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SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.
| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | ||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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GraphClust2 Resource Report Resource Website 1+ mentions |
GraphClust2 (RRID:SCR_017286) | data analysis software, data processing software, software application, software resource, web application | Software tool for scalable clustering of RNAs based on sequence and secondary structures similarities. Implemented within Galaxy framework. Used for studying RNA function. | scalable, clustering, RNA, sequence, secondary, structure, function, bio.tools |
is listed by: Debian is listed by: bio.tools has parent organization: University of Freiburg; Baden-Wurttemberg; Germany |
German Federal Ministry of Education and Research ; German Research Foundation Collaborative Research Centre 992 Medical Epigenetics |
PMID:31808801 PMID:22689765 |
Free, Available for download, Freely available | biotools:GraphClust2 | https://bio.tools/GraphClust2 | SCR_017286 | SciCrunch Registry | GraphClust, GraphClust-2 | 2026-09-26 02:15:59 | 4 | |||||
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University of Cambridge Department of Plant Sciences Bioinformatics Core Facility Resource Report Resource Website |
University of Cambridge Department of Plant Sciences Bioinformatics Core Facility (RRID:SCR_017164) | University of Cambridge Bioinformatics Core Facility | access service resource, analysis service resource, core facility, data analysis service, production service resource, service resource | Core provides assistance in data analysis to support members of Plant Sciences. | bioinformatics, data, analysis, service | has parent organization: University of Cambridge; Cambridge; United Kingdom | SCR_017164 | SciCrunch Registry | Department of Plant Sciences, Core Facility, Bioinformatics, University of Cambridge | 2026-09-26 02:15:55 | 0 | |||||||||
|
redbiom Resource Report Resource Website 1+ mentions |
redbiom (RRID:SCR_017285) | analysis service resource, data analysis service, data analysis software, data processing software, production service resource, service resource, software application, software resource | Software tool for allowing samples that contain microbiome features to be rapidly identified. Rapid sample discovery and feature characterization system. Integrated with existing analysis tools to enable fast, large scale microbiome searches and discovery of new microbiome relationships. Service for sample metadata and sample data. | microbiome, feature, identify, characterize, analysis, metadata, sample, data | PMID:31239397 | Free, Available for download, Freely available | SCR_017285 | SciCrunch Registry | 2026-09-26 02:15:57 | 5 | ||||||||||
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UCSF Gladstone Institutes Bioinformatics Core Facility Resource Report Resource Website |
UCSF Gladstone Institutes Bioinformatics Core Facility (RRID:SCR_017178) | UCSF Gladstone Institutes Bioinformatics Core | access service resource, analysis service resource, core facility, data analysis service, data or information resource, production service resource, service resource, software resource, training service resource | Core provides consulting services, sequencing, data analysis, and programming assistance. Used for Experimental Design and Power Analysis Consultation, RNA-seq, ChIP-seq, ATAC-seq analysis, Statistics consulting, Variant calling, Data normalization across multiple projects, General programming, Custom Figures for publication, tutorials for learning common software tools. | Bioinformatics, consulting, data, analysis, sequencing, RNA-seq, DNA-seq, ChIP-seq, ATAC-seq, statistics, variant, calling, normalization | Open | SCR_017178 | SciCrunch Registry | Bioinformatics Core, Gladstone Core Services, University California San Fransisco, UCSF, Gladstone Institutes | 2026-09-26 02:15:55 | 0 | |||||||||
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Excel Statistics Resource Report Resource Website 10+ mentions |
Excel Statistics (RRID:SCR_017294) | data analytics software, software application, software resource, software toolkit | Software tool for statistical analysis by BellCurve that adds statistical analysis methods to Excel menu . | statistical, analysis, BellCurve, Excell | Restricted | SCR_017294 | SciCrunch Registry | 2026-09-26 02:15:57 | 29 | |||||||||||
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SerialEM Resource Report Resource Website 100+ mentions |
SerialEM (RRID:SCR_017293) | data acquisition software, data processing software, software application, software resource | Software tool for automated EM data acquisition. Used for efficient tilt series acquisition and interface for image capture, display, and storage and for control of some aspects of microscope function. | automated, data, acquisition, tilt, image, capture, display, storage, microscope | NCRR RR00592; NIGMS P01 GM61306 |
PMID:16182563 | Restricted | SCR_017293 | SciCrunch Registry | 2026-09-26 02:15:59 | 228 | |||||||||
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University of Manchester Bioinformatics Core Facility Resource Report Resource Website 1+ mentions |
University of Manchester Bioinformatics Core Facility (RRID:SCR_017171) | Manchester Bioinformatics Facility | access service resource, analysis service resource, core facility, data analysis service, production service resource, service resource, software resource | Core provides assistance in integrative analysis of genomic datasets to support faculty. | bioinformatics, analysis, genomic, data, dataset | has parent organization: University of Manchester; Manchester; United Kingdom | Restricted | SCR_017171 | SciCrunch Registry | , Bioinformatics Facility, University of Manchester, Bioinformatics Core Facility | 2026-09-26 02:15:55 | 2 | ||||||||
