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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | ||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Gregory Fleming James Cystic Fibrosis Research Center Resource Report Resource Website |
Gregory Fleming James Cystic Fibrosis Research Center (RRID:SCR_015392) | access service resource, data or information resource, disease-related portal, portal, resource, service resource, topical portal | Research center that maintains core facilities available for studies of cell biology, ion transport, and translational aspects of cystic fibrosis research. | cystic fibrosis foundation, ion transport, cell biology, cystic fibrosis research center |
is listed by: NIDDK Information Network (dkNET) has parent organization: University of Alabama at Birmingham School of Medicine; Alabama; USA is parent organization of: Gregory Fleming James Cystic Fibrosis Research Center Assay Core is parent organization of: Gregory Fleming James Cystic Fibrosis Research Center Cystic Fibrosis Clinical and Translational Core is parent organization of: Gregory Fleming James Cystic Fibrosis Research Center Cystic Fibrosis Transmembrane Conductance Regulator Expression Core is parent organization of: Gregory Fleming James Cystic Fibrosis Research Center Cystic Fibrosis Animal Models Core is parent organization of: Gregory Fleming James Cystic Fibrosis Research Center Cell Model and Evaluation Core has organization facet: Gregory Fleming James Cystic Fibrosis Research Center Assay Core has organization facet: Gregory Fleming James Cystic Fibrosis Research Center Cell Model and Evaluation Core has organization facet: Gregory Fleming James Cystic Fibrosis Research Center Cystic Fibrosis Animal Models Core has organization facet: Gregory Fleming James Cystic Fibrosis Research Center Cystic Fibrosis Clinical and Translational Core has organization facet: Gregory Fleming James Cystic Fibrosis Research Center Cystic Fibrosis Transmembrane Conductance Regulator Expression Core is organization facet of: Cystic Fibrosis Research and Translation Centers |
Cystic Fibrosis | NIDDK P30DK072482; Cystic Fibrosis Foundation |
Available to the research community | SCR_015392 | SciCrunch Registry | 2026-10-10 12:40:03 | 0 | ||||||||
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Template Project Resource Report Resource Website |
Template Project (RRID:SCR_015516) | NIAG | data or information resource, organization portal, portal, project portal | Project to house templates used to build other projects. It is also known as the NeuroImaging and Analysis Group, which employs various physiological, functional and structural neuroimaging methodologies in both research and clinical domains. | template, project template, project-building, neuroimaging, analysis | SCR_015516 | SciCrunch Registry | NeuroImaging and Analysis Group | 2026-10-10 12:39:40 | 0 | ||||||||||
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Mixed Effect Model of Genetic-Set and Environment Interaction Resource Report Resource Website |
Mixed Effect Model of Genetic-Set and Environment Interaction (RRID:SCR_015514) | data or information resource, model, software resource, software toolkit | MATLAB Toolbox which provides a mixed effect model for gene-environment interaction (MixGE) on neuroimaging phenotypes, such as structural volumes and tensor-based morphometry (TBM). This model incorporates both fixed and random effects of genetic-set and environment interaction in order to investigate homogeneous and heterogeneous contributions of sets of genetic variants and their interactions with environmental risks to phenotypes. | gene environment interaction, gene environment interaction model, neuroimaging phenotype |
uses: MATLAB is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: National University of Singapore; Singapore; Singapore |
Singapore National Research Foundation Singapore-NMRC/TCR/004-NUS/2008; Singapore National Research Foundation Singapore-NMRC/TCR/012-NUHS/2014; Singapore Ministry of Health National Medical Research Council NMRC/CBRG/0039/2013; Singapore Ministry of Education Academic Research Fund Tier 2 MOE2012-T2-2-130 |
Free for non-commercial use | SCR_015514 | SciCrunch Registry | Mixed Effect Model of Genetic Set and Environment Interaction, Mixed Effect Model of Genetic Set and Environment Interaction Toolbox, MixGE Toolbox | 2026-10-10 12:39:33 | 0 | ||||||||
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TurboFIRE Resource Report Resource Website 1+ mentions |
