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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
Jaeb Center for Health Research Resource Report Resource Website 1+ mentions |
Jaeb Center for Health Research (RRID:SCR_001513) | JCHR | institution | Freestanding, nonprofit coordinating center for multi-center clinical trials and epidemiologic research that focus on projects involving eye disorders or type 1 diabetes. | epidemiologic research, epidemiology, clinical, disease, clinical trial, eye |
is parent organization of: Diabetes Research in Children Network is parent organization of: Diabetic Retinopathy Clinical Research Network is parent organization of: JDRF Artificial Pancreas Project Consortium |
Type 1 diabetes, Multiple sclerosis, Eye disorder, Diabetes | Public, Registration required, For datasets | ISNI: 0000 0004 0586 473X, nlx_152815, grid.414912.b | https://ror.org/04ezjnq35 | SCR_001513 | 2025-04-19 06:40:30 | 4 | ||||||
|
WordPress Resource Report Resource Website 50+ mentions |
WordPress (RRID:SCR_001518) | software resource | Web software which helps users create a website or blog. WordPress software can be downloaded and installed with an appropriate web host and minimum requirements. There is also a service called WordPress.com which allows users to get started with a new and free WordPress-based blog in seconds, though it varies in several ways and is less flexible than the self-installed WordPress. An array of plugins and themes are available to further customize a site. | software application, web software, content management system |
is related to: Wordpress for Scientists is related to: Commons In A Box is related to: Code4Lib Journal WordPress Customizations is related to: Poetica is related to: Knowledge Blog is parent organization of: Cassandras Tears is parent organization of: Beautiful Brain is parent organization of: neurosphere is parent organization of: WordPress Plugin Directory is parent organization of: Brains Lab has plug in: Commentpress |
Free, Open source | nlx_152818 | SCR_001518 | WordPress.org | 2025-04-19 06:40:30 | 82 | ||||||||
|
TRIGR Resource Report Resource Website 1+ mentions |
TRIGR (RRID:SCR_001550) | TRIGR | clinical trial | International, randomized, double-blinded trial to determine whether weaning to a casein hydrolysate formula during the first 6-8 months of life in place of cow milk based formula reduces the incidence of autoimmunity and type 1 diabetes in genetically susceptible newborn infants. 2160 eligible infants were randomized to test or control formulas when mothers decide to wean from exclusive breastfeeding. The participants will be monitored up to the age of 10 years for the appearance of diabetes-predictive autoantibodies and clinical type 1 diabetes. The TRIGR trial will determine whether delayed exposure to intact food proteins will reduce the chances of developing type 1 diabetes later in life. All babies in the study received the recommendation to breastfeed for at least the first six months of life. If a mother was unable to exclusively breastfeed before the baby was 8 months of age, her child was randomly assigned to one of two groups. One group of these babies received a trial formula based on extensively hydrolyzed protein; the other group received another trial formula containing a smaller amount of hydrolyzed protein. In the hydrolyzed formula, the big protein molecules have been split into very small fragments to provide a source of nutritional amino acids, but the fragments are likely too small to stimulate the immune system. The TRIGR trial will also be able to analyze whether exclusive breastfeeding per se can reduce the risk of the children to develop type 1 diabetes. | casein hydrolysate formula, newborn, hydrolyzed infant formula, genetically susceptible, insulin, cow's milk, infant, feeding, diet, intervention, genetic risk, bibliography, dietary intervention, wean, prevention, nutrition, nonhydrolyzed infant formula, breast feeding, infant formula |
is listed by: ClinicalTrials.gov is listed by: NIDDK Research Resources is listed by: NIDDK Information Network (dkNET) has parent organization: University of South Florida; Florida; USA |
