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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Cogent 2000 Resource Report Resource Website 100+ mentions |
Cogent 2000 (RRID:SCR_015672) | data processing software, software application, software toolkit, signal processing software, software resource | MATLAB Toolbox for presenting stimuli and recording responses with precise timing. It also provides additional utilities for the manipulation of sound, keyboard, mouse, joystick, serial port, parallel port, subject responses and physiological monitoring hardware. | matlab, timing, physiological monitoring, subject response, stimulus presenting, response recording | has parent organization: Wellcome Trust | Free, Available for download, Acknowledgment requested, Account required, Demo available | SCR_015672 | Cogent | 2026-08-13 09:29:16 | 224 | |||||||||
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Singularity Registry Resource Report Resource Website 1+ mentions |
Singularity Registry (RRID:SCR_016249) | sregistry | data distribution software, web application, data processing software, data access protocol, application programming interface, software application, data storage software, software resource | Web application and registry for institutional deployment of Singularity containers. | containers, singularity, containers, linux, python, django, storage | is related to: Singularity Hub | PMID:28494014 | Open source, Freely available | SCR_016249 | Singularity Registry Server | 2026-08-13 09:29:24 | 2 | |||||||
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HBP: Healthy Brain Project Resource Report Resource Website |
HBP: Healthy Brain Project (RRID:SCR_013137) | HBP | topical portal, data or information resource, disease-related portal, research forum portal, portal | Research forum portal to address brain status by acquiring comprehensive, multimodal data from healthy humans across the lifespan to characterize brain status, assess its change over time, and associate composite descriptors of brain status. Specifically, the measurements are acquired noninvasively by existing neuroimaging technologies (structural MRI, functional MRI, magnetic resonance spectroscopy, diffusion MRI, and magnetoencephalography); in addition, genetic, cognitive, language, and lifestyle data are acquired. Goals: * Derive the Brain Health Index- An integrative assessment of brain status derived from multimodal measurements of brain structure, function, and chemistry. * Continue acquiring data to construct the first-ever databank on brain, cognitive, language and genetic measurements for healthy people across the lifespan. * Provide a novel and unique dataset by which to: characterize brain status, assess its change over time, and associate it with genetic makeup, cognitive function, and language abilities. * Forecast future brain health and disease based on current measurements and guide physicians towards new interventions and evaluate interventions as they develop. * Extend to siblings and other family members to further assess the genetic influences and inheritability. | cognition, language, genetic, cognitive, brain, structure, function, longitudinal, multimodal, neuroimaging, adult human, late adult human, neurological exam, neuropsychological exam, cognitive assessment, structured interview, questionnaire, mental health status, structural mri, fmri, mr spectroscopy, diffusion mri, meg, dna, genetic assessment, montreal cognitive assessment, 3ms, mmse, language assessment, lifestyle, controlled oral word association test | has parent organization: University of Minnesota Twin Cities; Minnesota; USA | Aging, Healthy | nlx_153925 | SCR_013137 | Healthy Brain Project, Minnesota Women Healthy Brain Project, Women Healthy Brain Project, Minnesota Healthy Brain Project | 2026-08-13 09:28:45 | 0 | |||||||
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AmplifX Resource Report Resource Website 50+ mentions |
AmplifX (RRID:SCR_014465) | data analysis software, data processing software, software resource, software application | A software for managing, testing, and drawing primers. The software can locate primers for target sequences, calculate the quality score, predict amplified fragments and dimers, and create graphic representations of the primers. | primer design, target sequences, amplification, graphic representation, data analysis software | SCR_014465 | 2026-08-13 09:29:11 | 96 | ||||||||||||
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Cytoskeleton Resource Report Resource Website 1000+ mentions |
Cytoskeleton (RRID:SCR_013532) | antibody supplier, commercial organization, material resource, reagent supplier | An Antibody supplier | nlx_152338 | SCR_013532 | Cytoskeleton inc. | 2026-08-13 09:28:50 | 2691 | |||||||||||
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Scaffold Proteome Software Resource Report Resource Website 100+ mentions |
