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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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Pharokka Resource Report Resource Website 10+ mentions |
Pharokka (RRID:SCR_026017) | data processing software, software application, data analysis software, source code, software resource | Software fast scalable bacteriophage genome annotation tool. Used to annotate bacteriophage genomes easily, rapidly and consistently with standards compliant outputs. | bacteriophage genome, annotation, bacteriophage genome annotation, | National Health and Medical Research Council Investigator | PMID:36453861 | Free, Available for download, Freely available | SCR_026017 | 2026-08-14 09:29:45 | 10 | |||||||||
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ESTIMATE Resource Report Resource Website 10+ mentions |
ESTIMATE (RRID:SCR_026090) | software application, software resource, source code | Software application provides researchers with scores for tumor purity, level of stromal cells present, and infiltration level of immune cells in tumor tissues based on expression data. | scores, tumor purity, stromal cells, infiltration level, immune cells, tumor tissues, expression data, | Free, Available for download, Freely available, | SCR_026090 | 2026-08-14 09:29:22 | 22 | |||||||||||
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AtomicJ Resource Report Resource Website 1+ mentions |
AtomicJ (RRID:SCR_026023) | image analysis software, data processing software, software application, data analysis software, software resource | Software application for analysis of force microscopy recordings, including images and force curves. Allows for fast and reliable processing of single force curves and force maps, providing estimation of mechanical properties of sample. | force microscopy recordings, images, force curves, analysis, single force curves processing, force maps processing, | Polish Ministry of Science and Higher Education ; European Union structural funds |
PMID:24985823 | Free, Freely available, | SCR_026023 | 2026-08-14 09:29:21 | 4 | |||||||||
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SeuratExtend Resource Report Resource Website 1+ mentions |
SeuratExtend (RRID:SCR_026143) | software toolkit, data processing software, software application, data analysis software, software resource | Software R package that streamlines single-cell RNA-seq analysis by integrating essential tools and databases with the Seurat framework. Provides comprehensive functionality for functional enrichment, trajectory inference, gene regulatory network reconstruction, and enhanced visualization. | single-cell RNA-seq analysis, functional enrichment, trajectory inference, gene regulatory network reconstruction, enhanced visualization, | DOI:10.1101/2024.08.01.606144 | Free, Available for download, Freely available | https://huayc09.github.io/SeuratExtend/ | SCR_026143 | 2026-08-14 09:29:45 | 6 | |||||||||
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McPAS-TCR Resource Report Resource Website 1+ mentions |
McPAS-TCR (RRID:SCR_026024) | database, data or information resource | Manually curated database of T cell receptor sequences associated with various pathologic conditions including pathogen infections, cancer and autoimmunity and their respective antigens in humans and in mice. Links TCR sequences to their target antigen and/or to the organ with which they are associated and subsequent pathologies. Database can be searched by source organism, disease, tissue, T cell type, antigen sequence, MHC class, etc. | Manually curated database, T cell receptor sequences, database of T cell receptor sequences, sequences associated with pathologic conditions, pathogen infections, cancer, autoimmunity, | CORE Program of the Planning and Budgeting Committee ; Israel Science Foundation |
PMID:28481982 | Free, Freely available | SCR_026024 | 2026-08-14 09:29:10 | 5 | |||||||||
|
LUMC Mutalyzer 3 Resource Report Resource Website 50+ mentions |
LUMC Mutalyzer 3 (RRID:SCR_026148) | source code, software application, software resource | Software suite is designed to be of help when working with Human Genome Variation Society sequence variant nomenclature descriptions. | HGVS variant descriptions, Human Genome Variation Society variant, HGVS, sequence variant, | Free, Available for download, Freely available | SCR_026148 | Mutalyzer 3 | 2026-08-14 09:29:23 | 78 | ||||||||||
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North American Association of Central Cancer Registries Resource Report Resource Website 1+ mentions |
North American Association of Central Cancer Registries (RRID:SCR_026199) | NAACCR | standard specification, portal, data or information resource, organization portal, narrative resource | Professional organization that develops and promotes uniform data standards for cancer registration. Provides education and training, certifies population-based registries, aggregates and publishes data from central cancer registries and promotes the use of cancer surveillance data and systems for cancer control and epidemiologic research, public health programs, and patient care to reduce the burden of cancer in North America. Data Standards and Data Dictionary is intended for hospital and central cancer registries, programmers, and analysts. It provides detailed specifications and codes for each data item in the NAACCR data exchange record layout. | Data Standards, Data Dictionary, uniform data standards, cancer registration, specifications and codes, | Free, Freely available | SCR_026199 | North American Association of Central Cancer Registries (NAACCR) | 2026-08-14 09:29:12 | 2 | |||||||||
