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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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BUSCO Resource Report Resource Website 5000+ mentions |
BUSCO (RRID:SCR_015008) | software resource, software application, algorithm resource, data analysis software, data processing software | Software tool to quantitatively measure genome assembly and annotation completeness based on evolutionarily informed expectations of gene content. | genome assembly, annotation completeness, quantitative method, bio.tools |
is used by: rnaQUAST is recommended by: CEGMA is listed by: Debian is listed by: bio.tools is related to: CEGMA works with: BUSCOMP |
Swiss National Science Foundation ; Marie Curie International Outgoing Fellowship |
DOI:10.1093/bioinformatics/btv351 | Free, Available for download, Freely available | biotools:busco | https://gitlab.com/ezlab/busco, https://bio.tools/busco, https://sources.debian.org/src/busco/ | SCR_015008 | BUSCO v2, Benchmarking Universal Single-Copy Orthologs (BUSCO), Benchmarking Universal Single-Copy Orthologs, BUSCO v1 | 2026-08-08 12:00:33 | 8320 | |||||
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C.M. Rick Tomato Genetic Resources Center Resource Report Resource Website 100+ mentions |
C.M. Rick Tomato Genetic Resources Center (RRID:SCR_014954) | TGRC | biomaterial supply resource, material resource, organism supplier | Genebank of wild relatives, monogenic mutants and miscellaneous genetic stocks of tomato. TGRC offers seed samples for free to researchers worldwide. | tomato, tomato genetics, solanum, lycopersicon, seed germination, monogenic mutants, genebank, FASEB list | UC Davis ; USDA ; California Tomato Research Institute ; TGRC endowment |
Free, Available to the research community | SCR_014954 | C.M. Rick Tomato Genetic Resources Center (TGRC), Tomato Genetic Resources Center | 2026-08-08 12:00:19 | 113 | ||||||||
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StavroX Resource Report Resource Website 50+ mentions |
StavroX (RRID:SCR_014957) | sequence analysis software, software resource, software application, data analysis software, data processing software | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on June 29,2023. Software tool for analyzing cross-linking/mass spectrometry datasets using any bifunctional cross-linker. It can be used to identify cross links of peptides – such as DSS, BS3, Disulfides, and zero-length – in complex mixtures. | sequence analysis software, peptide, cross linking, mass spectrometry, bifunctional cross linker, complex mixture | is related to: MeroX | DFG Si 867/13-1; DFG Si 867/15-1; BMBF ProNet-T3; BMBF Project To-06 |
PMID:22038510 DOI:10.1007/s13361-011-0261-2 |
THIS RESOURCE IS NO LONGER IN SERVICE | SCR_014957 | 2026-08-08 12:00:37 | 75 | ||||||||
|
VTK Resource Report Resource Website 50+ mentions |
VTK (RRID:SCR_015013) | image processing software, software toolkit, software resource, software application, data visualization software, data processing software | Cross-platform visualization software system for 3D computer graphics, image processing, and data visualization. Various visualization algorithms and advanced modeling techniques are supported within VTK, as well as parallel processing and interoperability with select databases. | open source visualization toolkit, visualization system, 3d computer graphics, image processing, FASEB list |
is used by: ParaView is used by: VolView is used by: Insight Segmentation and Registration Toolkit has parent organization: Kitware |
Open source, Available for download, Acknowledgement requested | https://gitlab.kitware.com/vtk/vtk | SCR_015013 | VTK 7.0.0, Visualization Toolkit, VTK 7.1 | 2026-08-08 12:00:33 | 98 | ||||||||
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LDAK Resource Report Resource Website 100+ mentions |
LDAK (RRID:SCR_015504) | software resource, software application, data analysis software, data processing software | Software that analyzes and estimates heritability. LDAK adjusts for linkage disequilibrium (LD) by calculating SNP weightings which downweight the contribution of SNPs in highly tagged regions. | linkage disequilibrium, ld, snp, snp weight, heritability | PMID:28530675 | Free, Available for download | SCR_015504 | 2026-08-08 12:00:24 | 124 | ||||||||||
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GIIRA Resource Report Resource Website 1+ mentions |
GIIRA (RRID:SCR_015507) | sequence analysis software, software resource, software application, data analysis software, data processing software | Gene prediction method that identifies potential coding regions based on the mapping of reads from an RNA-Seq experiment. | gene prediction, rna seq, coding region, potential coding region |
is listed by: Debian is listed by: OMICtools |
DOI:10.1093/bioinformatics/btt577 | Available for download | OMICS_07360 | http://www.rki.de/EN/Content/Institute/DepartmentsUnits/JuniorGroups/JRG4.html, https://sources.debian.org/src/giira/ | SCR_015507 | 2026-08-08 12:00:37 | 3 | |||||||