Type 1 diabetes, Diabetes | NICHD HD040364; NICHD HD042444; NICHD HD051997; RTD programme Quality of Life and Management of Living Resources contract QLK1-2002-00372 |
PMID:21153533 PMID:17550422 |
nlx_152860 | http://trigr.epi.usf.edu/ http://clinicaltrials.gov/show/NCT00179777 |
SCR_001550 | TRIGR - Trial to Reduce IDDM in the Genetically at Risk, Trial to Reduce IDDM in the Genetically at Risk, TRIGR trial | 2025-04-19 06:40:31 | 1 | ||||
|
Karolinska Institute; Stockholm; Sweden Resource Report Resource Website |
Karolinska Institute; Stockholm; Sweden (RRID:SCR_001548) | KI | institution | Medical university in Stockholm, Sweden that offers more than fifty disciplines of medicine for study. | medicine, medical, sweden, professional school, degree, education, institute |
uses: ReadCube uses: Scizzle is related to: Beta Cell Biology Consortium is related to: EARIP is related to: EU-AIMS is related to: Kidney Health Initiative is related to: MIP-DILI is related to: NEWMEDS is related to: PRECISESADS is related to: EMIF is related to: LifeGene is related to: SciLifeLab Precision Medicine Portal is parent organization of: International Neuroinformatics Coordinating Facility is parent organization of: Be The Cure is parent organization of: Karolisnka Biobank is parent organization of: UMD p53 Mutation Database is parent organization of: Karolinska Institute Department of Clinical Neuroscience is parent organization of: Swedish Twin Registry is parent organization of: LifeGene is parent organization of: Neuroimaging Data Model is parent organization of: SAMstrt is parent organization of: JASPAR is parent organization of: SIMBioMS is parent organization of: SciLifeLab is parent organization of: rpkmforgenes.py is parent organization of: INCF-Neurobot is parent organization of: Swedish Twin Registry is parent organization of: mousebrain.org is parent organization of: FunCoup is parent organization of: Karolinska Institute Live Cell Imaging Core Facility is parent organization of: mousebrain.org is parent organization of: Karolinska Sleepiness Scale is parent organization of: Karolinska Institute Biomedicum Flow Cytometry Core Facility is parent organization of: Karma is parent organization of: Karolinska Institutet Adaptive Immune Receptor Gene Variant Atlas |
nlx_41870 | SCR_001548 | Karolinska University, Karolinska Institutet | 2025-04-19 06:40:31 | 0 | ||||||||
|
Kansas State University; Kansas; USA Resource Report Resource Website 1+ mentions |
Kansas State University; Kansas; USA (RRID:SCR_001533) | KSU | university | Public doctoral university located in Manhattan, Kansas that is involved with research, especially agricultural. | public, doctoral, university, research, agriculture, degree |
is parent organization of: BeetleBase is parent organization of: QGene is parent organization of: Basic Research Immersion Training Experience Veterinary Student Program is parent organization of: KSU AFM Imaging Group is parent organization of: Kansas State University Labs and Facilities is parent organization of: Kansas State University - INBRE Bioinformatics Core Facility |
Wikidata:Q31249, nlx_62700, ISNI:0000 0001 0737 1259, grid.36567.31, Crossref funder ID:100007765 | https://ror.org/05p1j8758 | SCR_001533 | Kansas State University | 2025-04-19 06:40:31 | 2 | |||||||
|
Enriched Domain Detector Resource Report Resource Website 1+ mentions |
Enriched Domain Detector (RRID:SCR_001693) | EDD | software resource | A ChIP-seq peak caller for detection of megabase domains of enrichment. | standalone software, unix/linux, mac os x | is listed by: OMICtools | PMID:24782521 | MIT License | OMICS_03964 | SCR_001693 | EDD - Enriched Domain Detector | 2025-04-19 06:40:36 | 7 | ||||||
|
IDRISI Resource Report Resource Website 10+ mentions |
IDRISI (RRID:SCR_001696) | IDRISI | software resource | Geospatial software for monitoring and modeling the Earth system. Includes tools for GIS, image processing, surface analysis, vertical applications for land change analysis and earth trends exploration, and more. | gis, geospatial, monitor, model, earth system, earth, image processing, surface analysis, vertical application, land change analysis, earth trend |
is listed by: CINERGI has parent organization: Clark University; Massachusetts; USA |
Commercial license | SCR_001696 | IDRISI Selva | 2025-04-19 06:40:36 | 37 | ||||||||
