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Resource Name Proper Citation Abbreviations Resource Type Description Keywords Resource Relationships Related Condition Funding Defining Citation Availability Specification URL Alternate IDs Alternate URLs Old URLs Parent Organization Resource ID Synonyms Record Last Update Mentions Count
SRMAtlas
 
Resource Report
Resource Website
1+ mentions
SRMAtlas (RRID:SCR_016996) SRM Atlas, SRMatlas atlas, data or information resource, database Resource of targeted proteomics assays to detect and quantify proteins in complex proteome digests by mass spectrometry. Used to quantify the complete human proteome. collection, proteomic, assay, detect, quantify, protein, mass, spectrometry, peptide American Recovery and Reinvestment Act ;
European Research Council ;
Luxembourg Centre for Systems Biomedicine University Luxembourg ;
NCRR S10 RR027584;
NHGRI RC2 HG005805;
NIGMS P50 GM076547;
NIGMS R01 GM087221;
Swiss National Science Foundation
PMID:27453469 Publicly available, Registration required SCR_016996 2026-09-05 06:32:14 3
NeuroPedia
 
Resource Report
Resource Website
10+ mentions
NeuroPedia (RRID:SCR_001551) NeuroPedia data or information resource, database A neuropeptide encyclopedia of peptide sequences (including genomic and taxonomic information) and spectral libraries of identified MS/MS spectra of homolog neuropeptides from multiple species. proteomics, peptide, neuropeptide, mass spectrometry assay, peptide sequence, spectrum, homolog has parent organization: Center for Computational Mass Spectrometry NCRR P41-RR024851;
NIDA 5K01DA23065;
NINDS R01 NS24553;
NIDA R01 DA04271;
NIMH R01 MH077305;
NHLBI P01 HL58120
PMID:21821666 Free, Freely available nlx_152894 SCR_001551 NeuroPedia: Neuropeptide database and spectra library 2026-09-05 06:31:14 12
Sanger Mouse Resources Portal
 
Resource Report
Resource Website
50+ mentions
Sanger Mouse Resources Portal (RRID:SCR_006239) Sanger Mouse Portal, WTSI Mouse Resources Portal, WTSI Mouse Resource Portal biomaterial supply resource, material resource Database of mouse research resources at Sanger: BACs, targeting vectors, targeted ES cells, mutant mouse lines, and phenotypic data generated from the Institute''''s primary screen. The Wellcome Trust Sanger Institute generates, characterizes, and uses a variety of reagents for mouse genetics research. It also aims to facilitate the distribution of these resources to the external scientific community. Here, you will find unified access to the different resources available from the Institute or its collaborators. The resources include: 129S7 and C57BL6/J bacterial artificial chromosomes (BACs), MICER gene targeting vectors, knock-out first conditional-ready gene targeting vectors, embryonic stem (ES) cells with gene targeted mutations or with retroviral gene trap insertions, mutant mouse lines, and phenotypic data generated from the Institute''''s primary screen. bacterial artificial chromosome, vector, embryonic stem cell, mutant mouse line, phenotype, gene, knockout, gene expression, genetics, chromosome, mutant, mouse line, mammal, marker symbol is listed by: One Mind Biospecimen Bank Listing
is related to: Ensembl
has parent organization: Wellcome Trust Sanger Institute; Hinxton; United Kingdom
Wellcome Trust 079643;
Wellcome Trust 098051;
NHGRI UO1-HG004080;
NCRR 1-U42RR033192;
European Union LSHG-CT-2006-037188;
European Union 227490;
European Union 312325;
European Union 261492
For the scientific community nlx_151819 SCR_006239 Mouse Resources Portal, Wellcome Trust Sanger Institute Mouse Resources Portal 2026-09-05 06:32:37 52
DoG picker
 
