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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | ||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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DiPDE Resource Report Resource Website 1+ mentions |
DiPDE (RRID:SCR_015822) | data analysis software, data processing software, simulation software, software application, software resource, source code | Simulation platform for numerically solving the time evolution of coupled networks of neuronal populations. DiPDE can facilitate the fast exploration of mesoscale (population-level) network topologies, where large populations of neurons are treated as homogeneous with random fine-scale connectivity. | simulation, time evolution, coupled network, neuron population, neural network, mesoscale network topology, fine-scale connectivity | Allen Institute for Brain Science | Free, Available for download | https://github.com/AllenInstitute/dipde | SCR_015822 | SciCrunch Registry | DiPDE (Integro-partial differential equation with displacement), dipde | 2026-09-26 02:15:38 | 3 | ||||||||
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Bpod Resource Report Resource Website 10+ mentions |
Bpod (RRID:SCR_015943) | software resource | Software for a measurement and control system for behavior research, most often used to implement operant (Go/NoGo, 2AFC) tasks. This software controls a hierarchy of hardware modules, each powered by an Arduino-programmable microcontroller. | sanworks, rodent, behavior, experiment, control, software, hardware, arduino, measurement | is listed by: OpenBehavior | Open source, Free, Available for download | https://github.com/sanworks/Bpod | SCR_015943 | SciCrunch Registry | 2026-09-26 02:15:39 | 42 | |||||||||
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National Gene Vector Laboratories Resource Report Resource Website 1+ mentions |
National Gene Vector Laboratories (RRID:SCR_015944) | NGVL | data or information resource, portal, topical portal | The National Gene Vector Laboratories (NGVL) was established as a cooperative national effort to produce and distribute vectors for human gene transfer studies. | gene, therapy, manufacturing, toxicology, human, research, vector, transfer, study | is used by: Adobe Illustrator | NIH | SCR_015944 | SciCrunch Registry | 2026-09-26 02:15:39 | 2 | |||||||||
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FiberApp Resource Report Resource Website 10+ mentions |
FiberApp (RRID:SCR_015826) | data analysis software, data processing software, software application, software resource | Software for tracking and analysis based on algorithms describing structural and topological features of fiber-like objects. The program operates on images from any microscopic source (atomic force or transmission electron microscopy, optical, fluorescence, confocal, etc.), acquiring the spatial coordinates of objects. | semiflexible polymer, neurodegenerative disease, fiber-like object, topography, tracking, analysis, microscopic image analysis | Swiss National Science Foundation SNF 2-77002-11 | Open source, Available for download | SCR_015826 | SciCrunch Registry | FiberApp: An Open-Source Software for Tracking and Analyzing Polymers, Biomacromolecules, Filaments, and Fibrous Objects | 2026-09-26 02:15:38 | 28 | |||||||||
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geocoding Resource Report Resource Website 10+ mentions |
geocoding (RRID:SCR_016007) | data analysis software, data analytics software, data processing software, software application, software resource | Software that uses a geo-location database to determine individuals' residential environment in Adolescent Brain Cognitive Development (ABCD) study. It performs queries given individuals' residential history in longitude and latitude. | software, data, analysis, geo-location, residential, environment, abcd, study |
has parent organization: University of California at San Diego; California; USA works with: ABCD Study |
NIDA U24 DA041123 | Free, Available for download | SCR_016007 | SciCrunch Registry | ABCD geocoding, ABCD geocoding project, geocoding project | 2026-09-26 02:15:40 | 23 | ||||||||
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SC3 Resource Report Resource Website 10+ mentions |
