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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.

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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 Authority Synonyms Record Last Update Mentions Count
dbPTM: An informational repository of proteins and post-translational modifications
 
Resource Report
Resource Website
100+ mentions
dbPTM: An informational repository of proteins and post-translational modifications (RRID:SCR_007619) data or information resource, database dbPTM is a database that compiles information on protein post-translational modifications (PTM) such as the modified sites, solvent accessibility of surrounding amino acids, protein secondary and tertiary structures, protein domains, and protein variations. The version 2.0 of dbPTM integrates the experimentally validated PTM sites with referable literatures from Swiss-Prot, Phospho.ELM, O-GLYCBASE, and UbiProt. In all of the collected PTM information, about 25 types of PTM with enough experimentally validated sites are trained the profile hidden Markov models (HMMs) to detect the potential PTM sites with 100% specificity against Swiss-Prot proteins. To help users investigating more detail in each type of PTM, the substrate peptide specificity such as positional amino acid frequency, solvent accessibility and secondary structure surrounding the modified sites are also provided. Moreover, the information of orthologous protein clusters is provided to users for analyzing whether the PTM sites located in the evolutionary conserved regions or not., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. protein, protein post-translational modification, ptm THIS RESOURCE IS NO LONGER IN SERVICE nif-0000-02730 SCR_007619 SciCrunch Registry dbPTM 2026-10-31 12:20:19 114
SWISS-MODEL Repository
 
Resource Report
Resource Website
100+ mentions
SWISS-MODEL Repository (RRID:SCR_013032) data or information resource, database Database of annotated three-dimensional comparative protein structure models generated by the fully automated homology-modelling pipeline SWISS-MODEL. protein structure, structural homology, model is listed by: 3DVC
has parent organization: SIB Swiss Institute of Bioinformatics
has parent organization: University of Basel; Basel; Switzerland
is provided by: SWISS-MODEL
nif-0000-03522, r3d100010605 SCR_013032 SciCrunch Registry SWISS-MODEL Repository 2026-10-31 12:20:48 331
Alex's Lemonade Stand Foundation for Childhood Cancer Childhood Cancer Repository
 
Resource Report
Resource Website
1+ mentions
Alex's Lemonade Stand Foundation for Childhood Cancer Childhood Cancer Repository (RRID:SCR_025812) biomaterial supply resource, cell repository, data or information resource, disease-related portal, material resource, portal, topical portal Repository stores tissue samples and uses them to create cell lines. The cell lines and xenografts can be used as model to understand cancers and to test new treatments. Researchers all over the world can request cell lines and models to use in their research. Childhood cancer, tissue samples, create cell lines, xenografts, Childhood Cancer Alexs Lemonade Stand Foundation ;
Cancer Prevention & Research Institute of Texas
https://www.alexslemonade.org/childhood-cancer/for-families/repository SCR_025812 SciCrunch Registry Childhood Cancer Repository 2026-10-31 12:23:44 9
Canadian Tumour Repository Network
 
Resource Report
Resource Website
1+ mentions
Canadian Tumour Repository Network (RRID:SCR_004192) CTRNet biomaterial supply resource, material resource, tissue bank The Canadian Tumour Repository Network (CTRNet) is a not-for-profit consortium of leading provincial tumor banks and programs that furthers Canadian health research. CTRNet provides interested researchers with a streamlined process to obtain quality human tissue and human tissue products from member tumor banks. The benefits of working with CTRNet.ca include: * The ability for researchers to search for quality controlled tissue samples from Canada''''s leading tumor banks in one central location and for biobanks to display and make their biospecimens available for research users. * Learning opportunities in tissue handling, research design and relevant technology training and innovations. * Invitation to CTRNet workshops and conferences. * A resource for current news links and discussion forums about cancer research and tumor banking. The vision of CTRNet is to create new opportunities for translational cancer research that will improve cancer outcomes in Canada and beyond. Through the creation and maintenance of an online pan-Canadian network, researchers will gain unprecedented access to a new and comprehensive source of tissue and clinical data. The network is a sustainable resource and operates according to the highest scientific and ethical standards for research to benefit all Canadians. Currently CTRNet has the following member banks: * CBCF Tumor Bank Alberta * Manitoba Tumour Bank * Ontario Tumour Bank * British Columbia Cancer Agency Tumour Tissue Repository (BCCA-TTR) * Le r��seau de recherche en cancer du FRSQ * NCIC Clinical Trials Group is listed by: One Mind Biospecimen Bank Listing
is related to: British Columbia Tumour Tissue Repository
is related to: Ontario Tumour Bank
is related to: Cancer Research Network of the FRSQ
is related to: Manitoba Breast Tumor Bank
is related to: Canadian Breast Cancer Foundation Tumor Bank
Tumor Canadian Institutes of Health Research nlx_21725 SCR_004192 SciCrunch Registry CTRNet.ca, Canadian Tumor Repository Network 2026-10-31 12:20:03 3
NINDS/UCLA Repository for Parkinson's Disease Mouse Models
 