TurboFIRE (RRID:SCR_015518) | data analysis software, data processing software, software application, software resource | Real-time task-based and resting-state fMRI analysis software. This software is developed and distributed to researchers by NeurInsight LLC. | fmri, fmri analysis, resting-state | Available to affiliated researchers | SCR_015518 | SciCrunch Registry | 2026-10-10 12:40:05 | 4 | |||||||||||
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BZ 9000 Fluorescence Microscope Resource Report Resource Website 10+ mentions |
BZ 9000 Fluorescence Microscope (RRID:SCR_015486) | Microscope system performs fluorescence, bright-field and phase-contrast imaging on various specimen holders. The system allows users to switch between four fluorescent channels, automatically adjusting the filter and exposure time while preserving the longevity of the specimen. | microscope, fluorescence microscope, fluorescence microscopy | Commercially available | https://www.photonics.com/Product.aspx?PRID=47416 | SCR_015486 | SciCrunch Registry | BZ-9000 Fluorescence Microscope | 2026-10-10 12:40:04 | 15 | ||||||||||
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StatCheck Resource Report Resource Website 10+ mentions |
StatCheck (RRID:SCR_015487) | authoring tool, software application, software resource, web application | Statistical checking software for psychology manuscripts. Users can upload APA-formatted PDF or HTML files to find errors in statistical reporting. | statistical check, statistical error, manuscript check | Free, Public | SCR_015487 | SciCrunch Registry | 2026-10-10 12:39:36 | 10 | |||||||||||
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Neurocare: Neuroconn DC-Stimulator Plus Resource Report Resource Website 1+ mentions |
Neurocare: Neuroconn DC-Stimulator Plus (RRID:SCR_015520) | tDCS | instrument resource | Device for administering transcranial electrical stimulation. It has applications in cranial electrotherapy that provides a weak direct current for non-invasive Interventional Neurophysiology. | commercial resource, material resource, hardware, transcranial electrical stimulation, cranial electrotherapy, tES, instrument, equipment, USEDit | PMID:26889687 | Commercially available, Available for purchase | https://drive.google.com/file/d/1SPn3_PCUego80oGB2-uPK7aUTmv62wry/view?usp=drivesdk | https://info.neurocaregroup.com/hubfs/neuroCare_May_2021/pdf/pb_dcsp_en.pdf | SCR_015520 | SciCrunch Registry | 2026-10-10 12:39:33 | 7 | |||||||
|
Ilastik Resource Report Resource Website 500+ mentions |
Ilastik (RRID:SCR_015246) | data processing software, image analysis software, image processing software, segmentation software, software application, software resource | Tool for interactive image classification, segmentation and analysis, built as a modular software framework, which currently has workflows for automated (supervised) pixel- and object-level classification, automated and semi-automated object tracking, semi-automated segmentation and object counting without detection. | machine learning, supervised learning, beginner software, image classification, image segmentation, image analysis | is related to: Webilastik | Heidelberg Collaboratory for Image Processing ; HHMI Janelia Farm Research Campus ; CellNetworks Excellence Cluster |
DOI:10.1109/ISBI.2011.5872394 DOI:10.1038/s41592-019-0582-9 |
Free, Freely available, Available for download | SCR_015246 | SciCrunch Registry | ilastik, Interactive Learning And Segmentation Toolkit (Ilastik), Interactive Learning And Segmentation Toolkit | 2026-10-10 12:39:39 | 755 | |||||||
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Spectrum Labs Resource Report Resource Website 1+ mentions |
Spectrum Labs (RRID:SCR_015488) | Commercial organization which supplies products for bioseparation and cell line management. | filtration, filtration product, bioseparation | SCR_015488 | SciCrunch Registry | Spectrum Labs Inc | 2026-10-10 12:39:32 | 9 | ||||||||||||
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DTI FiberTrak MR Clinical application Resource Report Resource Website |
DTI FiberTrak MR Clinical application (RRID:SCR_015521) | data analysis software, data processing software, image analysis software, resource, software application, software resource | Instrument and software tool used to visualize, trace, analyze, and process white matter fiber tracts of Diffusion Tensor Imaging (DTI) data in real-time. It supports pre-operative surgical planning, post-surgery evaluation, and general evaluation of fiber tracts around tumors and lesions in connection with functional areas. | white matter fiber tract, dti analysis, diffusion tensor imaging analysis, surgical preparation, surgical evaluation, hardware, instrument, equipment | Commercially available | SCR_015521 | SciCrunch Registry | Philips DTI FiberTrak, DTI FiberTrak | 2026-10-10 12:39:40 | 0 | ||||||||||
