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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Radiometer Resource Report Resource Website 10+ mentions |
Radiometer (RRID:SCR_014772) | material service resource, service resource, production service resource | Commercial organizations which develops, manufactures, and sells solutions and equipment for blood sampling, blood gas analysis, transcutaneous monitoring, and IT management systems under certain brand names. | commercial, blood sampling, blood gas analysis, transcutaneous monitoring, it management | Commercially available | SCR_014772 | 2026-08-14 09:27:05 | 28 | |||||||||||
|
Zeitz Resource Report Resource Website 100+ mentions |
Zeitz (RRID:SCR_014774) | material service resource, service resource, production service resource | Manufacturer and supplier of the DMZ Universal electrode pullers which produce pipettes and electrodes with a tip diameter down to 0.2 micrometers. | electrode, electrode puller, material service resource, manufacturer, supplier, pipette | Commercially available | SCR_014774 | Zeitz Instruments, Zeitz-Instruments | 2026-08-14 09:26:59 | 114 | ||||||||||
|
Austrailasian Biospecimen Network Resource Report Resource Website |
Austrailasian Biospecimen Network (RRID:SCR_013161) | biomaterial supply resource, tissue bank, material resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 32,2023. | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_67092 | SCR_013161 | 2026-08-14 09:26:41 | 0 | |||||||||||
|
WU-BLAST Resource Report Resource Website 100+ mentions |
WU-BLAST (RRID:SCR_011824) | WU-BLAST | analysis service resource, service resource, data analysis service, production service resource | Tool to find regions of sequence similarity within selected protein databases quickly, with minimum loss of sensitivity. | protein, dna, rna |
is listed by: OMICtools is listed by: SoftCite has parent organization: European Bioinformatics Institute |
OMICS_01001 | SCR_011824 | 2026-08-14 09:26:24 | 135 | |||||||||
|
Findings App Resource Report Resource Website |
Findings App (RRID:SCR_013972) | software application, electronic laboratory notebook, software resource | An ELN (electronic lab notebook) software application that allows researchers to organize and manage experiment tasks, protocols, and results. Users can divide experiments into tasks spread across weeks and keep track of multiple experiments and protocols using a variety of apps, such as timestamps and completion markers. Files can be stored in the Findings library and opened in a given application. | ELN, electronic laboratory notebook, organization, software application |
is listed by: Connected Researchers is related to: Connected Researchers |
Only for Mac, License needed for advanced packages | SCR_013972 | FindingsApp | 2026-08-14 09:26:50 | 0 | |||||||||
|
ENA Sequence Search Resource Report Resource Website 1+ mentions |
ENA Sequence Search (RRID:SCR_013170) | ENA Sequence Search | analysis service resource, service resource, data analysis service, production service resource | A nucleotide sequence similiary search tool which is far faster than BLAST for large datasets, with only a marginal loss in search sensitivity. | nucleotide sequencing |
is listed by: OMICtools has parent organization: European Nucleotide Archive (ENA) |
OMICS_00993 | SCR_013170 | 2026-08-14 09:26:37 | 7 | |||||||||
|
Precision Allograft Solutions Resource Report Resource Website |
Precision Allograft Solutions (RRID:SCR_010702) | biomaterial supply resource, tissue bank, material resource | THIS RESOURCE IS NO LONGER IN SERVCE, documented September 2, 2016. A commercial tissue bank focusing on human tissue. | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_88227 | SCR_010702 | 2026-08-14 09:26:34 | 0 | |||||||||||
|
Asterand Resource Report Resource Website 1+ mentions |
Asterand (RRID:SCR_010703) | Asterand | biomaterial supply resource, tissue bank, material resource | Provides human tissue for drug discovery scientists. * Human Biospecimens: Frozen & Fixed Human Tissues; Human RNA/DNA; Human Primary Cells / Cell lines; Custom Procurement; Oncology tissue, biofluid and RNA sets at special prices * Human Tissue-Based Services: Gene Expression, Molecular Pathology, Biochemical Pharmacology, Metabolism and Toxicity * Predictive Human Disease Models |