SC3 (RRID:SCR_015953) | data analysis software, data processing software, sequence analysis software, software application, software resource | Software tool for the unsupervised clustering of cells from single cell RNA-Seq experiments. SC3 is capable of identifying subclones from the transcriptomes of neoplastic cells collected from patients. | scRNA-seq, interactive, cluster, clustering, cell, single, rna, rnaseq, bio.tools |
is listed by: Debian is listed by: bio.tools |
ARC (Action de Recherche Concerte) ; Belgian Network DYSCO ; Belgian State Science Policy Office ; Bloodwise 13003; Cambridge Experimental Cancer Medicine Centre ; Cambridge NIHR Biomedical Research Center ; EPSRC EP/N014529/1; FRS-FNRS ; Kay Kendall Leukaemia Fund ; Leukemia and Lymphoma Society of America 07037; MRC ; Sanger Institute ; University of Edinburgh ; Wallonia-Brussels Federation ; Wellcome Trust 104710/Z/14/Z |
PMID:28346451 | Free, Available for download | biotools:sc3 | https://bio.tools/sc3 | SCR_015953 | SciCrunch Registry | SC3 package, Single-Cell Consensus Clustering | 2026-09-26 02:15:39 | 23 | |||||
|
Chiron Resource Report Resource Website 10+ mentions |
Chiron (RRID:SCR_015950) | 1d time-series analysis software, data analysis software, data processing software, software application, software resource, time-series analysis software | Software basecaller for Oxford Nanopore Technologies' sequencers. | oxford, nanopore, deep, learning, basecaller, basecalling | ARC Future Fellowship FT110100972; Institute for Molecular Bioscience Centre 610246; Westpac Bicentennial Foundation |
DOI:10.1101/179531 | Free, Available for download | SCR_015950 | SciCrunch Registry | 2026-09-26 02:15:39 | 25 | |||||||||
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HermiT OWL Reasoner Resource Report Resource Website 10+ mentions |
HermiT OWL Reasoner (RRID:SCR_016006) | algorithm resource, data analysis software, data processing software, software application, software resource | Algorithm for a reasoner for ontologies written using the Web Ontology Language (OWL). Given an OWL file, HermiT can determine whether or not the ontology is consistent, identify subsumption relationships between classes, and much more. | web, ontology, language, reasoner, class, algorithm, terminology, term, semantic, hypertableau | Open source, Free, Available for download | SCR_016006 | SciCrunch Registry | 2026-09-26 02:15:40 | 13 | |||||||||||
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Emory Epithelial Pathobiology Research Development Center Resource Report Resource Website |
Emory Epithelial Pathobiology Research Development Center (RRID:SCR_015916) | data or information resource, disease-related portal, organizational portal, portal, topical portal | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 5th,2023. Center for pathobiology research development. | pathobiology, research, development | THIS RESOURCE IS NO LONGER IN SERVICE | SCR_015916 | SciCrunch Registry | 2026-09-26 02:15:39 | 0 | |||||||||||
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Olympus IX-53 Resource Report Resource Website 1+ mentions |
Olympus IX-53 (RRID:SCR_015801) | IX-53 | resource | Equipment that is a microscope for routine inverted microscopic analysis. Its features include pre-centered phase contrast, relief contrast, and UIS2 DIC optics for visualization across all magnifications for both thin and thick specimens. | microscope, inverted microscope, routine inverted microscopic analysis, phase contrast, relief contrast, uis2 dic optic, hardware, instrument, equipment | is provided by: Olympus | Commercially available, Available for purchase | SCR_015801 | SciCrunch Registry | IX53, IX53 Inverted Microscope, Olympus IX53 Inverted Microscope | 2026-09-26 02:15:37 | 3 | ||||||||
|
Sequence Detector System Resource Report Resource Website 1+ mentions |
Sequence Detector System (RRID:SCR_015806) | SDS | data analysis software, data processing software, sequence analysis software, software application, software resource | Software for high-throughput gene expression and genotyping analysis for use with the Applied Biosystems® 7900HT Fast Real Time PCR System. It features automation software tools to fully automate high-throughput applications for gene expression and SNP genotyping. | sequence detection, gene expression, genotype analysis, snp, automation | Commercially available, Available for purchase | SCR_015806 | SciCrunch Registry | Sequence Detection System (SDS), Sequence Detection System (SDS) Software | 2026-09-26 02:15:38 | 6 | |||||||||