Resource Report
Resource Website
NINDS/UCLA Repository for Parkinson's Disease Mouse Models (RRID:SCR_007319) PDmice biomaterial supply resource, material resource, organism supplier THIS RESOURCE IS NO LONGER IN SERVICE, documented on April 26, 2011. Information for depositors Investigators who are willing to share mice with the PD research community through this resource should send an email to PDMice_at_ninds.nih.gov describing the mouse. The submission will be reviewed by the PD Models Repository Oversight Committee and, if accepted, a copy of the MTA will be sent by return email. NINDS is most interested in distributing mice that have been characterized in a peer-reviewed publication, but other models will certainly be considered. The email should describe the following: The protocol for identification from tail DNA. The health report of the mice to be shipped (the report has to be less than 2 months old). Information about the strain and any special needs for care and breeding. Information about any publications involving the mice Certification that mice are not encumbered by continuing intellectual property or other rights to any research, data or discovery utilizing the animals. Information for consumers Investigators desiring to study the mice available through the repository should send a request via email to PDMice_at_ninds.nih.gov. Requests will be reviewed by the PD Models Repository Oversight Committee and priority will be determined on a first come, first served basis; two breeding pairs will typically be shipped to any single requester. As detailed in the MTA, mice are not available for commercial research, including but not limited to drug screening. Neither the creator nor UCLA have a role in the governance of the Repository, and specifically, cannot impose conditions upon availability or distribution. It is anticipated that until the Repository is in a mode of steady state production, requests will be collected and mice distributed as supply allows. The email requesting mice should include: A brief description of the protocol Either a copy of the IACUC approval letter or numberNINDS/UCLA Repository for Parkinson's Disease Mouse Models: One of the most immediate and important benefits of discoveries regarding the genetic or environmental causes of Parkinson's disease (PD) is the subsequent development of animal models wherein therapeutic and/or preventative interventions may be studied. The widespread availability of such models is critically important to making progress against a disorder that affects more than 500,000 Americans at any given time. The National Institute of Neurological Disorders and Stroke (NINDS) fully recognizes the burden placed on investigators by the financial and logistical realities of distributing high demand research resources. Some investigators have deposited their mice with national distribution facilities but many mouse models are not available through such resources. Developing means to facilitate greater sharing of mouse models of PD is one of the goals developed by the PD research community at the July 2002 summit meeting convened by the NIH Director. Accordingly, as part of the effort to accelerate PD research, NINDS and the University of California at Los Angeles (UCLA) created a resource that will distribute transgenic mouse models of human PD that are not yet available through national commercial resources. Investigators who are willing to share mice with the PD research community can simply arrange with NINDS to have the mice deposited at UCLA and investigators desiring to study the mice may arrange with NINDS to obtain two breeding pairs. The process will use Material Transfer Agreements created specifically for this arrangement. fbv x 129/sv, fvb/n, 129s4 mix, 129s6/svev, -/-a53t/pac tg alpha, alpha synuclein knockout, bl6, dj-1 knockout, mt human alpha synuclein (a53t), parkin 129s4, synuclein, mouse model is listed by: One Mind Biospecimen Bank Listing
has parent organization: University of California at Los Angeles; California; USA
Parkinson's disease NINDS THIS RESOURCE IS NO LONGER IN SERVICE nif-0000-00187 SCR_007319 SciCrunch Registry 2026-10-31 12:14:48 0
Open Data Commons for Spinal Cord Injury
 