|
ClinicalStudyDataRequest.com (CSDR) Resource Report Resource Website 1+ mentions |
ClinicalStudyDataRequest.com (CSDR) (RRID:SCR_015512) | CSDR | data or information resource, portal, organization portal, consortium | Consortium of clinical study data providers. Its aim is to help the data sharing community drive scientific progress and improve medical care by facilitating access to patient-level data from clinical studies. | clinical study, data-sharing, patient-level data, study sponsor | The research community can contribute to this resource, Freely Available | SCR_015512 | ClinicalStudyDataRequest, Clinical Study Data Request, ClinicalStudyDataRequest.com | 2026-08-08 12:00:24 | 9 | |||||||||
|
MagicBlast Resource Report Resource Website 10+ mentions |
MagicBlast (RRID:SCR_015513) | sequence analysis software, software resource, software application, data analysis software, data processing software | Software tool for making a BLAST database from various data structures. It maps large sets of next-generation RNA or DNA sequencing runs against a whole genome or transcriptome. | blast database, blast, next generation rna sequencing, next generation dna sequencing | has parent organization: NCBI | Public, Free, Acknowledgement requested, Available for download, Available for LINUX, Available for MacOSX, Available for Windows | https://ncbiinsights.ncbi.nlm.nih.gov/tag/magic-blast/ | SCR_015513 | Magic-Blast, Magic - Blast, Magic Blast | 2026-08-08 12:00:37 | 12 | ||||||||
|
MMPC-University of California Davis Resource Report Resource Website 50+ mentions |
MMPC-University of California Davis (RRID:SCR_015357) | data or information resource, access service resource, resource, topical portal, service resource, portal, disease-related portal | Center that provides the scientific community with metabolic and physiologic phenotyping tests, services, and procedures for mouse models of diabetes, diabetic complications, obesity and related disorders in order to advance medical and biological research. | mouse biology, metabolic phenotyping, mutant mouse models, MMPC |
is listed by: NIDDK Information Network (dkNET) has parent organization: University of California at Davis; California; USA has parent organization: National Mouse Metabolic Phenotyping Centers is parent organization of: MMPC-University of California Davis Energy Balance Exercise and Behavior Core is parent organization of: MMPC-University of California Davis Administrative Core is parent organization of: MMPC-University of California Davis Microbiome and Host Response Core is parent organization of: MMPC-University of California Davis Endocrinology and Metabolism Core is parent organization of: MMPC-University of California Davis Animal Care Surgery and Pathology Core is parent organization of: University of California Davis DNA Technologies and Expression Analysis Core Facility has organization facet: MMPC-University of California Davis Administrative Core has organization facet: MMPC-University of California Davis Animal Care Surgery and Pathology Core has organization facet: MMPC-University of California Davis Endocrinology and Metabolism Core has organization facet: MMPC-University of California Davis Energy Balance Exercise and Behavior Core has organization facet: MMPC-University of California Davis Microbiome and Host Response Core is organization facet of: National Mouse Metabolic Phenotyping Centers |
NIDDK DK092993 | Available to the research community | SCR_015357 | 2026-08-08 12:00:36 | 75 | |||||||||
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Pennington Biomedical Research Center Nutrition and Obesity Research Center Resource Report Resource Website 1+ mentions |
Pennington Biomedical Research Center Nutrition and Obesity Research Center (RRID:SCR_015438) | data or information resource, access service resource, resource, topical portal, service resource, portal, disease-related portal | Research center that supports clinical investigation addressing the etiology of nutritionally induced chronic diseases across the entire age span, from gestational and perinatal development through childhood and adolescence. It provides core services to promote the investigations around the theme of molecular mechanisms of nutritional programming induced by environmental factors. | nutritional research center, nutritional research services, chronic nutritional disease |
is listed by: NIDDK Information Network (dkNET) has parent organization: Pennington Biomedical Research Center is parent organization of: Pennington Biomedical Research Center Nutrition and Obesity Research Center Animal Models and Phenotyping Core is parent organization of: Pennington Biomedical Research Center Nutrition and Obesity Research Center Molecular Mechanisms Core is parent organization of: Pennington Biomedical Research Center Nutrition and Obesity Research Center Human Phenotyping Core has organization facet: Louisiana State University Pennington Biomedical Nutrition Obesity Research Center Core Facility has organization facet: Pennington Biomedical Research Center Nutrition and Obesity Research Center Human Phenotyping Core has organization facet: Pennington Biomedical Research Center Nutrition and Obesity Research Center Molecular Mechanisms Core has organization facet: Pennington Biomedical Research Center Nutrition and Obesity Research Center Animal Models and Phenotyping Core is organization facet of: Nutrition and Obesity Research Centers |