is listed by: One Mind Biospecimen Bank Listing is related to: University of Michigan Human Breast Cancer Cell Lines |
nlx_88875 | SCR_010703 | Asterand: Partners in Human Tissue Research, Asterand plc | 2026-08-14 09:26:20 | 6 | |||||||||
|
ComiR Resource Report Resource Website 10+ mentions |
ComiR (RRID:SCR_013023) | ComiR | analysis service resource, service resource, data analysis service, production service resource | Data analysis service that predicts whether a given mRNA is targeted by a set of miRNAs. ComiR uses miRNA expression to improve and combine multiple miRNA targets for each of the four prediction algorithms: miRanda, PITA, TargetScan and mirSVR. The composite scores of the four algorithms are then combined using a support vector machine trained on Drosophila Ago1 IP data. | mirna, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: University of Pittsburgh; Pennsylvania; USA |
NLM ; Fondazione RiMED |
PMID:23703208 PMID:23284279 |
Acknowledgement requested | OMICS_00395, biotools:comir | https://bio.tools/comir | SCR_013023 | Combinatorial miRNA targeting, ComiR: Combinatorial miRNA target prediction tool, ComiR - Combinatorial miRNA target prediction tool | 2026-08-14 09:26:39 | 26 | ||||
|
T-REX Resource Report Resource Website 100+ mentions |
T-REX (RRID:SCR_010715) | T-REX | analysis service resource, service resource, data analysis service, production service resource | T-REX is a free, platform-independent online tool that allows for an integrated, rapid, and more robust analysis of T-RFLP data. Despite increasing popularity and improvements in terminal restriction fragment length polymorphism (T-RFLP) and other microbial community fingerprinting techniques, there are still numerous obstacles that hamper the analysis of these datasets. Many steps are required to process raw data into a format ready for analysis and interpretation. These steps can be time-intensive, error-prone, and can introduce unwanted variability into the analysis. Accordingly, we developed T-REX, free, online software for the processing and analysis of T-RFLP data. Analysis of T-RFLP data generated from a multiple-factorial study was performed with T-REX. With this software, we were able to i) label raw data with attributes related to the experimental design of the samples, ii) determine a baseline threshold for identification of true peaks over noise, iii) align terminal restriction fragments (T-RFs) in all samples (i.e., bin T-RFs), iv) construct a two-way data matrix from labeled data and process the matrix in a variety of ways, v) produce several measures of data matrix complexity, including the distribution of variance between main and interaction effects and sample heterogeneity, and vi) analyze a data matrix with the additive main effects and multiplicative interaction (AMMI) model. | has parent organization: Cornell University; New York; USA | Microsoft Corporation ; NSF DGE 0221658 |
PMID:19500385 | nlx_89468 | SCR_010715 | T-REX (T-RFLP analysis EXpedited), T-REX: Software for the processing and analysis of T-RFLP data, T-RFLP analysis EXpedited | 2026-08-14 09:26:17 | 122 | |||||||
|
CoMet Resource Report Resource Website 500+ mentions |
CoMet (RRID:SCR_011925) | CoMet | analysis service resource, service resource, data analysis service, production service resource | A web-server for fast comparative functional profiling of metagenomes. | is listed by: OMICtools | OMICS_01477 | SCR_011925 | CoMet - a web-server for fast comparative functional profiling of metagenomes | 2026-08-14 09:26:42 | 991 | |||||||||
|
National University Tissue Repository Resource Report Resource Website |
National University Tissue Repository (RRID:SCR_010717) | biomaterial supply resource, tissue bank, material resource | Tissue bank that provides samples and associated clinical information to associated researchers. | Available to researchers at NUH and NUS | nlx_90105 | http://specimencentral.com/National University Hospital Tissue Bank | SCR_010717 | 2026-08-14 09:26:20 | 0 | ||||||||||
|
Textensor Limited Resource Report Resource Website |