Resource Report
Resource Website
50+ mentions
Open Data Commons for Spinal Cord Injury (RRID:SCR_016673) odc-sci, ODC-SCI data or information resource, data repository, portal, service resource, storage service resource, topical portal Portal for sharing spinal cord injury data from basic and clinical research to promote transparency, rigor and reproducibility. Community based repository for spinal cord injury research. spinal, cord, injury, data, repository is listed by: DataCite
has parent organization: University of California at San Diego; California; USA
has parent organization: University of California; California; USA
Craig H. Neilsen Foundation Free, Registration required r3d100014071 https://doi.org/10.34945/, https://dx.doi.org/10.34945/, https://api.datacite.org/dois?prefix=10.34945, https://doi.org/10.17616/R31NJNCN SCR_016673 SciCrunch Registry , Open Data Commons for Spinal Cord Injury, Open Data Commons at UCSD FDI Lab 2026-10-31 12:16:40 53
The Geoscience Data Exchange
 
Resource Report
Resource Website
1+ mentions
The Geoscience Data Exchange (RRID:SCR_026989) GDEX data repository, service resource, storage service resource Provides data for atmospheric and ocean sciences research. Contains collection of meteorological, atmospheric composition, and oceanographic observations, and operational and reanalysis model outputs, integrated with NSF NCAR High Performance Compute services to support atmospheric and geosciences research. The RDA is managed by the Data Engineering and Curation Services group of the Computational and Information Systems Laboratory at the NSF National Center for Atmospheric Research. atmospheric and ocean sciences data, meteorological, atmospheric composition, oceanographic observation, atmospheric and geosciences research, National Science Fundation Free, Freely available https://rda.ucar.edu SCR_026989 SciCrunch Registry , NSF NCAR Research Data Archive, NCAR repository, National Center for Atmospheric Research repository 2026-10-31 12:24:16 9
Data and Specimen Hub (NICHD DASH)
 
Resource Report
Resource Website
100+ mentions
Data and Specimen Hub (NICHD DASH) (RRID:SCR_016314) NICHD DASH, DASH biospecimen repository, data repository, material storage repository, service resource, storage service resource Repository to store and access de-identified data from NICHD funded research studies for purposes of secondary research use. It serves as mechanism for NICHD-funded extramural and intramural investigators to share research data from studies in accordance with NIH Data Sharing Policy and NIH Genomic Data Sharing Policy. is used by: NIH Heal Project
is recommended by: National Library of Medicine
is listed by: re3data.org
NICHD Restricted r3d100012915 https://doi.org/10.17616/R31NJMGJ SCR_016314 SciCrunch Registry NICHD Data and Specimen Hub, Data and Specimen Hub 2026-10-31 12:16:34 103
HMP Data Analysis and Coordination Center
 
Resource Report
Resource Website
100+ mentions
HMP Data Analysis and Coordination Center (RRID:SCR_004919) HMP DACC data or information resource, data repository, database, service resource, storage service resource Common repository for diverse human microbiome datsets and minimum reporting standards for Common Fund Human Microbiome Project. Repository, diverse, human, microbiome, minimum, reporting, standard, common, fund, microbiome, project, dataset, FASEB list is recommended by: National Library of Medicine
has parent organization: University of Maryland School of Medicine; Maryland; USA
has parent organization: Human Microbiome Project
NIH nlx_88368 SCR_004919 SciCrunch Registry Data Analysis and Coordination Center for the Human Microbiome Project, HMPDACC, Human Microbiome Project Data Analysis and Coordination Center 2026-10-31 12:14:01 239
Image Data Resource (IDR)
 