|
pRNASeqTools Resource Report Resource Website 10+ mentions |
pRNASeqTools (RRID:SCR_026232) | software toolkit, source code, software resource | Software integrated pipeline for plant NGS analysis. | Integrated High-throughput Sequencing Data Analysis, High-throughput Sequencing Data, plant NGS analysis, | Free, Available for download, Freely available | SCR_026232 | 2026-08-14 09:29:13 | 12 | |||||||||||
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Wuxi AppTec Resource Report Resource Website 1+ mentions |
Wuxi AppTec (RRID:SCR_026235) | service resource, commercial organization | Pharmaceutical, biopharmaceutical, and medical device company founded in December 2000 in Shanghai. Contract research organization. | Pharmaceutical, biopharmaceutical, medical device, company | SCR_026235 | 2026-08-14 09:29:46 | 1 | ||||||||||||
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University of Kentucky Research Mass Spectrometry and Proteomics Core Facility Resource Report Resource Website 1+ mentions |
University of Kentucky Research Mass Spectrometry and Proteomics Core Facility (RRID:SCR_026359) | service resource, access service resource, core facility | Mass spectrometry core lab performing proteomics, small molecule, and lipidomic analyses. Provides access to advanced analytical equipment for quantitation and structural analysis. Offers assistance in sample preparation, method development, acquisition, and data analysis. | ABRF, mass spectrometry, proteomics, small molecules, lipidomics, quantitation and structural analysis, analytical equipment, |
is listed by: ABRF CoreMarketplace has parent organization: University of Kentucky; Kentucky; USA |
ABRF_3034 | https://coremarketplace.org/?FacilityID=3034&citation=1 | SCR_026359 | , University of Kentucky Research Mass Spectrometry and Proteomics Core, Research Mass Spectrometry and Proteomics Core | 2026-08-14 09:29:26 | 3 | ||||||||
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University of Texas MD Anderson Cancer Genomics Library Core Facility Resource Report Resource Website 1+ mentions |
University of Texas MD Anderson Cancer Genomics Library Core Facility (RRID:SCR_026237) | service resource, access service resource, core facility | Facility for sequencing samples for the MD Anderson Cancer Center. | sequencing, sequencing samples, MD Anderson Cancer Center, cancer, genomics, | has parent organization: University of Texas System; Texas; USA | Restricted | SCR_026237 | , University of Texas MD Anderson Cancer Genomics Library, Cancer Genomics Library, MD Anderson Cancer Genomics Library | 2026-08-14 09:29:24 | 1 | |||||||||
|
University of Liverpool Egg Facility (LIV-SRF) Resource Report Resource Website 1+ mentions |
University of Liverpool Egg Facility (LIV-SRF) (RRID:SCR_026195) | service resource, access service resource, core facility | Through the use of fertilised hen's eggs, the Egg Facility offers researchers methods for scientific research that can reduce or replace the use of mammalian models. It provides expertise in chorioallantoic membrane assays, specialising in cancer xenograft models, including patient-derived xenografts, to translate in vitro cancer studies and test therapeutic approaches. | CAM assay, chorioallantoic membrane, xenograft, patient-derived xenografts, egg |
is listed by: ABRF CoreMarketplace has parent organization: University of Liverpool; Liverpool; United Kingdom |
ABRF_2998 | https://coremarketplace.org/?FacilityID=2998&citation=1 | SCR_026195 | University of Liverpool Egg Core Facility, Egg Facility, LIV-SRF Egg Facility, University of Liverpool Egg Facility | 2026-08-14 09:29:12 | 2 | ||||||||
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TIDE Resource Report Resource Website 50+ mentions |
TIDE (RRID:SCR_026350) | data or information resource, web application, software resource | Web platform for large-scale public data reuse to model immunotherapy response and resistance. Provides integrated large-scale omics data and biomarkers on published ICB trials, non-immunotherapy tumor profiles, and CRISPR screens. | public data reuse, model immunotherapy, response and resistance, integrated large-scale omics data and biomarkers, | PMID:32102694 | Restricted | SCR_026350 | Tumor Immune Dysfunction and Exclusion | 2026-08-14 09:29:26 | 87 | |||||||||
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Montana State University Research Cyberinfrastructure Core Facility Resource Report Resource Website 10+ mentions |
Montana State University Research Cyberinfrastructure Core Facility (RRID:SCR_026229) | RCI | service resource, access service resource, core facility | Core provides centralized support, systems, and services for IT specific to research. Systems and services include areas of high-performance computing, virtual machine hosting, large scale storage, and high-performance networking and data transfer.Provides MSU researchers with consulting on technology budgets and implementation for grants and support for IT components of major research instrumentation, software, and specialized or unique research technology needs. | ABRF, high-performance computing, virtual machine hosting, large scale storage, high-performance networking, data transfer, |
is listed by: ABRF CoreMarketplace has parent organization: Montana State University |
Restricted | ABRF_2995 | https://coremarketplace.org/?FacilityID=2995&citation=1 | SCR_026229 | Montana State University - Research Cyberinfrastructure | 2026-08-14 09:29:46 | 10 | ||||||
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Northwestern University Keck Interdisciplinary Surface Science Core Facility Resource Report Resource Website 10+ mentions |
