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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | ||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Taconic Biosciences Resource Report Resource Website 100+ mentions |
Taconic Biosciences (RRID:SCR_016410) | TAC, TB | biomaterial supply resource, material resource, organism supplier | Supplier of mice for research purposes. | RIN, Resource Information Network, mouse, strain, supply, research, repository, subject, genetic engineering, knockout, mice, gene, model, transgenic, RRID Community Authority |
is listed by: Resource Information Network works with: International Mouse Strain Resource |
SCR_016410 | SciCrunch Registry | Taconic Mouse Supply, Taconic Mice, eTaconic, Taconic, Taconic Bioscience, Taconic Bio Sciences | 2026-09-26 02:15:46 | 232 | |||||||||
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MetaCyto Resource Report Resource Website 1+ mentions |
MetaCyto (RRID:SCR_016415) | data analysis software, data processing software, software application, software resource, software toolkit | Software tool for automated meta-analysis of mass and flow cytometry data. Provides functions for preprocessing, automated gating and meta-analysis of cytometry data and collection of cytometry data from the ImmPort database. | automated, analysis, meta, flow, cytometry, data, bio.tools |
is listed by: Bioconductor is listed by: NIDDK Information Network (dkNET) is listed by: bio.tools is listed by: Debian is related to: The Immunology Database and Analysis Portal (ImmPort) |
the National Institute of Allergy and Infectious Diseases HHSN272201200028C | Free, Available for download, Freely available | biotools:metacyto | https://bio.tools/metacyto | SCR_016415 | SciCrunch Registry | 2026-09-26 02:15:46 | 5 | |||||||
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Fastml Resource Report Resource Website 100+ mentions |
Fastml (RRID:SCR_016092) | data access protocol, software resource, web application, web service | Web application for the reconstruction of ancestral sequences. It computes maximum likelihood ancestral sequence reconstruction based on the phylogenetic relations between homologous sequences. | ancestral, amino-acid, sequence, reconstruction, phylogenetic, relation, accurate, bio.tools |
is listed by: Debian is listed by: bio.tools is listed by: OMICtools |
Bioinformatics Center at Tel-Aviv University ; Israel Science Foundation 878/09 |
PMID:22661579 | Free, Freely available | biotools:fastml, OMICS_08650 | https://bio.tools/fastml, https://sources.debian.org/src/fastml/ | SCR_016092 | SciCrunch Registry | The FastML Server | 2026-09-26 02:15:41 | 111 | |||||
|
findMotif.pl Resource Report Resource Website 1+ mentions |
findMotif.pl (RRID:SCR_016417) | data analysis software, data processing software, sequence analysis software, software application, software resource, software toolkit | Software tool to analyze the promoters of genes and look for motifs that are enriched in the target gene promoters relative to other promoters. Used for gene based analysis to provide a list of genes that should contain the same elements, such as genes that are co-regulated. It includes gene ontology analysis and can be used to look for RNA motifs in mRNAs. | analyze, promoter, gene, motif, target, relative, same, element, ontology, RNA, mRNA |
is related to: HOMER has parent organization: University of California at San Diego; California; USA |
Free, Available for download, Freely available | SCR_016417 | SciCrunch Registry | 2026-09-26 02:15:46 | 4 | ||||||||||
|
Monica monitor Resource Report Resource Website |
Monica monitor (RRID:SCR_016416) | data or information resource, portal, topical portal | A peel and stick in-room ambulatory fetal monitoring solution by Monica Healthcare Ltd. Measures fetal heart rate (FHR), maternal heart rate (MHR) and uterine activity (UA). | instrument, ambulatory, fetal, monitoring, heart, rate, fetal, maternal, uterine, activity | has parent organization: University of Nottingham; Nottingham; United Kingdom | Commercially available | SCR_016416 | SciCrunch Registry | 2026-09-26 02:15:46 | 0 | ||||||||||
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Fetal Actocardiograph MT-516 Resource Report Resource Website |
Fetal Actocardiograph MT-516 (RRID:SCR_016420) | data or information resource, portal, topical portal | Fetal actocardiograph instrument provided by TOITU CO., LTD. | instrument, fetal, actocardiogram, Toitu, obstetric, gynecology | Commercially available | SCR_016420 | SciCrunch Registry | 2026-09-26 02:15:46 | 0 | |||||||||||