|
CNVrd2 Resource Report Resource Website 1+ mentions |
CNVrd2 (RRID:SCR_001723) | software resource | A software package that uses next-generation sequencing data to measure human gene copy number for multiple samples, indentify SNPs tagging copy number variants and detect copy number polymorphic genomic regions. | standalone software, illumina, unix/linux, mac os x, windows, r, clustering., copy number variation, coverage, linkage disequilibrium, snp, sequencing |
is listed by: OMICtools has parent organization: Bioconductor |
PMID:23646200 | GNU General Public License, v2 | OMICS_03924 | http://www.bioconductor.org/packages/release/bioc/html/CNVrd2.html https://github.com/hoangtn/CNVrd2 |
SCR_001723 | CNVrd2: a read depth-based method to detect and genotype complex common copy number variants from next generation sequencing data | 2025-04-19 06:40:36 | 5 | ||||||
|
sSeq Resource Report Resource Website 10+ mentions |
sSeq (RRID:SCR_001719) | sSeq | software resource | Software package to discover the genes that are differentially expressed between two conditions in RNA-seq experiments. Gene expression is measured in counts of transcripts and modeled with the Negative Binomial (NB) distribution using a shrinkage approach for dispersion estimation. The method of moment (MM) estimates for dispersion are shrunk towards an estimated target, which minimizes the average squared difference between the shrinkage estimates and the initial estimates. The exact per-gene probability under the NB model is calculated, and used to test the hypothesis that the expected expression of a gene in two conditions identically follow a NB distribution. | rna-seq, differential expression |
is listed by: OMICtools has parent organization: Bioconductor |
PMID:23589650 | GNU General Public License, v3 or newer | OMICS_01962 | SCR_001719 | sSeq - Shrinkage estimation of dispersion in Negative Binomial models for RNA-seq experiments with small sample size | 2025-04-19 06:40:36 | 41 | ||||||
|
King's College London; London; United Kingdom Resource Report Resource Website |
King's College London; London; United Kingdom (RRID:SCR_001744) | KCL | university | Public research university located in London, United Kingdom that offers undergraduate, graduate, and professional degree programs in medicine, economics, social sciences, etc. | public, research, london, medical school, undergraduate, graduate |
uses: ReadCube is related to: AddNeuroMed is related to: EU-AIMS is related to: NEWMEDS is related to: ONE Study is related to: EMIF is parent organization of: Pliny is parent organization of: TRANSFoRm is parent organization of: Kings College London Infectious Diseases BioBank is parent organization of: Major depressive disorder neuroimaging database is parent organization of: Bipolar Disorder Neuroimaging Database is parent organization of: Marker And Gene Interpolation and Correlation is parent organization of: Brain Segmentation Testing Protocol is parent organization of: MSbind is parent organization of: Pharmacological Imaging and Pattern Recognition toolbox is parent organization of: Neuromuscular disease outcome measures is parent organization of: Haemophilia B Mutation Database is parent organization of: Brain and Body Genetic Resource Exchange is parent organization of: LIGand Attachment SITE Database is parent organization of: Rodent Brain Extraction Tool is parent organization of: AddNeuroMed is parent organization of: NEWMEDS is parent organization of: MRC London Neurodegenerative Diseases Brain Bank is parent organization of: Kings College London Microscopy Innovation Centre Core Facility |
grid.13097.3c, nlx_60659, Crossref funder ID:100009360, ISNI:0000 0001 2322 6764, Wikidata:Q245247 | https://ror.org/0220mzb33 | SCR_001744 | King's College | 2025-04-19 06:40:37 | 0 | |||||||
|
RNASeqBias Resource Report Resource Website |
RNASeqBias (RRID:SCR_001739) | RNASeqBias | software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on April 10th,2023. An R software package for detecting and correcting biases in RNA-Sequencing data. | rna-seq |
is listed by: OMICtools has parent organization: Yale School of Medicine; Connecticut; USA |
THIS RESOURCE IS NO LONGER IN SERVICE. | OMICS_01957 | SCR_001739 | 2025-04-19 06:40:37 | 0 | ||||||||