Resource Report
Resource Website
10+ mentions
DoG picker (RRID:SCR_016655) DoG picker data processing software, image processing software, software application, software resource THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 18,2023. Software tool for general particle picking in the single-particle processing of unknown macromolecules. Reference free particle picker with ability to sort particles based on size or it can be used to bootstrap the creation of templates or training datasets for other particle pickers. Used to facilitate particle selection in single particle electron microscopy., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. general, single, particle, picking, macromolecule, size, selection, electron, microscopy, image, transform is listed by: OMICtools NCRR RR17573;
NCRR RR23093
PMID:19374019 THIS RESOURCE IS NO LONGER IN SERVICE http://emg.nysbc.org/redmine/projects/appion/wiki/Appion_Home SCR_016655 Difference of Gaussians (DoG) picker, Difference of Gaussians Picker, Difference of Gaussians picker 2026-09-05 06:30:08 23
A Comprehensive Resource Base for C. elegans K+ Channels
 
Resource Report
Resource Website
A Comprehensive Resource Base for C. elegans K+ Channels (RRID:SCR_008360) material resource, reagent supplier THIS RESOURCE IS NO LONGER IN SERVICE, documented August 18, 2016. Supplies potassium channel cDNA clones in vectors suitable for functional expression and stocks of gene knockout strains. Supporting this resource base are studies showing the basic biophysical properties of the channels, studies showing the phenotypes of mutants, and information on the cell-type expression patterns of potassium channels. Studies of potassium channel cell-type expression patterns and functional properties; studies of behavioral phenotypes; generation of knockout mutants. Full-length cDNAs encoding C. elegans potassium channels in a vector suitable for functional expression in Xenopus oocytes and mammalian cell lines are available on request. Information is also provided describing the cell-type expression patterns and basic biophysical properties of potassium channels. And data on behavioral phenotypes are also available. C. elegans strains carrying knockouts of potassium channels are also generated and deposited at the C. elegans stock center at the University of Minnesota. expression, gene, behavioral, biophysical, cdna, c. elegans, cell, clone, ion channel, knockout, mammalian, mutant, oocyte, phenotype, potassium, vector, xenopus has parent organization: Washington State University; Washington; USA NCRR R24 RR017342 THIS RESOURCE IS NO LONGER IN SERVICE nif-0000-25471 SCR_008360 Resource Base for C. elegans K+ Channels 2026-09-05 06:30:43 0
LONI Java Image I/O Plugins
 
Resource Report
Resource Website
LONI Java Image I/O Plugins (RRID:SCR_008277) data processing software, software application, software resource Decoders and encoders written in Java for the AFNI, ANALYZE, DICOM, ECAT, GE, MINC, NIFTI and other neuroimaging file formats.The plugins use Java Image I/O interfaces to read and write metadata and image data and can read and write AFNI, ANALYZE 7.5, DICOM, ECAT 7.2, GE 5.0, INTERFILE (including hrrt), MINC, NIFTI, and UCLA PACS file formats. All source code is provided and usage examples are included. plugin, MRI, software, visualization, data processing is related to: Laboratory of Neuro Imaging
has parent organization: University of Southern California; Los Angeles; USA
NIBIB 9P41EB015922-15;
NCRR 2-P41-RR-013642-15
Available for educational and research purposes only nif-0000-23320 SCR_008277 2026-09-05 06:30:43 0
Nonhuman Primate Reagent Resource
 