Scaffold Proteome Software (RRID:SCR_014345) | data analysis software, data processing software, software resource, software application | Software for MS/MS proteomic experiments to compare samples, identify biological relevance, and identify isoforms and protein PTMs. These proteins can be classified based on molecular function or organelle. Users can investigate spectrum details and counts, as well as use high through-put batch processing. Tutorials and a free trial are available through the main site., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | ms/ms, proteome, isoform, protein ptm, spectrum, mass spectrometry | THIS RESOURCE IS NO LONGER IN SERVICE | SCR_014345 | Scaffold | 2026-08-13 09:29:10 | 116 | ||||||||||
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Human Reference Protein Interactome Project Resource Report Resource Website 10+ mentions |
Human Reference Protein Interactome Project (RRID:SCR_015670) | HuRI | web application, data or information resource, project portal, database, software resource, portal | Project portal for the Human Reference Protein Interactome Project, which aims generate a first reference map of the human protein-protein interactome network by identifying binary protein-protein interactions (PPIs). It achieves this by systematically interrogating all pairwise combinations of predicted human protein-coding genes using proteome-scale technologies. | protein interactome, protein-protein interaction, ppi, pairwise combination, proteome, human reference | NHGRI R01/U01HG001715; NHGRI P50HG004233; NHLBI U01HL098166; NHLBI U01HL108630; NCI U54CA112962; NCI R33CA132073; NIH RC4HG006066; NICHD ARRA R01HD065288; NICHD ARRA R21MH104766; NICHD ARRA R01MH105524; NIMH R01MH091350; NSF CCF-1219007; NSERC RGPIN-2014-03892 |
PMID:25416956 | Freely Available, Free, Available for download | SCR_015670 | HuRI: The Human Reference Protein Interactome Mapping Project | 2026-08-13 09:29:28 | 20 | |||||||
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TetraScience Resource Report Resource Website |
TetraScience (RRID:SCR_013977) | data processing software, data management software, software application, data acquisition software, software resource | A software provider which supplies researchers with software that enables remote monitoring and management of experiments. TetraScience provides software for managing lab cameras, sensors, electrical switches, adapters, and timers. Users are notified by text or email of lab proceedings and alerts. | remote management, management tool, data aacquisiton, data management, software |
is listed by: Connected Researchers is related to: Connected Researchers |
SCR_013977 | 2026-08-13 09:28:56 | 0 | |||||||||||
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ASaiM Resource Report Resource Website 1+ mentions |
ASaiM (RRID:SCR_015878) | data analysis software, data processing software, software resource, software application | Software that analyzes intestinal microbiota data. This environment is composed of a framework to process and analyze microbiota data from raw sequences to taxonomic and functional assignations. | metagenomic, galaxy, microbiota, metatranscriptomic, metataxonomic, | Open source, Free, Available for download, Tutorial available | https://github.com/asaim | SCR_015878 | ASaiM: Auvergne Sequence analysis of intestinal Microbiota, Auvergne Sequence analysis of intestinal Microbiota, ASaiM (Auvergne Sequence analysis of intestinal Microbiota) | 2026-08-13 09:29:30 | 2 | |||||||||
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Signal Resource Report Resource Website 500+ mentions |
Signal (RRID:SCR_014276) | data analysis software, data processing software, software application, data acquisition software, software resource | A sweep-based data acquisition and analysis software package. Its uses range from a simple storage oscilloscope to complex applications requiring stimulus generation, data capture, control of external equipment and custom analysis. A built-in script language automates tasks and provides additional tools for custom analyses and applications. Signal includes functions for specific application areas, including dynamic clamp, whole cell and patch clamp electrophysiology, and evoked response including control of magnetic and other stimulus devices. Video tutorials and a demo version of Signal is available on the main page. | sweep based, data acquisition software, data analysis software, | Pay for product | SCR_014276 | 2026-08-13 09:28:59 | 737 | |||||||||||
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Psykinematix Resource Report Resource Website 10+ mentions |