Textensor Limited (RRID:SCR_010719) | training service resource, service resource, production service resource | Textensor Limited specializes in software development and consulting related to interactive web based information management systems, web services, data modeling, and scientific computing. Our flagship product, a.nnotate.com, was launched in January 2008. It allows on-line review, annotation and discussion of web pages and a wide range of document types, including PDF and DOC, via a web browser. In April 2007 we launched PublicationsList.org to facilitate access to scientific research papers. It allows researchers to easily keep complete and reliable records of their research output on the web and gained more than 3000 users in the first 8 months. In 2005, Textensor won a SMART:Scotland award for a pilot study into techniques for authoring structured content from text. The first commercial product developed from this technology is a.nnotate.com. Recent consultancy clients include the University of Edinburgh for the development of PSICS, the Parallel Stochastic Ion Channel Simulator, the Okinawa Institute of Science and Technology for prototype code for stochastic diffusion, Memosyne Ltd for development of on-line memory tests for children, and Pearson Assessment for implementation of the Automated Working Memory Assessment. |
is parent organization of: A.nnotate is parent organization of: PublicationsList.org |
nlx_90784 | SCR_010719 | Textensor | 2026-08-14 09:26:17 | 0 | ||||||||||
|
omiRas Resource Report Resource Website 10+ mentions |
omiRas (RRID:SCR_010833) | omiRas | analysis service resource, service resource, data analysis service, production service resource | A web server for the annotation, comparison and visualization of interaction networks of non-coding RNAs derived from small RNA-Sequencing experiments of two different conditions. | bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools |
PMID:23946503 | biotools:omiras, OMICS_00383 | https://bio.tools/omiras | SCR_010833 | 2026-08-14 09:26:18 | 14 | |||||||
|
PhyloPythiaS Resource Report Resource Website 10+ mentions |
PhyloPythiaS (RRID:SCR_011923) | PPS | analysis service resource, service resource, data analysis service, production service resource | Web Server for Taxonomic Assignment of Metagenome Sequences that is a fast and accurate sequence composition-based classifier that utilizes the hierarchical relationships between clades. Taxonomic assignments with the web server can be made with a generic model, or with sample-specific models that users can specify and create. Several interactive visualization modes and multiple download formats allow quick and convenient analysis and downstream processing of taxonomic assignments. | metagenome, sequence, taxonomy, classification | is listed by: OMICtools | PMID:22745671 PMID:21358620 |
OMICS_01460 | http://phylopythias.cs.uni-duesseldorf.de/index.php?phase=wait | SCR_011923 | 2026-08-14 09:26:21 | 12 | |||||||
|
Elephant shark genome sequencing Resource Report Resource Website 50+ mentions |
Elephant shark genome sequencing (RRID:SCR_013158) | data or information resource, service resource, database | To explore the elephant shark genome, we have conducted a survey-sequencing and comparative analysis of the elephant shark genome in collaboration with J. Craig Venter Institute. The elephant shark sequences generated under this project have been deposited at GenBank under the project accession number AAVX01000000. The sequences can also be searched using BLAST and retrieved here. Cartilaginous fishes (Chondrichthyes) represented by sharks, rays, skates and chimaeras, are phylogenetically the oldest group of living jawed vertebrates. They constitute an important group for our understanding of the origins of the complex developmental and physiological systems of jawed vertebrates. They are also an useful outgroup for bony vertebrates such as tetrapods and teleost fishes and help in identifying specialized features that have led to the evolution of diverse groups of bony vertebrates. The elephant shark (Callorhinchus milii), also known as the elephant fish and ghost shark, is a chimaera belonging to the Order Chimaeriformes and Family Callorhynchidae. It has the smallest genome among the known cartilaginous fish genomes. Thus, it was proposed as a model cartilaginous fish genome for whole-genome sequencing and comparative analysis (Venkatesh et al. 2005. Curr. Biol. 15: R82-R83). The following resources of the elephant shark are available for the scientific community: *Elephant Shark 1.4x assembly fasta sequences zipped 227 megabytes *Genomic DNA *~8x coverage BAC library (average insert size, ~150 kb) *cDNA libraries (under construction) *cDNA (dated 11 April 2008) with orthologs in 5 vertebrates (human, opossum, chicken, frog, fugu) | FASEB list | has parent organization: Institute of Molecular and Cell Biology; Singapore; Singapore | Agency for Science Technology and Research | PMID:9254694 PMID:17185593 PMID:17407382 |