Resource Report
Resource Website
1+ mentions
Image Data Resource (IDR) (RRID:SCR_017421) IDR data repository, service resource, storage service resource Public repository of reference image datasets from published scientific studies. Platform for publishing, mining and integrating bioimaging data, following FAIR principles and Euro-BioImaging/ELIXIR imaging strategy using OMERO and Bio-Formats open source software built by Open Microscopy Environment. Deployed on OpenStack cloud running on EMBL-EBI’s Embassy resource, it includes image data linked to independent studies from genetic, RNAi, chemical, localisation and geographic high content screens, super resolution microscopy, and digital pathology. Repository, reference, image, published, annotated, dataset, FAIR is recommended by: NIDDK Information Network (dkNET)
is recommended by: NIDDK - National Institute of Diabetes and Digestive and Kidney Diseases
Free, Available for download, Freely available r3d100012435 https://doi.org/10.17616/R3XR0R SCR_017421 SciCrunch Registry Image Data Resource, IDR, Image Data Resource (IDR) 2026-10-31 12:16:58 1
AIRR Data Commons
 
Resource Report
Resource Website
AIRR Data Commons (RRID:SCR_022597) data or information resource, narrative resource, portal, standard specification, topical portal Network of distributed repositories that adhere to standards set out by AIRR Community. This collection contains standards and repositories either created by the AIRR community or approved for use within AIRR community. Network of distributed repositories, repositories that adhere to standards, standards set out by AIRR Community, uses: ImmuneDB
is related to: AIRR Community
is related to: Adaptive Immune Receptor Repertoire Software Guidelines
is related to: Adaptive Immune Receptor Repertoire: Repertoire Schema
is related to: Adaptive Immune Receptor Repertoire Data Commons API Specification
is related to: Minimal information about Adaptive Immune Receptor Repertoires
is related to: Adaptive Immune Receptor Repertoire Data Model
is related to: Adaptive Immune Receptor Repertoire Rearrangement Schema
is related to: iReceptor
Free, Freely available https://fairsharing.org/3526 SCR_022597 SciCrunch Registry 2026-10-31 12:18:40 0
Electron Microscopy Data Bank at PDBe (MSD-EBI)
 
Resource Report
Resource Website
100+ mentions
Electron Microscopy Data Bank at PDBe (MSD-EBI) (RRID:SCR_006506) EMDB at PDBe analysis service resource, data analysis service, data or information resource, data repository, database, production service resource, service resource, storage service resource Repository for electron microscopy density maps of macromolecular complexes and subcellular structures at Protein Data Bank in Europe. Covers techniques, including single-particle analysis, electron tomography, and electron (2D) crystallography. electron microscopy, density map, macromolecule, complex, subcellular structure, single-particle analysis, electron tomography, electron crystallography, macromolecular complex, structure, protein, protein binding, electron, electron configuration, tomography, microscopy, gold standard is used by: DARC - Database for Aligned Ribosomal Complexes
is recommended by: NIDDK Information Network (dkNET)
is recommended by: NIDDK - National Institute of Diabetes and Digestive and Kidney Diseases
is listed by: re3data.org
is related to: EMDataResource.org
is related to: Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB)
has parent organization: PDBe - Protein Data Bank in Europe
NIH Public r3d100010562, nlx_149453 https://doi.org/10.17616/R3HP57 SCR_006506 SciCrunch Registry MSD-EBI, Electron Microscopy Data Bank at Protein Data Bank in Europe, Electron Microscopy DataBank, Electron Microscopy Data Bank at PDBe (MSD-EBI), Electron Microscopy Data Bank at PDBe 2026-10-31 12:14:32 153
National Institute on Aging Genetics of Alzheimer’s Disease Data Storage Site (NIAGADS)
 