|
OMA Orthology database Resource Report Resource Website 1+ mentions |
OMA Orthology database (RRID:SCR_016425) | OMA | data access protocol, data or information resource, database, software application, software resource, standalone software, web service | Web based database interface for orthology prediction for the inference of orthologs among complete genomes. Used to relate genes across many species., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | interface, orthology, prediction, inference, complete, genome, species, data | Bayer Crop Science NV ; Swiss Institute of Bioinformatics ; UK Biotechnology and Biological Sciences Research Council ; University College London |
PMID:29106550 | THIS RESOURCE IS NO LONGER IN SERVICE | SCR_016425 | SciCrunch Registry | Orthologous MAtrix | 2026-09-26 02:15:46 | 9 | |||||||
|
kCSD-Matlab Resource Report Resource Website 1+ mentions |
kCSD-Matlab (RRID:SCR_016424) | kCSD | data analysis software, data processing software, software application, software resource | Software tool for analyzing recordings from multielectrodes. Source code for the Matlab implementation of the Kernel Current Source Density method. The method operates in one-, two-, and three-dimensional space to perform nonparametric estimation of transmembrane current sources from local field potentials recorded from arbitrarily distributed electrodes. | analyzing, recording, data, multielectrode, transmembrane, current, source, estimate, kernel, source, density, method | is related to: MATLAB | Free, Available for download, Freely available | SCR_016424 | SciCrunch Registry | kernel Current Source Density | 2026-09-26 02:15:47 | 3 | ||||||||
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BIOQUANT Life Science Resource Report Resource Website 10+ mentions |
BIOQUANT Life Science (RRID:SCR_016423) | data analysis software, data processing software, image analysis software, software application, software resource, software toolkit | Software tool to collect and analyse data on images of tissue slides or welled plates.Supports high-throughput immunofluorescence and immunohistochemistry, stereology, densitometry, and 3D modeling. Used in bioscience research in animal models and human biopsy, developmental neuroscience, traumatic brain/spinal cord injury, glaucoma, eye-movement disorders, cardiovascular disease and muscle disorders. | BioQuant Inc., collect, analyse, data, tissue, slide, well, plate, capture, camera, scanned, image, immunofluorescence, immunohistochemistry, stereology, densitometry, 3D modeling | Commercially available, Tutoring available | SCR_016423 | SciCrunch Registry | 2026-09-26 02:15:46 | 20 | |||||||||||
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Mass Univariate ERP Toolbox Resource Report Resource Website 1+ mentions |
Mass Univariate ERP Toolbox (RRID:SCR_016108) | data analysis software, data processing software, data visualization software, software application, software resource | Software toolkit of Matlab functions for analyzing and visualizing large numbers of t-tests performed on event-related potential data. The toolbox supports within-subject and between-subject t-tests with false discovery rate controls and control of the family-wise error rate via permutation tests. | matlab, analysis, t test, statistic, erp, event related potential, visualization, neuroimaging, erf, magnetic, resonance, imaging | requires: MATLAB | NIA AG08313; NICHD HD22614 |
PMID:21895683 | Free, Available for download | https://openwetware.org/wiki/Mass_Univariate_ERP_Toolbox | SCR_016108 | SciCrunch Registry | 2026-09-26 02:15:42 | 6 | |||||||
|
iELVis Resource Report Resource Website 10+ mentions |
iELVis (RRID:SCR_016109) | data processing software, data visualization software, software application, software resource | Software toolkit consisting of MATLAB and Bash scripts for intracranial electrode localization/visualization. It maps electrodes to various anatomical and functional atlases, and overlays electrode data over functional neuroimaging data. Software for intracranial electrode localization and visualization. | electrode, stimulus, visualization, brain, neuroimaging, intracranial, localization, anatomy, functional, BRAIN Initiative | is recommended by: BRAIN Initiative | Natural Sciences and Engineering Research Council of Canada RGPIN-2014-04465; Page and Otto Marx Jr. Foundation ; Swiss National Science Foundation P300P3_148388; Swiss National Science Foundation PBGEP3_139829 |
