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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | ||||||||||||||
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Creative Peptides Hit Identification in Peptide Drug Discovery Service Resource Resource Report Resource Website |
Creative Peptides Hit Identification in Peptide Drug Discovery Service Resource (RRID:SCR_022122) | service resource | Provides Medium or high-throughput screening to perform rapid screening thousands of samples with biological activities at model organism, cell, pathway, or molecular levels, accelerating target analysis procedure; High content screening to analyze the way peptide compound interacts with target at subcellular level; Fragment screening to obtain higher affinity lead ligands by growing low molecular weight chemical fragments into larger drug like molecules;Virtual screening to automatically evaluate large databases with known 3D structures; Artificial Intelligence for difficult targets to support discovering and developing more drug candidates; Knowledge based design in hit identification;Hits identified by NMR screening. | Creative Peptides, biomedical service, Hit Identification in Peptide Drug Discovery, Hit Identification, Peptide Drug Discovery, | has parent organization: Creative Peptides | Restricted | SCR_022122 | SciCrunch Registry | Hit Identification in Peptide Drug Discovery, Creative Peptides Hit Identification in Peptide Drug Discovery | 2026-10-10 12:41:35 | 0 | |||||||||
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Creative Peptides Target Analysis In Silico Service Resource Resource Report Resource Website |
Creative Peptides Target Analysis In Silico Service Resource (RRID:SCR_022120) | service resource | Services include Binding site identification and druggability assessment, Protein sequence analysis, Protein multiple sequences alignments and selectivity analysis,Analysis of available structural data and protein structure,Homology modeling for targets lacking crystal structures,Design appropriate peptides against specific targets,Water assessment. | Creative Peptides, biomedical service, Target Analysis In Silico, peptides discovery strategy | has parent organization: Creative Peptides | Restricted | SCR_022120 | SciCrunch Registry | Target Analysis In Silico, Creative Peptides Target Analysis In Silico | 2026-10-10 12:42:02 | 0 | |||||||||
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Creative Peptides Target Validation in Peptide Drug Discovery Service Resource Resource Report Resource Website |
Creative Peptides Target Validation in Peptide Drug Discovery Service Resource (RRID:SCR_022119) | service resource | Services include Target analysis in silico, Protein sequence analysis and Homology modeling for targets; Target analysis in bioscience, Cell based models. | Creative Peptides, Target Validation in Peptide Drug Discovery, Target Validation, Peptide Drug Discovery, biomedical service, | has parent organization: Creative Peptides | Restricted | SCR_022119 | SciCrunch Registry | Target Validation in Peptide Drug Discovery, Creative Peptides Target Validation in Peptide Drug Discovery | 2026-10-10 12:41:44 | 0 | |||||||||
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Creative Peptides Peptide Drug Discovery Service Resource Resource Report Resource Website |
Creative Peptides Peptide Drug Discovery Service Resource (RRID:SCR_022118) | service resource | Services include Structure Based Drug Discovery to design and optimize hits compounds using structural information obtained from X-ray crystallography, cryo-EM or NMR; Cell Based Drug Discovery by selecting correct cell models and culture to study pharmacological and biochemical properties; Ligand Based Drug Discovery. | Peptide Drug Discovery, Creative Peptides, biomedical service | has parent organization: Creative Peptides | Restricted | SCR_022220 | SCR_022118 | SciCrunch Registry | Peptide Drug Discovery, Creative Peptides Peptide Drug Discovery | 2026-10-10 12:41:35 | 0 | ||||||||
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Least Bridges Graphs Mathematica package Resource Report Resource Website |
Least Bridges Graphs Mathematica package (RRID:SCR_022115) | data analysis software, data processing software, software application, software resource | Software tool as freely distributed computational method for analyzing distance relationships. | analyzing distance relationships | Free, Freely available | SCR_022115 | SciCrunch Registry | 2026-10-10 12:42:02 | 0 | |||||||||||
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Open Source Brain Resource Report Resource Website 10+ mentions |
Open Source Brain (RRID:SCR_001393) | OSB | data or information resource, data repository, database, service resource, storage service resource | A resource for sharing and collaboratively developing computational models of neural systems. While models can be submitted and developed in any format, the use of open standards such as NeuroML and PyNN is encouraged, to ensure transparency, modularity, accessibility and cross simulator portability. OSB will provide advanced facilities to analyze, visualize and transform models in these formats, and to connect researchers interested in models of specific neurons, brain regions and disease states. Research themes include: Basal ganglia modelling, Cerebellar Granule cell modelling, Cerebellar modelling, Hippocampal modelling, Neocortical modelling, Whole brain models. Additional themes are welcome. | model, neuroml, pynn, computational model, neural system, neuron, disease, data analysis service, visualization, 3d explorer, network, ion channel distribution, ion channel, microcircuit |