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NanoDrop 3300 Fluorospectrometer Resource Report Resource Website 100+ mentions |
NanoDrop 3300 Fluorospectrometer (RRID:SCR_015804) | data or information resource, portal, topical portal | Fluorospectrometer for broad spectrum fluorescence analysis. It uses as little as 1 μL of sample volume and lowers the mass detection limit more than an order of magnitude. | spectrophotometer, fluorospectrometer, broad spectrum fluorescence analysis, mass detection, spectrometry | Commercially available, Available for purchase | SCR_015804 | SciCrunch Registry | NanoDrop 3300, NanoDrop™ 3300, NanoDrop™ 3300 Fluorospectrometer | 2026-09-26 02:15:37 | 481 | ||||||||||
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Thermo Fisher: StepOnePlus Real-Time PCR System Resource Report Resource Website 50+ mentions |
Thermo Fisher: StepOnePlus Real-Time PCR System (RRID:SCR_015805) | data acquisition software, data processing software, instrument resource, software application, software resource | Equipment and software system that is a real-time thermal cycler for intuitive data analysis of polymerase chain reactions. It comes with analysis software, instrument control software, and a LED-based 4-color optical recording feature. | image acquisition software, genotype, real time pcr, qPCR, thermal cycler, hardware, pcr, polymerase chain reaction, instrument, equipment | Commercially available, Available for purchase, Runs on Windows | SCR_015805 | SciCrunch Registry | StepOnePlus, StepOnePlus™ Real-Time PCR System | 2026-09-26 02:15:37 | 58 | ||||||||||
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Decision Decoding Toolbox Resource Report Resource Website 1+ mentions |
Decision Decoding Toolbox (RRID:SCR_015978) | DDTBOX | data analysis software, data processing software, software application, software resource, software toolkit | Software toolkit for multivariate pattern analysis (MVPA) of event-related potentials. This software is written in MATLAB. | erp, event, related, potential, multivariate, analysis, pattern, matlab, mvpa | Free, Available for download | SCR_015978 | SciCrunch Registry | The Decision Decoding Toolbox (DDTBOX), DDTBOX: Decision Decoding Toolbox | 2026-09-26 02:15:40 | 3 | |||||||||
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Elastica2D Resource Report Resource Website 1+ mentions |
Elastica2D (RRID:SCR_015858) | data or information resource, data processing software, data visualization software, model, software application, software resource | Software for a 2D elastic beam model that can be used to model quasistatic bending of the vibrissa to compute forces and bending moments at the base. Elastica2D is part of the Digital Rat software project that that aims to enable morphologically and mechanically accurate modelling of the rat head and vibrissal (whisker) array. | matlab, quasistatic bending, vibrissa, 2d model, elastic, elastic beam, mechanical model | is used by: MATLAB | National Science Foundation 0446391; National Science Foundation 0818414; National Science Foundation 0846088 |
PMID:22298834 | Free, Available for download | SCR_015858 | SciCrunch Registry | 2026-09-26 02:15:38 | 1 | ||||||||
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Quantum Biology Institute Resource Report Resource Website |
Quantum Biology Institute (RRID:SCR_015855) | access service resource, service resource | Institute that provides resources and researches the concepts and mechanisms which underlie the complexities of biology. In particular, it incorporates concepts in physics and mathematics to resolve, unravel, and explain complex biological mechanisms and conditions. | physics, mathematics, quantum biology, biological mechanism | Available to the scientific community | http://www.nitrc.org/projects/foliations_2050/ | SCR_015855 | SciCrunch Registry | 2026-09-26 02:15:38 | 0 | ||||||||||