PMID:28192130 | Open source, Free, Available for download | https://github.com/iELVis/iELVis | SCR_016109 | SciCrunch Registry | iELVis (intracranial electrode visualization), Intracranial ELectrode VISualization | 2026-09-26 02:15:42 | 47 | ||||||
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Mapping Population-based Structural Connectomes Resource Report Resource Website |
Mapping Population-based Structural Connectomes (RRID:SCR_016232) | data analysis software, data processing software, software application, software resource | Data analysis software that can simultaneously characterize a large number of white matter bundles within and across different subjects for group analysis. It has three major components: construction of the structural connectome for the whole brain, low-dimensional representation of streamlines in each connection, and multi-level connectome analysis. | dwi, t1, tractography, algorithm, white matter, bundle, gray matter, shape, analysis, network, workflow | CPRIT RR150054; NIMH MH086633; NIMH MH092335; NSF DMS-1407655; NSF DMS1127914; NSF SES-1357666 |
Free for non-commercial use, Available for download | SCR_016232 | SciCrunch Registry | 2026-09-26 02:15:44 | 0 | ||||||||||
|
Garlic Resource Report Resource Website 10+ mentions |
Garlic (RRID:SCR_016118) | data analysis software, data processing software, data visualization software, sequence analysis software, software application, software resource | Software application for visualization and editing of biomolecules. Used for the investigation of membrane proteins, visualization of other proteins and geometric objects, and analysis of protein sequences. | visualization, editing, biomolecule, investigation, membrane, protein, analyze, sequence |
is listed by: Debian is listed by: OMICtools |
Open source, Free, Available for download | OMICS_21303 | https://sources.debian.org/src/garlic/ | SCR_016118 | SciCrunch Registry | 2026-09-26 02:15:42 | 38 | ||||||||
|
REmAb Resource Report Resource Website |
REmAb (RRID:SCR_016239) | analysis service resource, biomaterial analysis service, material analysis service, production service resource, service resource | Service for monoclonal antibody protein sequencing. It derives the sequences directly from the protein using mass spectrometry and without the need to access the cell line. | mass, spectrometry, monoclonal, anitbody, protein, sequencing, cell, line | Commercially available, Free consultation | SCR_016239 | SciCrunch Registry | Antibody Sequencing Service | 2026-09-26 02:15:44 | 0 | ||||||||||
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PhenoSpD Resource Report Resource Website 1+ mentions |
PhenoSpD (RRID:SCR_016359) | PSD | data analysis software, data processing software, software application, software resource, software toolkit | Software toolkit for phenotypic correlation estimation and multiple testing correction (Spectral Decomposition, SpD) for human phenome using genome-wide association study (GWAS) summary statistics. It is a command line R based tool. | spectral, decomposition, matrice, phenotypic, correlation, estimation, multiple, testing, correction, human, phenome, genome, summary, statistic, decomposition, matrice, genomics |
is related to: University of Bristol; Bristol; United Kingdom is related to: R Project for Statistical Computing |
Free, Available for download, Freely available | SCR_016359 | SciCrunch Registry | Pheno Spectral Decomposition, PhenoSpD | 2026-09-26 02:15:45 | 6 | ||||||||
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YAMP Resource Report Resource Website 1+ mentions |
YAMP (RRID:SCR_016236) | data analysis software, data processing software, sequence analysis software, software application, software resource | Software for processing and analysis of sequencing data. It has a strong focus on quality control, timely processing, functional annotation, and portability. | metagenomics, reproducibility, workflow, containerization, sequencing, gene, rna, annotating, portable, data, process | Free, Available for download | SCR_016236 | SciCrunch Registry | YAMP: Yet Another Metagenomic Pipeline, Yet Another Metagenomic Pipeline (YAMP), Yet Another Metagenomic Pipeline | 2026-09-26 02:15:44 | 8 | ||||||||||
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Gamgi Resource Report Resource Website |