uses: PyNN uses: NeuroML is used by: NIF Data Federation is listed by: Integrated Models is related to: neuroConstruct is related to: NWB Explorer is related to: Allen Institute for Brain Science has parent organization: University College London; London; United Kingdom |
Wellcome Trust | Free, Freely Available | nlx_152590 | SCR_001393 | SciCrunch Registry | OpenSourceBrain | 2026-10-10 12:42:04 | 27 | ||||||
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Thermo Fisher: Orbitrap Eclipse nanoLC/MS system Resource Report Resource Website 10+ mentions |
Thermo Fisher: Orbitrap Eclipse nanoLC/MS system (RRID:SCR_022212) | instrument resource | System includes Thermo Orbitrap Eclipse Tribid mass spectrometer and Waters M-Class Acquity nanoUPLC. This platform features sequential acquisition capabilities and multiple fragmentation types, enabling complex, in depth proteomic experiments. | Thermo Orbitrap Eclipse Tribrid mass spectrometer, Waters M-Class Acquity nanoUPLC, instrument, equipment, USEDit | is used by: Stanford University Vincent Coates Foundation Mass Spectrometry Laboratory Core Facility | NIH S10 OD030473 | https://raw.githubusercontent.com/SciCrunch/RRID-Instruments/refs/heads/main/PDF/SCR_022212.pdf | SCR_022212 | SciCrunch Registry | Thermo Orbitrap Eclipse nanoLC/MS, Orbitrap Eclipse nanoLC/MS | 2026-10-10 12:42:04 | 16 | ||||||||
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Creative Biolabs Model Organism Antibodies Service Resource Resource Report Resource Website |
Creative Biolabs Model Organism Antibodies Service Resource (RRID:SCR_022177) | antibody supplier, commercial organization, material resource, reagent supplier | Antibody group provides researchers with functional proteomics research platform. Antibody customization service provider. Custom antibody development team can work with you to create customized antibody solution to meet your specific research needs. Provides monoclonal antibody screening. Prepares monoclonal antibody library to screen monoclonal antibodies for appropriate peptide epitope of each protein. | Creative Biolabs, monoclonal antibody development, Model Organisms for Biomedical Research, functional proteomics, monoclonal antibody screening, biomedical service | has parent organization: Creative Biolabs | Restricted | SCR_022177 | SciCrunch Registry | 2026-10-10 12:41:36 | 0 | ||||||||||
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FusionCatcher Resource Report Resource Website 1+ mentions |
FusionCatcher (RRID:SCR_000060) | data analysis software, data processing software, sequence analysis software, software application, software resource | Software that searches for novel/known fusion genes, translocations, and chimeras in RNA-seq data (paired-end reads from Illumina NGS platforms like Solexa and HiSeq) from diseased samples. | fusion gene, known fusion gene, translocation, chimera, rna-seq data, hiseq, solexa, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools |
DOI:10.1101/011650 | Free, Available for download, Freely available | biotools:fusioncatcher, OMICS_01348 | https://github.com/ndaniel/fusioncatcher/blob/master/doc/manual.md, https://bio.tools/fusioncatcher | http://code.google.com/p/fusioncatcher/ | SCR_000060 | SciCrunch Registry | 2026-10-10 12:41:45 | 9 | ||||||
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ChemChaste Resource Report Resource Website 1+ mentions |
ChemChaste (RRID:SCR_022208) | simulation software, software application, software resource | Software tool for simulating spatially inhomogenous biochemical reaction diffusion systems for modelling cell environment feedbacks. Simulation software for spatially organised biochemical systems. | spatially organised, biochemical systems, simulating biochemical systems, spatially inhomogenous biochemical reaction diffusion systems, modelling cell environment feedbacks | DOI:10.1101/2021.10.21.465304 | Free, Available for download, Freely available | SCR_022208 | SciCrunch Registry | 2026-10-10 12:41:45 | 1 | ||||||||||
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Spacemake Resource Report Resource Website 1+ mentions |
Spacemake (RRID:SCR_022207) | data analysis software, data processing software, software application, software resource | Software pipeline for processing and analysis of large scale spatial transcriptomics data. Enables reproducible data processing from raw sequencing data to automatically generated downstream analysis reports. | spatial dataset, gene counts, large scale spatial transcriptomics data, transcriptomics data, spatial transcriptomics data, raw sequencing data, analysis reports | DOI:10.1101/2021.11.07.467598 | Free, Available for download, Freely available | SCR_022207 | SciCrunch Registry | spacemake | 2026-10-10 12:41:37 | 2 | |||||||||