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Max Planck Institiute of Immunobiology and Epigenetics; Freiburg; Germany Resource Report Resource Website |
Max Planck Institiute of Immunobiology and Epigenetics; Freiburg; Germany (RRID:SCR_017170) | data or information resource, organization, portal, topical portal | Interdisciplinary research institute that conducts basic research in modern immunobiology, developmental biology and epigenetics. | Institution, immunobiology, developmental, biology, epigenetics, research, Germany | is parent organization of: Max Planck Institiute of Immunobiology and Epigenetics Bioinformatics Core Facility | Wikidata Q1912076, GRID grid.429509.3, ISNI 0000 0004 0491 4256 | https://ror.org/058xzat49 | SCR_017170 | SciCrunch Registry | 2026-09-26 02:15:57 | 0 | |||||||||
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TWOSEX-MSChart Resource Report Resource Website 10+ mentions |
TWOSEX-MSChart (RRID:SCR_017298) | data analysis software, data processing software, software application, software resource | Software tool used to conduct life table analysis focused on development of cohort or population for animal species with two sexes. Parent organization is National Chung Hsing University, Taichung, Taiwan. | life, table, analysis, development, cohort, population, animal, species, sex | Restricted | SCR_017298 | SciCrunch Registry | 2026-09-26 02:15:59 | 14 | |||||||||||
|
Vall dHebron Institut de Recerca Statistics and Bioinformatics Unit Core Facility Resource Report Resource Website |
Vall dHebron Institut de Recerca Statistics and Bioinformatics Unit Core Facility (RRID:SCR_017175) | UEB | access service resource, analysis service resource, core facility, data analysis service, data or information resource, production service resource, service resource, software resource, training service resource | Core at Vall dHebron Institut de Recerca, Barcelona, Spain to provide data analysis, softwares and training programs in statistics and bioinformatics for clinical research at VHIR. | bioinformatics, next, generation, sequencing, data, analysis, DNA, RNA, omics, microarray, RTqPCR, metagenomics, methylation | Restricted | SCR_017175 | SciCrunch Registry | , Barcelona, Vall dHebron Institut de Recerca, Support Unit in Methodology for Biomedical Research, UEB, Statistics and Bioinformatics Unit, USMIB | 2026-09-26 02:15:57 | 0 | |||||||||
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Protomo Resource Report Resource Website 1+ mentions |
Protomo (RRID:SCR_017296) | data processing software, image processing software, software application, software resource | Software tool for electron tomography and 3D image processing. Software package used in electron tomography for marker free alignment and 3D reconstruction of tilt series. Tomography software package distributed for linux operating system and developed by Hanspeter Winkler. | electron, tomography, 3D, image, processing | NIGMS GM30598; NIGMS GM64346 |
PMID:16973379 | Restricted | SCR_017296 | SciCrunch Registry | 2026-09-26 02:15:57 | 5 | |||||||||
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Duke University Omics Data Analysis Core Facility Resource Report Resource Website |
Duke University Omics Data Analysis Core Facility (RRID:SCR_017174) | access service resource, analysis service resource, core facility, data analysis service, data or information resource, production service resource, service resource, training service resource | Genomic Analysis and Bioinformatics core for data analysis associated with performing complex and data intensive projects in life science research of Duke University and Duke Medical School. Provides expertise, training, data analysis in next generation sequencing, array and proteomic based technologies. | bioinformatics, data, analysis, training, expertise, next, generation, sequencing, array, proteomic, omics | has parent organization: Duke University; North Carolina; USA | Restricted | SCR_017174 | SciCrunch Registry | Analysis Core, Resource, Core Facility, Genomic Analysis and Bioinformatics, Duke University, Omics Data | 2026-09-26 02:15:55 | 0 | |||||||||
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TOMO3D Resource Report Resource Website 1+ mentions |
TOMO3D (RRID:SCR_017295) | data processing software, image analysis software, image reconstruction software, software application, software resource | Software tool for fast tomographic reconstruction on multicore computers. Used for electron tomography studies with increasing resolution needs. | tomographic, reconstruction, multicore, computer, electron, resoulion | ERDF | PMID:25528570 | Restricted | SCR_017295 | SciCrunch Registry | 2026-09-26 02:15:57 | 6 | |||||||||
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BICCN Cell Registry Resource Report Resource Website 10+ mentions |
BICCN Cell Registry (RRID:SCR_017267) | data or information resource | Searchable table of datasets. Data generated from projects through BRAIN Initiative Cell Census Network. Datasets can be filtered by species, research investigator, grant number or experimental technique. Includes links to data directories at data archives and links to protocols. | data, dataset, brain, initiative, cell, registry |
is related to: BRAIN Cell Data Center is related to: BRAIN Cell Data Center has parent organization: Allen Institute for Brain Science is provided by: BICCN |