Northwestern University Keck Interdisciplinary Surface Science Core Facility (RRID:SCR_026360) | Keck-II | service resource, access service resource, core facility | Core facilitates research, collaboration, education and outreach in all science from soft biological matter to hard physical matter, specializing in surface analysis and nano-scale characterization. Instruments include Time-of-Flight Secondary Ion Mass Spectrometry (ToF-SIMS), X-ray Photoelectron Spectroscopy (XPS), Fourier Transform Infrared Spectroscopy (FT-IR), Confocal Raman System, High Resolution Stylus Profilometer, 3D Optical Microscope, Spectroscopic Ellipsometer, and Zetasizer.Staff provides hand-on training, collaboration and assistance. | ABRF, soft biological matter, hard physical matter, surface analysis, nano-scale characterization, |
is listed by: ABRF CoreMarketplace has parent organization: Northwestern University; Illinois; USA |
Open | ABRF_707 | https://coremarketplace.org/?FacilityID=707&citation=1 | SCR_026360 | Keck Interdisciplinary Surface Science Facility (Keck-II), Northwestern University Keck Interdisciplinary Surface Science Facility (Keck-II) | 2026-08-14 09:29:15 | 12 | ||||||
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Protected Planet Resource Report Resource Website 10+ mentions |
Protected Planet (RRID:SCR_026240) | data or information resource, portal, nonprofit organization, organization portal | Provides data on protected areas and other effective area-based conservation measures, updated monthly with submissions from governments, non-governmental organizations, landowners and communities.Through Protected Planet website, users can explore World Database on Protected Areas (WDPA), World Database on OECMs, Global Database on Protected Area Management Effectiveness (GD-PAME), and associated information. | protected areas, conservation measures, World Database on Protected Areas, World Database on OECMs, Global Database on Protected Area Management Effectiveness, | SCR_026240 | 2026-08-14 09:29:13 | 45 | ||||||||||||
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Montana State University Nuclear Magnetic Resonance Core Facility Resource Report Resource Website 1+ mentions |
Montana State University Nuclear Magnetic Resonance Core Facility (RRID:SCR_026334) | service resource, access service resource, core facility | Core provides open access availability to NMR spectroscopy instrumentation, training and sample preparation. Facility can be accessed individually or as full service center. NMR Facility has a total space of ~2,500 sq ft. divided among 3 rooms fully constructed with considerations for cooling, in-place floor dampening infrastructure and space for wet lab/sample preparation. Facility specializes in small molecule structure determination, small molecule characterization, biomolecular/protein structure determination, qualitative and quantitative NMR analysis, and small molecule purification from wide variety of sample sources. | ABRF, NMR spectroscopy, instrumentation, training, sample preparation, |
is listed by: ABRF CoreMarketplace has parent organization: Montana State University |
ABRF_3013 | https://coremarketplace.org/?FacilityID=3013&citation=1 | SCR_026334 | , Montana State University - Nuclear Magnetic Resonance Facility, Montana State University Nuclear Magnetic Resonance Facility | 2026-08-14 09:29:47 | 5 | ||||||||
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scVital Resource Report Resource Website 1+ mentions |
scVital (RRID:SCR_026215) | source code, software application, software resource | Software tool to embed scRNA-seq data into species-agnostic latent space to overcome batch effect and identify cell states shared between species. Deep learning algorithm for cross-species integration of scRNA-seq data. | embed scRNA-seq data, species-agnostic latent space, overcome batch effect, identify cell states shared between species, cross-species integration, scRNA-seq data, | NIA R01 AG054720; NCI K08 CA267072; NCI R01 CA290400; NCI P30 CA08748 |
DOI:10.1101/2024.12.20.629285 | Free, Available for download, Freely available | SCR_026215 | 2026-08-14 09:29:24 | 1 | |||||||||
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Benaroya Research Institute Cell and Tissue Analysis Group Core Facility Resource Report Resource Website 1+ mentions |
Benaroya Research Institute Cell and Tissue Analysis Group Core Facility (RRID:SCR_026327) | CATA | service resource, access service resource, core facility | Core offers flow cytometry, imaging, and histology resources.Provides expertise in the fields of imaging, histology, and flow cytometry, physical space and instruments, critical support through the whole process, from hands-on training to experiment design and data analysis. | ABRF, flow cytometry, imaging, histology resources, |
is listed by: ABRF CoreMarketplace has parent organization: Benaroya Research Institute |
Open | ABRF_3011 | https://coremarketplace.org/?FacilityID=3011&citation=1 | SCR_026327 | Benaroya Research Institute Cell and Tissue Analysis Group, , Cell and Tissue Analysis Group | 2026-08-14 09:29:14 | 4 | ||||||
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spatialSNV Resource Report Resource Website 1+ mentions |
spatialSNV (RRID:SCR_026221) | data processing software, software application, data analysis software, source code, software resource | Software tool for calling and analyzing SNVs from spatial transcriptomics data. | calling and analyzing SNVs, spatial transcriptomics data, SNV, Single Nucleotide Variant, | Free, Available for download, Freely available | SCR_026221 | 2026-08-14 09:29:24 | 1 |
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