Resource Report
Resource Website
50+ mentions
National Institute on Aging Genetics of Alzheimer’s Disease Data Storage Site (NIAGADS) (RRID:SCR_007314) NIAGADS data or information resource, data repository, data set, database, service resource, storage service resource National genetics data repository facilitating access to genotypic and phenotypic data for Alzheimer's disease (AD). Data include GWAS, whole genome (WGS) and whole exome (WES), expression, RNA Seq, and CHIP Seq analyses. Data for the Alzheimer’s Disease Sequencing Project (ADSP) are available through a partnership with dbGaP (ADSP at dbGaP). Repository for many types of data generated from NIA supported grants and/or NIA funded biological samples. Data are deposited at NIAGADS or NIA-approved sites. Genetic Data and associated Phenotypic Data are available to qualified investigators in scientific community for secondary analysis. genetics, alzheimer's disease, genome-wide association study, neurodegenerative disease, genotype, phenotype, late adult human, dna marker, dna sequencing, rna expression, rna, dna, gene is recommended by: National Library of Medicine
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is related to: NIH Data Sharing Repositories
is related to: Allen Institute for Brain Science
has parent organization: University of Pennsylvania Perelman School of Medicine; Pennsylvania; USA
Alzheimer's disease, Late-onset Alzheimer's disease, Aging NIA 3U24AG041689;
NIA U24 AG041689;
NIH Blueprint for Neuroscience Research
nif-0000-00179 http://www.nitrc.org/projects/niagads http://alois.med.upenn.edu/niagads/ SCR_007314 SciCrunch Registry National Institute on Aging, NIA Genetics of Alzheimer's Disease Data Storage Site, Genetics of Alzheimer’s Disease Data Storage Site 2026-10-31 12:14:48 76
NIAID Data Ecosystem Discovery Portal
 
Resource Report
Resource Website
1+ mentions
NIAID Data Ecosystem Discovery Portal (RRID:SCR_027614) data access protocol, software resource, web service Unified search engine for infectious and immune-mediated disease datasets. Enables users to find datasets from biomedical research repositories. It indexes metadata from multiple NIH-funded and generalist repositories. Provides filters, prebuilt queries, and dataset collections to simplify the discovery process for users. The Portal additionally provides documentation and an API for programmatic access to harmonized metadata. search engine, infectious and immune-mediated disease datasets, disease datasets, DOI:10.48550/arXiv.2509.13524 Free, Freely available SCR_027614 SciCrunch Registry Data Ecosystem Discovery Portal 2026-10-31 12:24:33 1
Marine Geosciences Data System MediaBank
 
Resource Report
Resource Website
Marine Geosciences Data System MediaBank (RRID:SCR_006875) MediaBank data or information resource, data repository, image repository, service resource, storage service resource, video resource A collection of high-quality images and videos for education and outreach from the Integrated Earth Data Applications Facility. Albums include: Ridge2000, MARGINS, GeoMapApp, GeoPRISMS, Antarctic and Southern Ocean, Global Multi-Resolution Topography. To contribute your media to Media Bank, you are asked to supply metadata with each image/video supplied. image collection, bathymetry, biology, chemistry, geology, geophysics, hydrothermal vent, instrumentation, photomosaic, physical oceanography, satellite imagery is listed by: CINERGI
has parent organization: Columbia University; New York; USA
NSF Creative Commons Attribution-NonCommercial-ShareAlike License, v3 nlx_154726, r3d100012549 https://doi.org/10.17616/R3VR4N SCR_006875 SciCrunch Registry Media Bank 2026-10-31 12:14:36 0
Human Biological Data Interchange
 
Resource Report
Resource Website
100+ mentions
Human Biological Data Interchange (RRID:SCR_004591) HBDI biospecimen repository, material storage repository, service resource, storage service resource Database of medical history and genealogical data on over 6700 families who are affected by type 1 diabetes and a repository of DNA and immortalized cell lines collected from 500 families. This database and repository was originally created to help researchers uncover the genetic causes of type 1 diabetes but today, it is also used by researchers who study type 2 diabetes, diabetic complications, autoimmune diseases, kidney disease, and other disorders. The following resources and services are available to researchers through HBDI: * International Type 1 Diabetes Database: This database includes more than 6700 families with diabetes, related complications and other genetic diseases. There are extensive genealogical and medical histories for more than 90,000 individuals. NDRI conducts searches of the database for approved research requests. * HBDI Catalog: The catalog contains 503 family pedigrees with associated cell lines, DNA, and serum for research. Also available are HLA-typing and auto-antibody test results for diabetes families in the catalog. * HBDI Repository: The HBDI repository contains cell lines, DNA, and HLA typing information from 480 families, and frozen buffy coats from 23 families, all with Type 1 diabetes. They have recently expanded the repository to include specimens from individuals with rare diseases. * Customized Collections: NDRI will collect data from patients and physicians, conduct phone interviews and collect blood and other specimens for research on request., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. genetics, medical history, genealogical data, type 2 diabetes, diabetic complication, autoimmune disease, kidney disease, disorder, family pedigree, hla typing, frozen, buffy coat, catalog, demographic data, clinical data, autoantibody data, FASEB list is listed by: One Mind Biospecimen Bank Listing
is related to: NIDDK Information Network (dkNET)
has parent organization: National Disease Research Interchange
Type 1 diabetes, Rare disease, Type 2 diabetes, Diabetic complication, Autoimmune disease, Kidney disease, Diabetes NIDDK THIS RESOURCE IS NO LONGER IN SERVICE nlx_143829 SCR_004591 SciCrunch Registry Human Biological Data Interchange (HBDI) 2026-10-31 12:13:52 107
Arctic Data Center
 