|
pairedBayes Resource Report Resource Website 1+ mentions |
pairedBayes (RRID:SCR_001738) | pairedBayes | software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on April 10th,2023. An R code for Bayesian modeling of paired RNA-seq experiments. | r, rna-seq |
is listed by: OMICtools has parent organization: Yale School of Medicine; Connecticut; USA |
THIS RESOURCE IS NO LONGER IN SERVICE. | OMICS_01958 | SCR_001738 | 2025-04-19 06:40:37 | 1 | ||||||||
|
Melvin Yahr International Parkinson's Disease Foundation Resource Report Resource Website |
Melvin Yahr International Parkinson's Disease Foundation (RRID:SCR_001652) | MYIPDF | funding resource | THIS RESOURCE IS NO LONGER IN SERVICE, documented on March 28, 2017. Foundation that helps junior physicians and neuroscientists continue their research on Parkinson's Disease and related disorders, with financial support for professional and intellectual development. It promotes an international community of researchers, focusing on the young enthusiastic investigators and clinicians who might otherwise be forced to abandon their ideas and efforts. | Parkinson's disease | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-11666 | http://www.myipdf.org | SCR_001652 | Melvin Yahr International Parkinson's Disease Foundation, Melvin Yahr Foundation, The Melvin Yahr International Parkinson's Disease Foundation | 2025-04-19 06:40:34 | 0 | |||||||
|
DNACLUST Resource Report Resource Website 1+ mentions |
DNACLUST (RRID:SCR_001771) | software resource | Software program for clustering large number of short similar DNA sequences. It was originally designed for clustering targeted 16S rRNA pyrosequencing reads. | cluster, dna sequence, gene, 16s rrna pyrosequencing read, microbiome |
is listed by: OMICtools is listed by: Human Microbiome Project is listed by: Debian has parent organization: SourceForge |
PMID:21718538 DOI:10.1186/1471-2105-12-271 |
Free | OMICS_01955 | https://sources.debian.org/src/dnaclust/ | SCR_001771 | DNAClust | 2025-04-19 06:40:38 | 8 | ||||||
|
InterMine Resource Report Resource Website 10+ mentions |
InterMine (RRID:SCR_001772) | software resource | An open source data warehouse system built for the integration and analysis of complex biological data that enables the creation of biological databases accessed by sophisticated web query tools. Parsers are provided for integrating data from many common biological data sources and formats, and there is a framework for adding data. InterMine includes a user-friendly web interface that works "out of the box" and can be easily customized for specific needs, as well as a powerful, scriptable web-service API to allow programmatic access to data. | mac os x, unix/linux, windows, java, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: University of Cambridge; Cambridge; United Kingdom |
Wellcome Trust | PMID:24753429 | GNU Lesser General Public License, v2 | OMICS_03840, biotools:intermine | https://github.com/intermine/intermine https://bio.tools/intermine |
SCR_001772 | 2025-04-19 06:40:38 | 20 | ||||||
|
ATCC Resource Report Resource Website 10000+ mentions |
ATCC (RRID:SCR_001672) | ATCC | commercial organization | Global nonprofit biological resource center (BRC) and research organization that provides biological products, technical services and educational programs to private industry, government and academic organizations. Its mission is to acquire, authenticate, preserve, develop and distribute biological materials, information, technology, intellectual property and standards for the advancement and application of scientific knowledge. The primary purpose of ATCC is to use its resources and experience as a BRC to become the world leader in standard biological reference materials management, intellectual property resource management and translational research as applied to biomaterial development, standardization and certification. ATCC characterizes cell lines, bacteria, viruses, fungi and protozoa, as well as develops and evaluates assays and techniques for validating research resources and preserving and distributing biological materials to the public and private sector research communities. | biomaterial, cell line, culture, microorganism, proteomics, protozoa, tissue, bacteria, virus, fungus, standardization, molecular genomics, reagent, yeast, microbial culture, stem cell, dna, FASEB list |