Resource Report
Resource Website
100+ mentions
Nonhuman Primate Reagent Resource (RRID:SCR_012986) NHPRR antibody supplier, material resource, reagent supplier Center that facilitates the optimal use of nonhuman primate models in biomedical research by identifying, developing, characterizing and producing reagents for monitoring or modulating immune responses. They distribute non-human primate-specific antibodies for in vitro diagnostics, as well as develop and produce primate recombinant antibodies for in vivo cell depletion or modulating immune responses. anti-ig, antibody, biomedical, cell, depletion, diagnostic, immune, immunoglobulin, in vitro, in vivo, macaque, monkey, nonhuman, primate, reagent, recombinant, research, response, specie NCRR RR016001;
NIAID AI040101;
NIAID AI126683;
NIH Office of the Director R24 OD010976;
NIH 2722001300031C;
NIH 272200900037C;
NIH 272201300031C;
NIH 286200400101C;
NIH AI-040101;
NIH AI-126683;
NIH HHSN2722001300031C;
NIH HHSN272200900037C;
NIH HHSN286200400101C;
NIH NHPRR;
NIH OD-010976;
NIH RR-016001
nif-0000-24368 https://orip.nih.gov/comparative-medicine/programs/vertebrate-models, http://www.nhpreagents.org/NHP/contact.aspx http://nhpreagents.bidmc.harvard.edu/NHP/default.aspx SCR_012986 nhp reagents, Nonhuman Primate Reagent Resources, Non-human primate repository, Non human Primate Reagent Resources, NHP Reagent Resource, nhpreagents, NIH Nonhuman Primate Reagent Resource, NHP Reagent, nhpreagent, Non-human Primate Reagent Resources 2026-09-05 06:30:47 230
Homer2
 
Resource Report
Resource Website
100+ mentions
Homer2 (RRID:SCR_009586) data processing software, image analysis software, software application, software resource Software matlab scripts used for analyzing fNIRS data to obtain estimates and maps of brain activation. Graphical user interface (GUI) for visualization and analysis of functional near-infrared spectroscopy (fNIRS) data. Analysis, optical, imaging, fnirs, map, brain, activation, BRAIN Initiative is recommended by: BRAIN Initiative
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is related to: NIRx2nirs: A NIRx to .nirs data converter
NCRR P41 RR14075;
NIBIB EB025145;
NIBIB R01 EB006385
Free, Available for download, Freely available nlx_155773 http://www.nitrc.org/projects/homer2, https://homer-fnirs.org/ SCR_009586 HOMER1, Photon Migration Imaging toolbox 2026-09-05 06:30:45 250
TRACULA
 
Resource Report
Resource Website
10+ mentions
TRACULA (RRID:SCR_013152) TRACULA data processing software, software application, software resource Software tool developed for automatically reconstructing a set of major white matter pathways in the brain from diffusion weighted images using probabilistic tractography. This method utilizes prior information on the anatomy of the pathways from a set of training subjects. By incorporating this prior knowledge in the reconstruction procedure, our method obviates the need for manual intervention with the tract solutions at a later stage and thus facilitates the application of tractography to large studies. The trac-all script is used to preprocess raw diffusion data (correcting for eddy current distortion and B0 field inhomogenities), register them to common spaces, model and reconstruct major white matter pathways (included in the atlas) without any manual intervention. trac-all may be used to execute all the above steps or parts of it depending on the dataset and user''''s preference for analyzing diffusion data. Alternatively, scripts exist to execute chunks of each processing pipeline, and individual commands may be run to execute a single processing step. To explore all the options in running trac-all please refer to the trac-all wiki. In order to use this script to reconstruct tracts in Diffusion images, all the subjects in the dataset must have Freesurfer Recons. tractography, white matter tract, white matter pathway, diffusion weighted image, diffusion magnetic resonance imaging, white matter, brain, reconstruct, diffusion tensor imaging is related to: FreeSurfer
has parent organization: Harvard Medical School; Massachusetts; USA
Aging NIH Blueprint for Neuroscience Research ;
Ellison Medical Foundation ;
NIBIB EB008129;
NIMH U01-MH093765;
NCRR P41-RR14075;
NCRR U24-RR021382;
NIBIB R01-EB006758;
NIA R01-AG022381;
National Center for Complementary and Alternative Medicine RC1-AT005728;
NINDS R01-NS052585;
NINDS R21-NS072652;
NINDS R01-NS070963
PMID:22016733 nlx_143919 SCR_013152 TRACULA - TRActs Constrained by UnderLying Anatomy, TRACULA: TRActs Constrained by UnderLying Anatomy, TRActs Constrained by UnderLying Anatomy 2026-09-05 06:30:47 17
DOAF
 