Psykinematix (RRID:SCR_014830) | data analysis software, data processing software, software application, standalone software, data acquisition software, software resource | Standalone solution dedicated to Visual Psychophysics running on Mac OS X. Psykinematix runs standard psychophysical protocols, presents complex stimuli, collects subject's responses, and analyzes results on the fly. It consists of a unique OpenGL-based software package that does not require any programming skill to create and run complex experiments. | psychophysics, visual psychophysics, standalone, mac, data analysis, data acquisition, experiment | Demo is available, Available for download, License required | SCR_014830 | 2026-08-13 09:29:05 | 21 | |||||||||||
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National Institute on Drug Abuse Center for Genetic Studies Resource Report Resource Website 1+ mentions |
National Institute on Drug Abuse Center for Genetic Studies (RRID:SCR_013061) | NIDA Center for Genetic Studies | data or information resource, service resource, data repository, storage service resource, data set | Site for collection and distribution of clinical data related to genetic analysis of drug abuse phenotypes. Anonymous data on family structure, age, sex, clinical status, and diagnosis, DNA samples and cell line cultures, and data derived from genotyping and other genetic analyses of these clinical data and biomaterials, are distributed to qualified researchers studying genetics of mental disorders and other complex diseases at recognized biomedical research facilities. Phenotypic and Genetic data will be made available to general public on release dates through distribution mechanisms specified on website. | drug abuse, family, family structure, genetic analysis, genetics, addiction, age, biomaterial, cell line, citation, clinical, clinical status, data, diagnosis, dna, genotyping, human, mental disorder, mutation analysis, phenotype, publications, sex, clinical data, genotype, gene, GWAS |
is recommended by: National Library of Medicine is listed by: One Mind Biospecimen Bank Listing is related to: One Mind Biospecimen Bank Listing is related to: NIH Data Sharing Repositories has parent organization: Washington University School of Medicine in St. Louis; Missouri; USA has parent organization: Rutgers University; New Jersey; USA |
NIDA ; NIH Blueprint for Neuroscience Research |
Free, Freely available | nif-0000-00181 | https://zork5.wustl.edu//nida/ | http://zork.wustl.edu/nida/ | SCR_013061 | National Institute of Drug Abuse (NIDA) Human Genetics Initiative, NIDA Center for Genetic Studies | 2026-08-13 09:28:49 | 7 | ||||
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GLIMMPSE Resource Report Resource Website 1+ mentions |
GLIMMPSE (RRID:SCR_016297) | data analysis software, data processing software, software resource, software application | Web based software tool that calculates power and sample size for study designs with normally distributed outcomes. Permits power calculations for clinical trials, randomized experiments, and observational studies with clustering, repeated measures, and both, and almost any testable hypothesis. GLIMMPSE Version 3 release back end has been refactored in Python, interface has been simplified, requiring user decisions about only one topic per screen, new menu improves specification of both between-participant and within-participant hypothese, recursive algorithm permits computing covariances for up to ten levels of clustering., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | power, multivariate, linear, models, Gaussian, error, Java, web, calculate | NIGMS R01 GM121081; NIGMS R25 GM111901; NLM G13 LM011879 |
PMID:24403868 PMID:40901910 |
THIS RESOURCE IS NO LONGER IN SERVICE | SCR_016297 | , GLIMMPSE Version 3 | 2026-08-13 09:29:39 | 9 | ||||||||
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NIH-CIDI Lung Segmentation Tool Resource Report Resource Website 1+ mentions |
NIH-CIDI Lung Segmentation Tool (RRID:SCR_014150) | segmentation software, data processing software, software application, image analysis software, software resource | A segmentation tool for the segmentation of a lung from CT images. The sofware can be run in two modes: fully automatic and semi-automatic with manual seeding by the user. The software also allows the user to perform basic filtering operations and manual correction to the segmentation. The VTK-based rendering implementation, along with option to view in axial, coronal, and sagittal, provides the user with better visualization of the segmented lung. | segmentation software, lung, ct image, visualization |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: National Institutes of Health |
PMID:25570151 | Open source | SCR_014150 | CIDI-lung-seg, CIDI Lung Seg | 2026-08-13 09:28:57 | 1 | ||||||||
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ImmunoStar Resource Report Resource Website 500+ mentions |
ImmunoStar (RRID:SCR_013473) | antibody supplier, commercial organization, material resource, reagent supplier | An Antibody supplier | nlx_152388 | SCR_013473 | Immunonuclear, Diasorin, Incstar, Immuno Nuclear, ImmunoStar inc. | 2026-08-13 09:28:49 | 661 | |||||||||||