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Stanford Diabetes Research Center Resource Report Resource Website 1+ mentions |
Stanford Diabetes Research Center (RRID:SCR_015856) | access service resource, service resource | University-affiliated center that promotes research in diabetes and related metabolic and endocrine disorders at Stanford University. | stanford, diabetes, research center, niddk, service resource |
is listed by: NIDDK Information Network (dkNET) is listed by: Diabetes Research Centers has organization facet: Stanford Diabetes Research Center Diabetes Immune Monitoring Core has organization facet: Stanford Diabetes Research Center Stanford Islet Research Core has organization facet: Stanford Diabetes Research Center Diabetes Clinical and Translational Core has organization facet: Stanford Diabetes Research Center Diabetes Genomics Analysis Core is organization facet of: Diabetes Research Centers |
NIDDK P30 DK116074 | Available to the scientific community | SCR_015856 | SciCrunch Registry | 2026-09-26 02:15:38 | 1 | |||||||||
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Clinical Trials in Organ Transplantation (CTOT) Resource Report Resource Website 1+ mentions |
Clinical Trials in Organ Transplantation (CTOT) (RRID:SCR_015859) | CTOT | consortium, data or information resource, organization portal, portal, project portal | Project portal for a cooperative research program to improve short and long-term graft and patient survival. CTOT is an investigative consortium for conducting clinical and associated mechanistic studies that will lead to improved outcomes for transplant recipients. | graft, graft patient, patient survival, clinical study, transplant, transplant recipient, mechanistic study |
is listed by: NIDDK Information Network (dkNET) is listed by: Diabetes Research Centers is related to: Clinical Trials in Organ Transplantation in Children (CTOT-C) |
NIAID UM2 AI117870 | Public, Available to the scientific community | SCR_015859 | SciCrunch Registry | Clinical Trials in Organ Transplantation | 2026-09-26 02:15:38 | 1 | |||||||
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Clinical Trials in Organ Transplantation in Children (CTOT-C) Resource Report Resource Website 1+ mentions |
Clinical Trials in Organ Transplantation in Children (CTOT-C) (RRID:SCR_015860) | CTOT-C | consortium, data or information resource, organization portal, portal, project portal | Project portal for a cooperative research program sponsored by the National Institute of Allergy and Infectious Diseases (NIAID). CTOT-C is an investigative consortium for conducting clinical and associated mechanistic studies that will lead to improved outcomes for pediatric heart, lung, or kidney transplant recipients. | heart, kidney, lung, pediatric, cooperative research program, niaid, clinical study, mechanistic study, transplant |
is listed by: NIDDK Information Network (dkNET) is related to: Clinical Trials in Organ Transplantation (CTOT) |
NIAID UM2 AI117870 | Public, Available to the scientific community | SCR_015860 | SciCrunch Registry | NIAID Clinical Trials in Organ Transplantation in Children, Clinical Trials in Organ Transplantation in Children, NIAID CTOT-C | 2026-09-26 02:15:38 | 1 | |||||||
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Baitfisher Resource Report Resource Website 1+ mentions |
Baitfisher (RRID:SCR_015985) | alignment software, data processing software, image analysis software, software application, software resource, software toolkit | Software toolkit for multispecies target DNA enrichment probe design. It consists of two programs: BaitFisher and BaitFilter, which are designed to construct hybrid enrichment baits for multiple sequence alignments or annotated features in multiple sequence alignments. | software, package, multispecies, comparative, genomics, hybrid, enrichment, DNA, probe, design, sequence, alignments |
is listed by: Debian is listed by: OMICtools |
German Research Foundation (DFG) OH81/9-1; NI 1387/1-1; Spanish Ministry of Science and Education (MEC) RYC-2014-15615 |
PMID:27009209 DOI:10.1093/molbev/msw056 |
Free, Available for download | OMICS_11740 | https://sources.debian.org/src/ballview/ | SCR_015985 | SciCrunch Registry | 2026-09-26 02:15:40 | 5 |
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