of continuing medical education opportunities such as radiology, pediatrics, and HIV/AIDS specializations. | education, medical, continuing, portal, information | Public | nlx_91735 | SCR_000936 | MedscapeCME, Medscape Education Medscape CME/CE, Medscape CME/CE | 2026-08-13 09:26:16 | 0 | |||||||||
|
R453Plus1Toolbox Resource Report Resource Website 1+ mentions |
R453Plus1Toolbox (RRID:SCR_001105) | data analysis software, data processing software, software application, software toolkit, software resource, sequence analysis software | R software toolbox of functions for the analysis of data generated by Roche's 454 sequencing platform. Additional functions are included for quality assurance, annotation and visualization of detected variants, complementing the software tools shipped by Roche with their product. A pipeline for the detection of structural variants is provided. | genome, sequence, visualization, structural variants, r, sequence analysis software |
is listed by: OMICtools is hosted by: Bioconductor |
PMID:21349869 | Free, Available for download, Freely available | OMICS_01354 | SCR_001105 | 2026-08-13 09:26:18 | 4 | ||||||||
|
RmiR Resource Report Resource Website |
RmiR (RRID:SCR_001069) | RmiR | data analysis software, data processing software, software application, software resource, sequence analysis software | R package that contains functions to merge microRNA and respective targets using different databases. | micro rna, mrna, function, target, r, sequence analysis software |
is listed by: OMICtools has parent organization: Bioconductor |
THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_00789 | https://rdrr.io/bioc/RmiR/ | SCR_001069 | 2026-08-13 09:26:19 | 0 | |||||||
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Body System Terms from ICD11 Resource Report Resource Website |
Body System Terms from ICD11 (RRID:SCR_001252) | ICD11-BODYSYSTEM | ontology, data or information resource, controlled vocabulary | Ontology of a set of body-system terms used in the ICD (International Classification of Diseases) 11 revision | owl | is listed by: BioPortal | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_157339 | SCR_001252 | 2026-08-13 09:26:19 | 0 | ||||||||
|
CGEN Resource Report Resource Website 10+ mentions |
CGEN (RRID:SCR_001251) | CGEN | data analysis software, data processing software, software resource, software application | Software R package for analysis of case-control studies in genetic epidemiology. | genetic, epidemiology, r, case-control, clustering, multiple comparison, snp |
is listed by: OMICtools has parent organization: Bioconductor |
PMID:21387464 | Free, Available for download, Freely available | OMICS_02089 | SCR_001251 | CGEN - An R package for analysis of case-control studies in genetic epidemiology | 2026-08-13 09:26:21 | 18 | ||||||
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Morpholino Database Resource Report Resource Website 1+ mentions |
Morpholino Database (RRID:SCR_001378) | MODB | data or information resource, database, service resource, data repository, storage service resource | Central database to house data on morpholino screens currently containing over 700 morpholinos including control and multiple morpholinos against the same target. A publicly accessible sequence-based search opens this database for morpholinos against a particular target for the zebrafish community. Morpholino Screens: They set out to identify all cotranslationally translocated genes in the zebrafish genome (Secretome/CTT-ome). Morpholinos were designed against putative secreted/CTT targets and injected into 1-4 cell stage zebrafish embryos. The embryos were observed over a 5 day period for defects in several different systems. The first screen examined 184 gene targets of which 26 demonstrated defects of interest (Pickart et al. 2006). A collaboration with the Verfaillie laboratory examined the knockdown of targets identified in a comparative microarray analysis of hematopoietic stem cells demonstrating how microarray and morpholino technologies can be used in conjunction to enrich for defects in specific developmental processes. Currently, many collaborations are underway to identify genes involved in morphological, kidney, skin, eye, pigment, vascular and hematopoietic development, lipid metabolism and more. The screen types referred to in the search functions are the specific areas of development that were examined during the various screens, which include behavior, general morphology, pigmentation, toxicity, Pax2 expression, and development of the craniofacial structures, eyes, kidneys, pituitary, and skin. Only data pertaining to specific tests performed are presented. Due to the complexity of this international collaboration and time constraints, not all morpholinos were subjected to all screen types. They are currently expanding public access to the database. In the future we will provide: * Mortality curves and dose range for each morpholino * Preliminary data regarding the effectiveness of each morpholino * Expanded annotation for each morpholino * External linkage of our morpholino sequences to ZFIN and Ensembl. To submit morpholino-knockdown results to MODB please contact the administrator for a user name and password. | morpholino, target mrna, embryonic zebrafish, sequence, target, blast, phenotype, anatomy, development, behavior, morphology, pigmentation, toxicity, pax2 expression, craniofacial structure, eye, kidney, pituitary, skin, name, target name, target sequence, gene target, genetic, mortality, toxicity, defect, function, gene annotation, genome, data analysis service |
uses: Zebrafish Information Network (ZFIN) uses: PATO has parent organization: Mayo Clinic Minnesota; Minnesota; USA |
NIGMS GM63904; NIA CA65493 |
PMID:18179718 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_152566 | SCR_001378 | MODB (MOprholino DataBase) | 2026-08-13 09:26:22 | 1 |
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