is used by: NIA Mouse cDNA Project Home Page is used by: NIF Data Federation is listed by: One Mind Biospecimen Bank Listing is related to: Cell Line Knowledge Base is related to: Vector Database is related to: Hyper Cell Line Database is related to: BEI Resource Repository is related to: NCBI BioSample is related to: Xenopus Gene Collection is related to: Mammalian Gene Collection is related to: Zebrafish Gene Collection is related to: Integrated Cell Lines is related to: ATCC STR database is parent organization of: Mantle Cell Lymphoma Cell Bank works with: Cellosaurus |
MTA and account required | ISNI: 0000 0001 2161 7948, Wikidata: Q2843042, grid.281196.5, nif-0000-10159 | https://ror.org/03thhhv76 | SCR_001672 | ATCC: The Global Bioresource Center, American Type Culture Collection, ATCC(dna), ATCC(in host) | 2025-04-19 06:40:35 | 99969 | ||||||
|
unifiedWMWqPCR Resource Report Resource Website |
unifiedWMWqPCR (RRID:SCR_001706) | software resource | Software package that implements the unified Wilcoxon-Mann-Whitney Test for qPCR data. This modified test allows for testing differential expression in qPCR data. | standalone software, mac os x, unix/linux, windows, r, gene expression, microtitre plate assay, qpcr, differential expression, multiple comparison, quality control, visualization, qpcr, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: Bioconductor |
PMID:24794933 | GNU General Public License, v2 or greater | OMICS_03937, biotools:unifiedwmwqpcr | https://bio.tools/unifiedwmwqpcr | SCR_001706 | unifiedWMWqPCR - Unified Wilcoxon-Mann Whitney Test for testing differential expression in qPCR data | 2025-04-19 06:40:36 | 0 | ||||||
|
rlsim Resource Report Resource Website |
rlsim (RRID:SCR_001703) | rlsim | software resource | Software package for simulating RNA-seq library preparation with parameter estimation. | rna-seq |
is listed by: OMICtools has parent organization: European Bioinformatics Institute |
Acknowledgement requested, GNU Lesser General Public License, v3 | OMICS_01965 | SCR_001703 | rlsim - a package for simulating RNA-seq library preparation with parameter estimation | 2025-04-19 06:40:36 | 0 | |||||||
|
RSVSim Resource Report Resource Website 10+ mentions |
RSVSim (RRID:SCR_001777) | software resource | A software package for the simulation of deletions, insertions, inversions, tandem duplications and translocations of various sizes in any genome available as FASTA-file or data package in R. SV breakpoints can be placed uniformly accross the whole genome, with a bias towards repeat regions and regions of high homology (for hg19) or at user-supplied coordinates. | unix/linux, mac os x, windows, r, sequencing, structural variation |
is listed by: OMICtools has parent organization: Bioconductor |
PMID:23620362 | GNU Lesser General Public License, v3 | OMICS_03822 | SCR_001777 | RSVSim: an R/Bioconductor package for the simulation of structural variations | 2025-04-19 06:40:39 | 14 | |||||||
|
Annual Reviews: A Nonprofit Scientific Publisher Resource Report Resource Website 10+ mentions |
Annual Reviews: A Nonprofit Scientific Publisher (RRID:SCR_001655) | journal article | Annual Reviews offers comprehensive, timely collections of critical reviews written by leading scientists. It publishes authoritative, analytic reviews in 37 focused disciplines within the Biomedical, Life, Physical, and Social Sciences. The mission of Annual Reviews is to provide systematic, periodic examinations of scholarly advances in a number of fields of science through critical authoritative reviews. The comprehensive critical review not only summarizes a topic but also roots out errors of fact or concept and provokes discussion that will lead to new research activity. The critical review is an essential part of the scientific method. Sponsors: Annual Reviews is a non-profit organization created and managed by scientists to serve science by publishing reviews in 40 different scientific fields. | biomedical, life science, literature, physical science, review, social science | nif-0000-10150 | SCR_001655 | Annual Reviews | 2025-04-19 06:40:34 | 26 |
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