Gamgi (RRID:SCR_016116) | GAMGI | data analysis software, data processing software, data visualization software, software application, software resource | Software application which provides a graphical interface to build, view and analyze atomic structures. It provides a graphical interface to study atomic structures, to prepare images for presentations, and teach the atomic structure of matter. | gui, graphical, interface, model, atom, atomic, structure |
is listed by: Debian is listed by: OMICtools |
Free, Available for download, Runs on Linux, Tutorial available | OMICS_21302 | https://sources.debian.org/src/gamgi/ | SCR_016116 | SciCrunch Registry | GAMGI: General Atomistic Modelling Graphic Interface, General Atomistic Modelling Graphic Interface | 2026-09-26 02:15:42 | 0 | ||||||
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International Initiative for Traumatic Brain Injury Research Resource Report Resource Website 1+ mentions |
International Initiative for Traumatic Brain Injury Research (RRID:SCR_016237) | InTBIR | access service resource, service resource | Project whose goal is to improve health care and lessen the global burden of TBI through the discovery of causal relationships between treatments and clinically meaningful outcomes. InTBIR seeks to encourage well-designed, hypothesis-driven studies that include the collection of high quality data followed by rigorous statistical analysis. | tbi, traumatic, brain, injury, neurology, neuroscience, neuroanatomy, medical, clinical, research, nih |
has parent organization: European Commission has parent organization: Canadian Institutes of Health Research |
SCR_016237 | SciCrunch Registry | International Initiative for Traumatic Brain Injury Research (InTBIR) | 2026-09-26 02:15:44 | 4 | |||||||||
|
OpenEx Resource Report Resource Website 100+ mentions |
OpenEx (RRID:SCR_016230) | data analysis software, data processing software, data visualization software, software application, software resource, software toolkit | Software toolkit that is designed for configuration and control of TDT hardware. It can also display and analyze neurophysiology data., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | tdt, analysis, neurophysiology, hardware, companion software, control, configuration, neuroimaging, eeg, stimulation | has parent organization: Tucker-Davis Technologies | THIS RESOURCE IS NO LONGER IN SERVICE | SCR_016230 | SciCrunch Registry | The OpenEx Software Suite, OpenEx suite | 2026-09-26 02:15:43 | 103 | |||||||||
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Brain Imaging Data Structure (BIDs) Resource Report Resource Website 100+ mentions |
Brain Imaging Data Structure (BIDs) (RRID:SCR_016124) | BIDS | data or information resource, narrative resource, portal, standard specification | Standard specification for organizing and describing outputs of neuroimaging experiments. Used to organize and describe neuroimaging and behavioral data by neuroscientific community as standard to organize and share data. BIDS prescribes file naming conventions and folder structure to store data in set of already existing file formats. Provides standardized templates to store associated metadata in form of Javascript Object Notation (JSON) and tab-separated value (TSV) files. Facilitates data sharing, metadata querying, and enables automatic data analysis pipelines. System to curate, aggregate, and annotate neuroimaging databases. Intended for magnetic resonance imaging data, magnetoencephalography data, electroencephalography data, and intracranial encephalography data. | Data storing structure, neuroimaging, standardized template, data sharing, MRI data, MEG data, EEG data, iEEG data, FASEB list |
is used by: OpenNeuro is used by: SPARC Portal is used by: SPARC Data Standard is listed by: FAIRsharing is related to: BIDS-Matlab is related to: NiPoppy works with: MNE-BIDS |
European Regional Development Fund ; German federal state of Sachsen-Anhalt ; International Neuroinformatics Coordinating Facility ; Laura and John Arnold Foundation ; Medical Research Council United Kingdom ; NIAAA U01 AA021697; NIGMS P20 GM103472; NIMH Intramural Research Program ; NSF 1429999; Wellcome Trust |
PMID:27326542 PMID:29917016 PMID:31239435 PMID:31239438 PMID:37744469 |
Free, Freely available | https://bids-specification.readthedocs.io/en/stable/, https://doi.org/10.25504/FAIRsharing.rd1j6t | SCR_016124 | SciCrunch Registry | Brain Imaging Data Structure, BIDS, Brain Imaging Data Structure (BIDS), Brain Imaging Data Structure v1.4.0 | 2026-09-26 02:15:42 | 235 |
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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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