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LTR_Finder Resource Report Resource Website 500+ mentions |
LTR_Finder (RRID:SCR_015247) | analysis service resource, data access protocol, production service resource, service resource, software resource, web service | Web software capable of scanning large-scale sequences for full-length LTR retrotranspsons., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | Long Terminal Repeat retrotransposons, Long Terminal Repeat, retrotransposon prediction, genome sequences, LTR prediction, LTR structure prediction, DNA sequence, biotools |
is listed by: Debian is listed by: bio.tools |
Fudan University ; Shanghai ; China |
PMID:17485477 | THIS RESOURCE IS NO LONGER IN SERVICE | SCR_020944, biotools:ltr_finder | https://bio.tools/ltr_finder | SCR_015247 | SciCrunch Registry | LTR Finder | 2026-10-10 12:40:02 | 807 | |||||
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Cystic Fibrosis Center - University of Washington Resource Report Resource Website |
Cystic Fibrosis Center - University of Washington (RRID:SCR_015401) | access service resource, data or information resource, disease-related portal, portal, resource, service resource, topical portal | Research center that aims to provide resources and expertise to expedite development of potential new therapeutic approaches to correct dysfunctional CFTR and its secondary consequences, enhance understanding of evolving bacterial ecosystems and resultant host response in CF gastrointestinal and respiratory tracts, and how these interactions impact health. It also aims to develop improved assays, new drug screening assays, biomarkers and improved clinical outcome measures, as well as to better understand the metabolic and inflammatory consequences of CFTR dysfunction. | cftr therapy, cystic fibrosis translational research, cftr dysfunction |
is listed by: NIDDK Information Network (dkNET) has parent organization: University of Washington; Seattle; USA is parent organization of: Cystic Fibrosis Center - University of Washington Administrative and Enrichment Core is parent organization of: Cystic Fibrosis Center - University of Washington Host Response Core is parent organization of: University of Washington Genomics Core Cystic Fibrosis Research Translation Center and Research Development Program is parent organization of: Cystic Fibrosis Center - University of Washington Microbiology Core is parent organization of: Cystic Fibrosis Center - University of Washington Clinical Core has organization facet: Cystic Fibrosis Center - University of Washington Clinical Core has organization facet: Cystic Fibrosis Center - University of Washington Microbiology Core has organization facet: University of Washington Genomics Core Cystic Fibrosis Research Translation Center and Research Development Program has organization facet: Cystic Fibrosis Center - University of Washington Host Response Core has organization facet: Cystic Fibrosis Center - University of Washington Administrative and Enrichment Core is organization facet of: Cystic Fibrosis Research and Translation Centers |
Cystic Fibrosis | NIDDK P30DK089507 | Available to the research community | SCR_015401 | SciCrunch Registry | 2026-10-10 12:39:36 | 0 | ||||||||
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Marshall BioResources Resource Report Resource Website 10+ mentions |
Marshall BioResources (RRID:SCR_015489) | biomaterial supply resource, material resource, organism supplier | Commercial provider of purpose-bred animals for biomedical research. They provide dogs, pigs, ferrets, mice, and guinea pigs in physically and psychologically healthy condition. | animal provider, purpose bred animal, beagle, hound, mongrel, minipig, influenza free ferret | is recommended by: Assessment and Accreditation of Laboratory Animal Care International | SCR_015489 | SciCrunch Registry | 2026-10-10 12:39:40 | 34 | |||||||||||
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Atomify LAMMPS Resource Report Resource Website 1+ mentions |
Atomify LAMMPS (RRID:SCR_015240) | mobile app, simulation software, software application, software resource | Mobile simulation app for visualizing molecular interactions in liquids, solids and gases. The simulations are performed with the molecular dynamics code LAMMPS. | molecular physics, molecular simulation, molecular interaction | Open source, Available for Android phones | SCR_015240 | SciCrunch Registry | Atomify | 2026-10-10 12:39:38 | 6 | ||||||||||
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Encode Resource Report Resource Website 1000+ mentions |