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vuTools Resource Report Resource Website |
vuTools (RRID:SCR_001704) | vuTools | data processing software, image processing software, software application, software resource | VUIIS (Vanderbilt University Institute of Imaging Science) Image and Data Analysis Core's data processing tools written for MATLAB and, unless stated otherwise, capable of processing 2D/3D images (matrices). These tools are written for ease of use from within MATLAB. | magnetic resonance, matlab |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Vanderbilt University; Tennessee; USA |
Free, Freely Available | nlx_156025 | SCR_001704 | SciCrunch Registry | 2026-10-10 12:41:45 | 0 | ||||||||
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PISCES Resource Report Resource Website 1+ mentions |
PISCES (RRID:SCR_022181) | data access protocol, software resource, web service | Software tool as protein sequence culling server. Used for culling sets of protein sequences from Protein Data Bank (PDB) by sequence identity and structural quality criteria. Can provide lists culled from entire PDB or from lists of PDB entries or chains provided by user. | Fox Chase Cancer Center, protein sequence culling server, protein sequence culling, protein sequences, Protein Data Bank | DOI:10.1093/bioinformatics/btg224 | Free, Freely available | SCR_022181 | SciCrunch Registry | 2026-10-10 12:42:03 | 2 | ||||||||||
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Dissect Resource Report Resource Website |
Dissect (RRID:SCR_000058) | Dissect | alignment software, data processing software, image analysis software, software application, software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 31,2025. Software transcriptome-to-genome alignment tool, which can identify and characterize transcriptomic events such as duplications, inversions, rearrangements and fusions. | Structural events containing transcripts, transcriptome-to-genome alignment, identify and characterize transcriptomic events, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: SourceForge has parent organization: Simon Fraser University; British Columbia; Canada |
PMID:22689759 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_01346, biotools:dissect | https://bio.tools/dissect | SCR_000058 | SciCrunch Registry | Dissect: DIScovery of Structural Events Containing Transcripts, DIScovery of Structural Events Containing Transcripts | 2026-10-10 12:41:37 | 0 | |||||
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Olympus: IX71 Microscope Resource Report Resource Website 1+ mentions |
Olympus: IX71 Microscope (RRID:SCR_022185) | instrument resource | Research inverted system microscope. Olympus IX2 inverted microscope combined with UIS2 optical system. Used for live cell experiments. | Olympus, live cell imaging, inverted microscope, instrument, equipment, USEDit | is listed by: USEDit | Restricted | Model_Number_IX71 | SCR_022185 | SciCrunch Registry | Olympus IX71 | 2026-10-10 12:42:03 | 6 | ||||||||
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Neurolucida Resource Report Resource Website 1000+ mentions |
Neurolucida (RRID:SCR_001775) | data analysis software, data processing software, data visualization software, software application, software resource | Neurolucida is advanced scientific software for brain mapping, neuron reconstruction, anatomical mapping, and morphometry. Since its debut more than 20 years ago, Neurolucida has continued to evolve and has become the worldwide gold-standard for neuron reconstruction and 3D mapping. Neurolucida has the flexibility to handle data in many formats: using live images from digital or video cameras; stored image sets from confocal microscopes, electron microscopes, and scanning tomographic sources, or through the microscope oculars using the patented LucividTM. Neurolucida controls a motorized XYZ stage for integrated navigation through tissue sections, allowing for sophisticated analysis from many fields-of-view. Neurolucidas Serial Section Manager integrates unlimited sections into a single data file, maintaining each section in aligned 3D space for full quantitative analysis. Neurolucidas neuron tracing capabilities include 3D measurement and reconstruction of branching processes. Neurolucida also features sophisticated tools for mapping delineate and map anatomical regions for detailed morphometric analyses. Neurolucida uses advanced computer-controlled microscopy techniques to obtain accurate results and speed your work. Plug-in modules are available for confocal and MRI analysis, 3D solid modeling, and virtual slide creation. The user-friendly interface gives you rapid results, allowing you to acquire data and capture the full 3D extent of neurons and brain regions. You can reconstruct neurons or create 3D serial reconstructions directly from slides or acquired images, and Neurolucida offers full microscope control for brightfield, fluorescent, and confocal microscopes. Its added compatibility with 64-bit Microsoft Vista enables reconstructions with even larger images, image stacks, and virtual slides. Adding the Solid Modeling Module allows you to rotate and view your reconstructions in real time. Neurolucida is available in two separate versions Standard and Workstation. The