NIH | Free, Freely available, Available for download | http://www.brainimagelibrary.org/download.html, https://nemoarchive.org/resources/data-download.php | SCR_017267 | SciCrunch Registry | BRAIN Initiative Cell Census Network Cell Registry, BICCN Cell Registry | 2026-09-26 02:15:57 | 13 | |||||||
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Suiplus: SSA-II sperm analysis system Resource Report Resource Website 1+ mentions |
Suiplus: SSA-II sperm analysis system (RRID:SCR_017387) | instrument resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on December 1, 2023. System developed under guidance of experts in reproduction and andrology from Andrological Branch of Chinese Medical Association and Research Institute of National Health Planning Commission. Designed according to standard of 5th edition of World Health Organization laboratory manual for examination and processing of human semen. | Reproduction, andrology, Chinese, medical, association, examination, processing, human, semen, Beijing Suijia Software Co., Ltd. | THIS RESOURCE IS NO LONGER IN SERVICE | SCR_017387 | SciCrunch Registry | 2026-09-26 02:15:58 | 1 | |||||||||||
|
University of Florida Department of Chemistry Nuclear Magnetic Resonance Core Facility Resource Report Resource Website |
University of Florida Department of Chemistry Nuclear Magnetic Resonance Core Facility (RRID:SCR_017382) | NMR Facility, UF NMR Facility | access service resource, core facility, degree granting program, postdoctoral program resource, service resource, training resource, training service resource, undergraduate program resource | Facility serves students and faculty of University of Florida, and researchers from industry who use facility instruments to check outcome of reactions or characterize compounds. Instruments include Inova 500 MHz magnet with 2 RF Channels, Inova 500 MHz magnet with 3 RF Channels, Mercury 300 MHz (m4n and m8n), Mercury 300 MHz Broadband, Agilent 600 MHZ Magnet, and several NMR probes. | Laboratory portal, Biochemistry, Chemistry, NMR, NMR instrument, NMR Imaging and Localized Spectroscopy, Nuclear Magnetic Resonance, University of Florida, National High Magnetic Field Laboratory | has parent organization: University of Florida; Florida; USA | Restricted | https://nmr.chem.ufl.edu/trainings/, https://nmr.chem.ufl.edu/safety/, https://nmr.chem.ufl.edu/nmr-policies/, | SCR_017382 | SciCrunch Registry | UF Department of Chemistry NMR Facility | 2026-09-26 02:15:58 | 0 | |||||||
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brainGraph Resource Report Resource Website 10+ mentions |
brainGraph (RRID:SCR_017260) | data analysis software, data processing software, software application, software resource | Software R package for performing graph theory analyses of brain MRI data. | graph, theory, analysis, brain, MRI, data |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: CRAN |
Free, Available for download, Freely available | https://www.nitrc.org/projects/braingraph/, https://rdrr.io/cran/brainGraph/, https://www.r-pkg.org/pkg/brainGraph | SCR_017260 | SciCrunch Registry | brainGraph - Graph Theory Analysis of Brain MRI Data in R, brainGraph | 2026-09-26 02:15:59 | 16 | ||||||||
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Morpheus by Broad Institute Resource Report Resource Website 1000+ mentions |
Morpheus by Broad Institute (RRID:SCR_017386) | data analysis software, data processing software, data visualization software, service resource, software application, software resource | Software tool for versatile matrix visualization and analysis. Program to generate heatmaps from input data. JavaScript matrix visualization and analysis. | Matrix, visualization, analysis, heatmap, input, data, Java | has parent organization: Broad Institute | Free, Available for download, Freely available | https://github.com/cmap/morpheus.js | SCR_017386 | SciCrunch Registry | 2026-09-26 02:16:01 | 2141 | |||||||||
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Glomerular Disease Study & Trial Consortium Resource Report Resource Website 1+ mentions |
Glomerular Disease Study & Trial Consortium (RRID:SCR_017264) | GlomCon | consortium, data or information resource, disease-related portal, organization portal, portal, topical portal | Consortium to bring together clinicians, pathologists, researchers, and biotech innovators to create scalable network of stakeholders interested in helping patients with glomerular kidney disease. Makes collective expertise of its members available for discussion of individual cases, provides infrastructure for biomarker studies, enables genomic research, and facilitates clinical trials. | glomerular, kidney, disease, biomarker, genomic, clinical, trial | glomerular kidney disease | Restricted | SCR_017264 | SciCrunch Registry | 2026-09-26 02:15:59 | 4 | |||||||||
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SynapseLocator Resource Report Resource Website 1+ mentions |
SynapseLocator (RRID:SCR_017263) | data processing software, image processing software, software application, software resource | Software tool that combines steps of image processing, non rigid image registration, and spot localisation. Performs registration of 3D imaging data and localization of spots, active synapses in light microscopy images, in semi automatic mode with graphical user interface. | image, processing, registration, spot, localisation, 3D, data, active, synapses, microscopy |
is related to: MATLAB is related to: Fiji |
DOI:https://doi.org/10.1101/538041 | Free, Available for download, Freely available | SCR_017263 | SciCrunch Registry | 2026-09-26 02:15:56 | 1 |
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