Resource Report
Resource Website
1+ mentions
DOAF (RRID:SCR_015666) DOAF data or information resource, database, portal, project portal Project portal for a collaborative database aiming to provide a comprehensive annotation to human genome.It uses the computable, controlled vocabulary of Disease Ontology (DO) and NCBI Gene Reference Into Function (GeneRIF). disease ontology, annotation, collaboration, collaborative project, java, perl, rubby uses: Human Disease Ontology
is related to: NUgene Project
is related to: Gene Ontology
is related to: OBO
has parent organization: Northwestern University; Illinois; USA
NCRR 1R01RR025342;
CTSA UL1RR025741
PMID:23251346 Public, Available for download, Tutorial Available SCR_015666 Disease Ontology Annotation Framework, Disease Ontology Annotation Framework (DOAF) 2026-09-05 06:30:50 1
CAWorks
 
Resource Report
Resource Website
1+ mentions
CAWorks (RRID:SCR_014185) data processing software, image analysis software, software application, software resource A software application developed to support computational anatomy and shape analysis. The capabilities of CAWorks include: interactive landmark placement to create segmentation (mask) of desired region of interest; specialized landmark placement plugins for subcortical structures such as hippocampus and amygdala; support for multiple Medical Imaging data formats, such as Nifti, Analyze, Freesurfer, DICOM and landmark data; Quadra Planar view visualization; and shape analysis plugin modules, such as Large Deformation Diffeomorphic Metric Mapping (LDDMM). Specific plugins are available for landmark placement of the hippocampus, amygdala and entorhinal cortex regions, as well as a browser plugin module for the Extensible Neuroimaging Archive Toolkit. image analysis software, computational anatomy, shape analysis, plugin, subcortex, landmark placement is used by: Northwestern University Schizophrenia Data and Software Tool (NUSDAST)
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
has parent organization: Johns Hopkins University; Maryland; USA
NIMH 1R01 MH084803;
NIBIB R01 EB008171;
NIA 5U01AG033655;
NCRR P41 RR015241;
NIBIB R01 EB000975
Available to the research community http://www.cis.jhu.edu/software/caworks/ SCR_014185 Computational Anatomy Works 2026-09-05 06:30:48 2
TiltPicker
 
Resource Report
Resource Website
TiltPicker (RRID:SCR_016674) data processing software, software application, software resource Software tool to facilitate particle selection in single particle electron microscopy. An interactive graphical interface application designed to streamline the selection of particle pairs from tilted-pair datasets. Designed to work with existing software tools for image processing. particle, selection, single, electron, microscopy, interactive, graphical, interface, tilted, pair, dataset, image, processing is listed by: OMICtools NCRR RR17573;
NCRR RR23093
PMID:19374019 Free, Available for download, Freely available http://emg.nysbc.org/redmine/projects/appion/wiki/Appion_Home SCR_016674 2026-09-05 06:30:51 0
Slingshot
 
Resource Report
Resource Website
100+ mentions
Slingshot (RRID:SCR_017012) data processing software, software application, software resource Software R package for identifying and characterizing continuous developmental trajectories in single cell data. Cell lineage and pseudotime inference for single-cell transcriptomics. identify, characterize, continuous, developmental, trajectory, single, cell, data, lineage, pseudotime, inference, transcriptomic is used by: Totem California Institute of Regenerative Medicine ;
NCRR S10 RR029668;
NHGRI T32 HG000047;
NIA K01 AG045344;
NIDCD R01 DC007235;
NIMH U01 MH105979;
Siebel Foundation
PMID:29914354 Free, Available for download, Freely available SCR_017012 2026-09-05 06:30:52 102
Open Anatomy Project
 