Standard version enables control of microscope hardware, whereas the Workstation version is used for offline analysis away from the microscope. Neurolucida provides quantitative analysis with results presented in graphical or spreadsheet format exportable to Microsoft Excel. Overall, features include: - Tracing Neurons - Anatomical Mapping - Image Processing and Analysis Features - Editing - Morphometric Analysis - Hardware Integration - Cell Analysis - Visualization Features Sponsors: Neurolucida is supported by MBF Bioscience. | electron microscope, fluorescent, 3d mapping, anatomical, brian, brightfield, camera, confocal, digital, hardware, mapping, microscope, morphometry, neuron, reconstruction, scanning tomographic, software, tissue, virtual, video, image | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | PMID:2224829 | Restricted | nif-0000-10294 | http://www.nitrc.org/projects/neurolucida | http://www.mbfbioscience.com/neurolucida/neurolucida | SCR_001775 | SciCrunch Registry | MBF Neurolucida | 2026-10-10 12:41:38 | 3396 | |||||
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hdf5matlab Resource Report Resource Website |
hdf5matlab (RRID:SCR_003595) | hdf5matlab | software library, software resource, software toolkit | Software library for manipulating neural data files generated in Andreas Tolias Lab. | matlab, neural | has parent organization: BCM Department of Neuroscience Andreas Tolias Lab | nlx_157741 | SCR_003595 | SciCrunch Registry | 2026-10-10 12:41:47 | 0 | |||||||||
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cpnDB: A Chaperonin Database Resource Report Resource Website 1+ mentions |
cpnDB: A Chaperonin Database (RRID:SCR_002263) | cpnDB | analysis service resource, data analysis service, data or information resource, database, production service resource, service resource | A curated collection of chaperonin sequence data collected from public databases or generated by a network of collaborators exploiting the cpn60 target in clinical, phylogenetic and microbial ecology studies. The database contains all available sequences for both group I and group II chaperonins. Users can search the database by Chaperonin type, group (I or II), BLAST, or other options, and can also enter and analyze FASTA sequences. | chaperonin sequence, microbial ecology, phylogenetics, chaperonin, plastid, mitochondria, cytoplasm, sequence, blast, fasta, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian |
Canadian Biotechnology Strategy ; National Research Council Genomics and Health Initiative |
PMID:15289485 | Free, Freely available | biotools:cpndb, OMICS_01511, nif-0000-02694 | https://bio.tools/cpndb | http://www.cpndb.ca/cpnDB/home.php | SCR_002263 | SciCrunch Registry | 2026-10-10 12:41:38 | 4 | ||||
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MEGSIM Resource Report Resource Website |
MEGSIM (RRID:SCR_002420) | MEGSIM | data or information resource, data set, simulation software, software application, software resource | Realistic simulated MEG datasets ranging from basic sensory to oscillatory sets that mimic functional connectivity; as well as basic visual, auditory, and somatosensory empirical sets. The simulated sets were created for the purpose of testing analysis algorithms across the different MEG systems when the truth is known. MEG baseline recordings were obtained from 5 healthy participants, using three MEG systems: VSM/CTF Omega, Elekta Neuromag Vectorview, 4-D Magnes 3600. Simulated signals were embedded within the CTF and Neuromag 306 baseline recordings (4-D to be added). Participant MRIs are available. Averaged simulation files are available as netcdf files. Neuromag 306 averaged simulations are also available in fif format. Also available: single trials of data where the simulated signal is jittered about a mean value, continuous fif files where the simulated signal is marked by a trigger, and simulations with oscillations added to mimic functional connectivity. | eeg, meg, electrocorticography, forward - inverse, mri, meg modeling, model, simulation, os independent, test data, image collection |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Mind Research Network |
NIMH R21MH080141 | PMID:22068921 | Free, Freely available | nlx_155793 | http://www.nitrc.org/projects/megsim | SCR_002420 | SciCrunch Registry | 2026-10-10 12:41:39 | 0 | |||||
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Nervous Tissue Color Images Resource Report Resource Website 10+ mentions |
Nervous Tissue Color Images (RRID:SCR_002416) | data or information resource, image collection | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 13,2026. An image collection of tissue from the central nervous system and peripheral nervous system. | central nervous system, peripheral nervous system, image collection, nervous tissue, color image | has parent organization: University of Delaware; Delaware; USA | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-21281 | SCR_002416 | SciCrunch Registry | University of Delaware Nervous Tissue Color Images, UD Nervous Tissue Color Images | 2026-10-10 12:41:38 | 16 |
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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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