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xFITOM Resource Report Resource Website 1+ mentions |
xFITOM (RRID:SCR_014445) | data analysis software, data processing software, software application, standalone software, software resource, sequence analysis software | A fully customizable program that uses a graphical user interface to locate transcription factor-binding sites in genomic sequences. xFITOM scans DNA or RNA sequences for putative binding sites as defined by a collection of aligned known sites, a consensus sequence in IUPAC degenerate-base format, or a combination of the two. | transcription factor, binding site, information theory, customizable program, sequence analysis software |
uses: GenBank is related to: CollecTF |
PMID:21346861 | Available for download, Acknowledgement requested | http://www.mybiosoftware.com/fitom-1-0-detection-binding-sites-dna-rna-sequences.html | compbio.umbc.edu/Software/xFITOM/ http://research.umbc.edu/~erill/ | SCR_014445 | 2026-08-13 09:29:03 | 7 | |||||||
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PLINK/SEQ Resource Report Resource Website 50+ mentions |
PLINK/SEQ (RRID:SCR_013193) | software toolkit, software resource, software library, software application | An open-source C/C++ library for working with human genetic variation data. The specific focus is to provide a platform for analytic tool development for variation data from large-scale resequencing projects, particularly whole-exome and whole-genome studies. However, the library could in principle be applied to other types of genetic studies, including whole-genome association studies of common SNPs. (entry from Genetic Analysis Software) | gene, genetic, genomic, c/c++, r, macos, linux, bio.tools |
is listed by: Genetic Analysis Software is listed by: bio.tools is listed by: Debian is related to: PLINK has parent organization: Harvard University; Cambridge; United States |
Open unspecified license | nlx_154213, biotools:plink-seq | https://bio.tools/plink-seq | SCR_013193 | 2026-08-13 09:28:46 | 77 | ||||||||
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Computational Structural Biology Toolbox Resource Report Resource Website |
Computational Structural Biology Toolbox (RRID:SCR_016065) | CSB | software toolkit, software resource, software library | Software package as an application framework and a Python class library. It is designed for reading, storing and analyzing biomolecular structures in a variety of formats with rich support for statistical analyses. | software, library, Python, reading, storing, analysis, biomolecular, variety, statistical, analysis, bioinformatic |
is listed by: Debian is listed by: OMICtools |
Deutsche Forschungsgemeinschaft (DFG) grant HA 5918/1-1; Max Planck Society |
PMID:22942023 | Free, Available for download | OMICS_09827 | https://sources.debian.org/src/csb/ | SCR_016065 | Computational Structural Biology Toolbox (CSB), CSB Toolbox | 2026-08-13 09:29:21 | 0 | ||||
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NIAID Overview of Coronaviruses Resource Report Resource Website 1+ mentions |
NIAID Overview of Coronaviruses (RRID:SCR_018290) | topical portal, data or information resource, funding resource, portal | Information about coronaviruses, including COVID-19. NIAID provides research funding and resources for scientific community to facilitate development of vaccines, therapeutics, and diagnostics for infectious diseases, including those caused by coronaviruses. | Coronavirus, COVID-19, data, infectious disease, NIAID |
is listed by: Data and Computational Resources to Address COVID-19 is related to: NIAID |
COVID-19 | NIAID | Free, Freely available | SCR_018290 | 2026-08-13 09:30:01 | 4 | ||||||||
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LeafCutter Resource Report Resource Website 10+ mentions |
LeafCutter (RRID:SCR_017639) | data analysis software, data processing software, software application, data analytics software, software resource | Software tool for identifying and quantifying RNA splicing variation. Used to study sample and population variation in intron splicing. Identifies variable intron splicing events from short read RNA-seq data and finds alternative splicing events of high complexity. Used for detecting differential splicing between sample groups, and for mapping splicing quantitative trait loci (sQTLs). | Identify, quantitate, RNA, splicing, variation, intron, short, read, RNAseq, data, mapping, trait, loci, sQTL | has parent organization: Stanford University; Stanford; California | CEHG Fellowship ; Howard Hughes Medical Institute ; NHGRI HG007036; NHGRI HG008140; NHGRI HG009431; NIMH R01 MH107666 |
PMID:29229983 DOI:10.1038/s41588-017-0004-9 |
Free, Available for download, Freely available | SCR_017639 | 2026-08-13 09:30:04 | 32 |
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