Obesity | NIDDK P30DK072476 | Available to the research community, Acknowledgement requested | SCR_015438 | 2026-08-08 12:00:24 | 3 | ||||||||
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University of Michigan Nutrition and Obesity Research Center Resource Report Resource Website 1+ mentions |
University of Michigan Nutrition and Obesity Research Center (RRID:SCR_015457) | data or information resource, access service resource, resource, topical portal, service resource, portal, disease-related portal | Research center for obesity investigators which aims to provide researchers with infrastructure, expertise, and training to facilitate improved data integration, analysis and modeling from properly designed basic, clinical, and population-based studies in obesity and metabolism-related diseases. | obesity research center, obesity research, obesity prevention, nutrition research |
is listed by: NIDDK Information Network (dkNET) is parent organization of: University of Michigan Nutrition and Obesity Research Center Integrative Biostatistics and Informatics Core is parent organization of: University of Michigan Nutrition and Obesity Research Center Administrative Core is parent organization of: University of Michigan Nutrition and Obesity Research Center Animal Phenotyping Core is parent organization of: University of Michigan Nutrition and Obesity Research Center Molecular Phenotyping Core has organization facet: University of Michigan Nutrition and Obesity Research Center Animal Phenotyping Core has organization facet: University of Michigan Nutrition and Obesity Research Center Human Phenotyping Core has organization facet: University of Michigan Nutrition and Obesity Research Center Molecular Phenotyping Core has organization facet: University of Michigan Nutrition and Obesity Research Center Integrative Biostatistics and Informatics Core has organization facet: University of Michigan Nutrition and Obesity Research Center Administrative Core is organization facet of: Nutrition and Obesity Research Centers |
Obesity | NIDDK DK089503 | Available to the research community | SCR_015457 | 2026-08-08 12:00:40 | 2 | ||||||||
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UAB Hepatorenal Fibrocystic Diseases Core Center Resource Report Resource Website 1+ mentions |
UAB Hepatorenal Fibrocystic Diseases Core Center (RRID:SCR_015311) | data or information resource, access service resource, resource, topical portal, service resource, portal, disease-related portal | Center that focuses on understanding the causes of Cystic Kidney Disease and other related disorder and the development of new therapeutic strategies. | cystic kidney disorder, Hepatorenal Fibrocystic Diseases |
is listed by: NIDDK Information Network (dkNET) is parent organization of: UAB Hepatorenal Fibrocystic Diseases Core Center Cellular Physiology Resource is parent organization of: UAB Hepatorenal Fibrocystic Diseases Core Center Therapeutic Screening and Drug Development Resource is parent organization of: UAB Hepatorenal Fibrocystic Diseases Core Center Engineered Models Resource is parent organization of: UAB Hepatorenal Fibrocystic Diseases Core Center Hepato-Renal Fibrocystic Diseases Translational Resource has organization facet: UAB Hepatorenal Fibrocystic Diseases Core Center Hepato-Renal Fibrocystic Diseases Translational Resource has organization facet: UAB Hepatorenal Fibrocystic Diseases Core Center Engineered Models Resource has organization facet: UAB Hepatorenal Fibrocystic Diseases Core Center Cellular Physiology Resource has organization facet: UAB Hepatorenal Fibrocystic Diseases Core Center Therapeutic Screening and Drug Development Resource |
Hepatorenal Fibrocystic Disease | NIDDK P30DK074038 | Available to the research community, Acknowledgement requested | SCR_015311 | 2026-08-08 12:00:23 | 1 | ||||||||
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Baltimore Polycystic Kidney Disease (PKD) Research and Clinical Core Center Resource Report Resource Website 1+ mentions |
Baltimore Polycystic Kidney Disease (PKD) Research and Clinical Core Center (RRID:SCR_015315) | data or information resource, access service resource, resource, topical portal, service resource, portal, disease-related portal | Center for research in polycystic kidney disease (PKD) with collaboration by international investigators. The center has several cores, including biomedical cores for antibody validation and cell cultures, educationa programs, and pilot programs for new projects. | polycystic kidney disease, pkd, kidney disease research |