Resource Report
Resource Website
1+ mentions
Arctic Data Center (RRID:SCR_024599) data repository, service resource, software repository, software resource, storage service resource Data and software repository for Arctic section of National Science Foundation’s Office of Polar Programs. Repository has CoreTrustSeal certification so that the data can be used, shared, and preserved over long timespan. Helps research community reproducibly preserve and discover all products of NSF funded science in Arctic, including data, metadata, software, documents, and provenance that link these in coherent knowledge model. Initiative is the partnership between National Center for Ecological Analysis and Synthesis at UC Santa Barbara, DataONE, and National Centers for Environmental Information. Arctic, CoreTrustSeal, NSF funded science in Arctic, is listed by: DataCite
has parent organization: University of California; California; USA
works with: National Center for Ecological Analysis and Synthesis
r3d100011973 https://api.datacite.org/dois?prefix=10.18739, https://doi.org/10.17616/R37P98 SCR_024599 SciCrunch Registry NSF Arctic Data Center 2026-10-31 12:19:01 3
Adaptive Immune Receptor Repertoire Data Commons API Specification
 
Resource Report
Resource Website
Adaptive Immune Receptor Repertoire Data Commons API Specification (RRID:SCR_022591) data or information resource, narrative resource, portal, standard specification, topical portal Provides programmatic access to query and download AIRR-seq data. ADC API uses JSON as its communication format, and standard HTTP methods like GET and POST. ADC API is read only and mechanism of inclusion of AIRR-seq studies into data repository is left up to repository. ADC API Specification explains how to construct and execute API requests and interpret API responses. AIRR-seq data programmatic access, AIRR-seq studies, construct and execute API requests, interpret API responses is related to: AIRR Data Commons PMID:29144493 Free, Freely available https://fairsharing.org/FAIRsharing.tzlO4X SCR_022591 SciCrunch Registry 2026-10-31 12:18:49 0
Birkbeck Research Data
 
Resource Report
Resource Website
Birkbeck Research Data (RRID:SCR_023139) data repository, service resource, storage service resource Repository allows all researchers at Birkbeck to upload data, and get DOI.Data in the Birkbeck Data Repository is stored on Arkivum server.This is a very secure storage space, which will allow our data to remain unchanged and accessible for many years after it is deposited. is listed by: DataCite
is listed by: re3data.org
Free, Freely available r3d100012185, DOI:10.18743, DOI:10.17616/R31NJLW9 https://doi.org/10.18743, https://dx.doi.org/10.18743, http://doi.org/10.17616/R31NJLW9, https://doi.org/10.17616/R31NJLW9 SCR_023139 SciCrunch Registry Birkbeck Research Data 2026-10-31 12:18:46 0
Brain Data Standards Ontology
 
Resource Report
Resource Website
1+ mentions
Brain Data Standards Ontology (RRID:SCR_022822) controlled vocabulary, data or information resource, ontology Repository for co-ordinating work on ontologies for Brain Data Standards Project. Automate data driven cell type ontology development for Brain Data Standards initiative. Automate data driven cell type ontology, ontologies for Brain Data Standards Project, Brain Data Standards initiative is used by: BICCN
is related to: Common Cell Type Nomenclature
DOI:10.1101/2021.10.10.463703 Free, Available for download, Freely available SCR_022822 SciCrunch Registry 2026-10-31 12:18:42 1

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