nif-0000-30511 | SCR_013158 | 2026-08-14 09:26:55 | 84 | ||||||||
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CGHweb Resource Report Resource Website 10+ mentions |
CGHweb (RRID:SCR_010923) | CGHweb | analysis service resource, service resource, data analysis service, production service resource | Data analysis service enabling users to analyse their array-CGH data with multiple algorithms simultaneously. |
is listed by: OMICtools has parent organization: Harvard Medical School; Massachusetts; USA |
OMICS_00713 | SCR_010923 | 2026-08-14 09:26:21 | 12 | ||||||||||
|
gsGator Resource Report Resource Website |
gsGator (RRID:SCR_012035) | gsGator | analysis service resource, service resource, data analysis service, production service resource | A web-based platform for functional interpretation of gene sets with features such as cross-species Gene Set Analysis (GSA), Flexible and Interactive GSA, simultaneous GSA for multiple gene set, and and a fully integrated network viewer for both visualizing GSA results and molecular networks. | linux, windows, gene, orthology, pathway, phenotype, mirna target, molecular network, genomic annotation, function |
is listed by: OMICtools is related to: Gene Ontology has parent organization: Ewha Womans University; Seoul; South Korea |
PMID:24423189 | Free, Public | OMICS_02233 | SCR_012035 | 2026-08-14 09:26:44 | 0 | |||||||
|
Align-GVGD Resource Report Resource Website 50+ mentions |
Align-GVGD (RRID:SCR_010772) | Align-GVGD | analysis service resource, service resource, data analysis service, production service resource | A freely available, web-based program that combines the biophysical characteristics of amino acids and protein multiple sequence alignments to predict where missense substitutions in genes of interest fall in a spectrum from enriched delterious to enriched neutral. | is listed by: OMICtools | Free | OMICS_00125 | SCR_010772 | 2026-08-14 09:26:35 | 93 | |||||||||
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BWH Specimen Bank Resource Report Resource Website |
BWH Specimen Bank (RRID:SCR_012316) | BWH Specimen Bank | biomaterial supply resource, tissue bank, material resource |
Core facility that provides the following services: Open repositories service, Sample processing service, Medical/pathology informatics support service, BWH tissue repository service. The Specimen Bank provides materials to investigators with IRB-approved protocols. Staff are available to assist with selection of samples appropriate for downstream applications, development of processing protocols or preparation of derivatives from clinical materials. IT Staff are also available to assist researchers with creation of queries for prospective sample collection or queries to select samples from specific cohorts. Their goal is to drive quality research in an efficient and cost-effective manner. Each year they provide tens of thousands of samples to area researchers. Getting started: Partners investigators and study staff may request a Crimson user account to help manage studies and collected materials. |
clinical sample processing, clinical sample, clinical study management tool, clinical testing service, diagnostics development, microbial isolates service, tissue procurement, clinical |
is listed by: One Mind Biospecimen Bank Listing is listed by: ScienceExchange is listed by: Eagle I is listed by: Brigham and Women's Hospital Labs and Facilities |
SciEx_11650 | http://harvard.eagle-i.net/i/0000012e-5957-2b52-55da-381e80000000 | http://crimson.bwh.harvard.edu/ | SCR_012316 | Brigham and Women''''s Hospital Specimen Bank, Specimen Bank (BWH) | 2026-08-14 09:26:29 | 0 |
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