Resource Report
Resource Website
Open Anatomy Project (RRID:SCR_022141) data or information resource, portal, project portal Project aims to change anatomy atlas by building atlases through open data, community based collaborative development, and free distribution of medical knowledge. Provides access to several 2D and 3D browser based tools. Atlas, Brigham and Women's Hospital in Boston, digital anatomy atlas, open data, community based collaborative development, medical knowledge NCRR ;
NIBIB
Free, Freely available SCR_022141 The Open Anatomy Project 2026-09-05 06:31:00 0
Preprocessing tools for oligonucleotide arrays
 
Resource Report
Resource Website
10+ mentions
Preprocessing tools for oligonucleotide arrays (RRID:SCR_023726) software resource, software toolkit Software R package to analyze oligonucleotide arrays at probe level. Supports Affymetrix (CEL files) and NimbleGen arrays (XYS files). Used for annotation of Affymetrix Gene Array data. analyze oligonucleotide arrays, Affymetrix Gene Array, NimbleGen array, Affymetrix Gene Array data annotation, Brazilian Funding Agency CAPES ;
NCRR R01 RR021967;
NHGRI P41 HG004059
PMID:20688976 Free, Available for download, Freely available SCR_023726 affycoretools 2026-09-05 06:33:15 15
BUSM Mass Spectrometry Resource
 
Resource Report
Resource Website
BUSM Mass Spectrometry Resource (RRID:SCR_000823) Mass Spectrometry Resource biomedical technology research center, training resource Biomedical technology research center that conducts high-sensitivity structural determinations and analyses of biological compounds via mass spectrometry. The emphasis is on glycoconjugates, oligosaccharides and proteins. systems biology technology center, mass spectrometry, glycoconjugate, oligosaccharide, protein has parent organization: Boston University School of Medicine; Massachusetts; USA NCRR P41RR010888 nlx_152679 SCR_000823 Mass Spectrometry Resource for Biology and Medicine, Boston University School of Medicine Mass Spectrometry Resource, Boston University Mass Spectrometry Resource for Biology and Medicine 2026-09-05 06:33:19 0
BioCurrents Research Center
 
Resource Report
Resource Website
BioCurrents Research Center (RRID:SCR_002020) BRC instrument supplier, material resource The BioCurrents Research Center (BRC) is an integrated technology resource of the NIH:NCRR. The activities of the Center focus on molecular physiology as it relates to the cell function and disease. Our particular interest is how the dynamics of cell responses are reflected in the chemical profiles of microdomains surrounding single living cells. In order to measure complex cellular boundary layers, the BRC has specialized in the development of extremely sensitive signal acquisition and processing methods along with miniaturized electrochemical sensor designs. The technique is non-invasive and termed self-referencing. Since its establishment in 1996, the BRC has directed its technological research and development to the design and application of ultra-microelectrodes (tip diameters of less than 10m) tailored for the detection of specific chemicals. These have been successfully applied to the boundary layer profiles of many different cell types, with thematic strength in diabetes research, reproductive health and development (see collaborative profiles). More recently, it is changing its focus to technical developments, enhancing the integrative approach to cell function. To understand a cell as a dynamic and integrated whole, BRC must be able to examine responses from different domains as near to real time and as synchronously as possible. To this end, it is developing imaging capabilities to work in parallel with electrochemistry and conventional electrophysiological techniques. Imaging includes a spinning disc confocal, as well as a low light/luminescent imager designed and built within the BRC. The technologies developed or under development are in high demand within the biomedical community. Over 40 investigators work with the Center each year in a collaborative or service capacity. Over 80 of our visitor pool is NIH funded, representing approximately 25 NIH divisions and institutes. As part of our training and dissemination program we host occasional workshops at major national and international meetings, train a significant number of new investigators each year and host graduate students undertaking portions of their thesis dissertation using our technologies. In dissemination we advise on, and install, electrochemical systems in off campus research endeavors, both academic and industrial. electrochemical, electrochemistry, electrophysiological, function, cell, cellular, chemical, confocal, development, diabetes, disease, health, imager, light, microdomain, microelectrode, physiology, reproductive, research, technique, technology has parent organization: Marine Biological Laboratory
is parent organization of: Pharmabase - an open content cheminformatics resource linking physiology with pharmacology
NCRR P41RR001395 THIS RESOURCE IS NO LONGER IN SERVICE nif-0000-24482 SCR_002020 2026-09-05 06:33:22 0
National Resource for Automated Molecular Microscopy
 