Encode (RRID:SCR_015482) | consortium, data or information resource, data set, organization portal, portal | Consortium to build comprehensive parts list of functional elements in human genome. This includes elements that act at protein and RNA levels, and regulatory elements that control cells and circumstances in which gene is active. Data from 2012-present. | genome, sequencing, protein, rna, dna, consortium |
is related to: modENCODE is related to: ENCODE is related to: 3D Genome has parent organization: Stanford University; Stanford; California has parent organization: University of California at Santa Cruz; California; USA |
NHGRI HG006992 | PMID:15499007 | Free, Freely available | SCR_015482 | SciCrunch Registry | ENCODE Project | 2026-10-10 12:39:36 | 1293 | |||||||
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Transcriptome architecture of adult mouse brain Resource Report Resource Website 1+ mentions |
Transcriptome architecture of adult mouse brain (RRID:SCR_015483) | data or information resource, image collection | Image collection of transcriptome architecture of adult mouse brain revealed by sparse coding of genome-wide in situ hybridization images. | mouse brain architecture, mouse brain image, in situ hybridization image | DOI:10.1007/s12021-017-9333-1 | Public | SCR_015483 | SciCrunch Registry | 2026-10-10 12:39:32 | 2 | ||||||||||
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HISAT2 Resource Report Resource Website 10000+ mentions |
HISAT2 (RRID:SCR_015530) | data analysis software, data processing software, sequence analysis software, software application, software resource, source code | Graph-based alignment of next generation sequencing reads to a population of genomes. | alignment program, mapping reads, population genomics, human genome, bio.tools |
is used by: Fcirc is listed by: Debian is listed by: bio.tools is related to: TopHat has parent organization: Johns Hopkins University; Maryland; USA is required by: SL-quant is hosted by: GitHub |
NLM R01-LM06845; NIGMS R01-GM083873; NSF CCF-0347992 |
PMID:25751142 DOI:10.1038/s41587-019-0201-4 |
Available for download | OMICS_07225, biotools:hisat2 | https://github.com/infphilo/hisat2, https://bio.tools/hisat2, https://sources.debian.org/src/hisat2/ | SCR_015530 | SciCrunch Registry | HISAT | 2026-10-10 12:40:05 | 20753 | |||||
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Platanus Resource Report Resource Website 100+ mentions |
Platanus (RRID:SCR_015531) | data analysis software, data processing software, sequence analysis software, software application, software resource | De novo sequence assembler that can reconstruct genomic sequences of highly heterozygous diploids from massively parallel shotgun sequencing data., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | de novo sequence assembly, genomic sequence reconstruction, shotgun sequence data | DOI:10.1101/gr.170720.113 | THIS RESOURCE IS NO LONGER IN SERVICE | SCR_015531 | SciCrunch Registry | PLATform for Assembling NUcleotide Sequences, Platanus - PLATform for Assembling NUcleotide Sequences, Platanus Genome Assembler | 2026-10-10 12:39:37 | 201 | |||||||||
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KZNF Catalog Resource Report Resource Website |
KZNF Catalog (RRID:SCR_015495) | catalog, data or information resource, database | Searchable, manually curated collection of Kruppel-type zinc finger genes (KZNFs) in primates with finished or high quality draft genomes. | kruppel type zinc finger gene, kznf, kruppel type zinc finger model, primate finger, primate finger gene | has parent organization: University of Illinois at Urbana-Champaign; Illinois; USA | Open source | SCR_015495 | SciCrunch Registry | 2026-10-10 12:40:04 | 0 | ||||||||||
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SEER Resource Report Resource Website 500+ mentions |
SEER (RRID:SCR_015499) | data analysis software, data processing software, sequence analysis software, software application, software resource, source code | Sequence element enrichment analysis tool to perform pan-genome-wide association studies in bacteria. | bacterial genome association, sequence element enrichment analysis, kmer enrichment analysis |
is listed by: Debian is listed by: OMICtools is hosted by: GitHub |
DOI:10.1038/ncomms12797 DOI:10.1101/038463 |
Available for download | OMICS_21699 | https://sources.debian.org/src/seer/ | SCR_015499 | SciCrunch Registry | 2026-10-10 12:39:40 | 547 |
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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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