Resource Report
Resource Website
1+ mentions
National Resource for Automated Molecular Microscopy (RRID:SCR_001448) NRAMM biomedical technology research center, training resource Biomedical technology research center that develops, tests and applies technology aimed toward completely automating the processes involved in solving macromolecular structures using cryo-electron microscopy. The goal is to establish a resource that will serve both as a center for high-throughput molecular microscopy as well as for transferring this technique to the research community. Current Core Technology Research and Development is focused on 4 areas: improving grid substrates and specimen preparation; further automation and optimization of image acquisition; development of an integrated single particle analysis and processing pipeline; and the development of automated high throughput EM screening. NRAMM welcomes applications of both collaborative and service projects. macromolecular structure, cryo-electron microscopy, macromolecule, structure, microscopy, automation, high throughput, specimen handling, image acquisition, data processing, data information integration, structural biology technology center NIGMS 9 P41 GM103310;
NCRR 2P41RR017573
THIS RESOURCE IS NO LONGER IN SERVICE nlx_152671 SCR_001448 2026-09-05 06:33:21 2
National Biomedical Center for Advanced ESR Technology
 
Resource Report
Resource Website
1+ mentions
National Biomedical Center for Advanced ESR Technology (RRID:SCR_001444) ACERT biomedical technology research center, training resource Biomedical technology research center that develops methods, both experimental and theoretical, of modern electron spin resonance (ESR) for biomedical applications. Center technologies are applicable to the determination of the structure and complex dynamics of proteins. Principal areas of expertise: * Pulsed Fourier Transform and Two Dimensional ESR * High Frequency-High Field (HFHF) ESR * High Resolution ESR Microscopy * Theory and Computational Methods for Modern ESR Activities include: * making resources available to the biomedical community, * publishing results, * running workshops on the new methodologies, * addressing the need to bring these new technologies to other laboratories. electron spin resonance, spectrometer, electron spin resonance spectrometer, structure, dynamics, protein, structural biology technology center has parent organization: Cornell University; New York; USA NIGMS P41GM103521;
NCRR P41RR016292
Free, Freely Available nlx_152669 SCR_001444 ACERT National ESR Center, National Biomedical Center for Advanced Electron Spin Resonance Technology 2026-09-05 06:33:21 1
Laboratory for Fluorescence Dynamics
 
Resource Report
Resource Website
50+ mentions
Laboratory for Fluorescence Dynamics (RRID:SCR_001437) LFD access service resource, biomedical technology research center, service resource, training resource Biomedical technology research center and training resource that develops novel fluorescence technologies, including instrumentation, methods and software applicable to cellular imaging and the elucidation of dynamic processes in cells. The LFD's main activities are: * Services and Resources: the LFD provides a state-of-the-art laboratory for fluorescence measurements, microscopy and spectroscopy, with technical assistance to visiting scientists. * Research and Development: the LFD designs, tests, and implements advances in the technology of hardware, software, and biomedical applications. * Training and Dissemination: the LFD disseminates knowledge of fluorescence spectroscopic principles, instrumentation, and applications to the scientific community. fluorescence, measurement, microscopy, spectroscopy, biochemistry, cell culture, data analysis, biomolecule, membrane, in-vitro, optical spectroscopy, biological process, tissue culture, fluorescence microscopy, optical and laser technology center has parent organization: University of California at Irvine; California; USA NIGMS 8P41GM103540;
NCRR 5P41RR003155
Restricted nlx_152663 SCR_001437 Laboratory for Fluorescence Dynamics (LFD) 2026-09-05 06:33:21 51

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