is listed by: NIDDK Information Network (dkNET) has parent organization: University of Maryland School of Medicine; Maryland; USA is parent organization of: Baltimore Polycystic Kidney Disease (PKD) Research and Clinical Core Center Cell Culture and Engineering is parent organization of: Baltimore Polycystic Kidney Disease (PKD) Research and Clinical Core Center Clinical and Translational Core Resource is parent organization of: Baltimore Polycystic Kidney Disease (PKD) Research and Clinical Core Center Antibody Validation and Vector Core is parent organization of: Baltimore Polycystic Kidney Disease (PKD) Research and Clinical Core Center Mouse Models and Biobank has organization facet: Baltimore Polycystic Kidney Disease (PKD) Research and Clinical Core Center Antibody Validation and Vector Core has organization facet: Baltimore Polycystic Kidney Disease (PKD) Research and Clinical Core Center Mouse Models and Biobank has organization facet: Baltimore Polycystic Kidney Disease (PKD) Research and Clinical Core Center Cell Culture and Engineering has organization facet: Baltimore Polycystic Kidney Disease (PKD) Research and Clinical Core Center Clinical and Translational Core Resource |
Polycystic Kidney Disease | NIDDK P30DK090868 | Available to the research community | SCR_015315 | 2026-08-08 12:00:39 | 1 | ||||||||
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O'Brien Kidney Centers Resource Report Resource Website 1+ mentions |
O'Brien Kidney Centers (RRID:SCR_015270) | data or information resource, resource, topical portal, portal, disease-related portal | Research program whose aim is to make state-of-the art technologies and resources accessible to a broad spectrum of investigators pursuing studies in kidney research areas. | renal, program, kidney, research, centers |
is listed by: NIDDK Information Network (dkNET) is affiliated with: NIDDK - National Institute of Diabetes and Digestive and Kidney Diseases has organization facet: Duke O'Brien Center for Kidney Research has organization facet: Indiana O'Brien Center for Advanced Microscopic Analysis has organization facet: UAB-UCSD Core Center for Acute Kidney Injury Research has organization facet: Pittsburgh Center for Kidney Research has organization facet: University of Michigan Kidney Translational Core Center has organization facet: George M. O'Brien Kidney Research Core Center - UT Southwestern Medical Center has organization facet: George M. O'Brien Kidney Center at Yale |
NIDDK P30 DK17005 | Available to the research community | https://www.niddk.nih.gov/research-funding/current-opportunities/rfa-dk-17-005 | SCR_015270 | 2026-08-08 12:00:39 | 1 | ||||||||
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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 | BZ-9000 Fluorescence Microscope | 2026-08-08 12:00:24 | 15 | ||||||||||
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StatCheck Resource Report Resource Website 10+ mentions |
StatCheck (RRID:SCR_015487) | web application, software resource, authoring tool, software 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 | 2026-08-08 12:00:37 | 10 | |||||||||||
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Ilastik Resource Report Resource Website 500+ mentions |
Ilastik (RRID:SCR_015246) | image processing software, segmentation software, image analysis software, software resource, software application, data processing software | 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 | ilastik, Interactive Learning And Segmentation Toolkit (Ilastik), Interactive Learning And Segmentation Toolkit | 2026-08-08 12:00:22 | 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 | Spectrum Labs Inc | 2026-08-08 12:00:40 | 9 | ||||||||||||
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University of Washington Diabetes Research Center Resource Report Resource Website 1+ mentions |
University of Washington Diabetes Research Center (RRID:SCR_015126) | data or information resource, access service resource, resource, topical portal, service resource, portal, disease-related portal | University-affiliated center to support both basic and clinical research in diabetes and related metabolic disorders with the ultimate purpose of translating findings into opportunities to prevent these diseases and to improve clinical care and outcomes. | diabetes, metabolic disorder, clinical research |
is listed by: NIDDK Information Network (dkNET) is affiliated with: Diabetes Research Centers has parent organization: University of Washington; Seattle; USA is parent organization of: University of Washington Diabetes Research Center Quantitative and Functional Proteomics Core Facility is parent organization of: University of Washington Diabetes Research Center Vector and Transgenic Mouse Core is parent organization of: University of Washington Diabetes Research Center Cell Function Analysis Core Facility is parent organization of: University of Washington Diabetes Research Center Human Studies Core Facility is parent organization of: University of Washington Diabetes Research Center Cellular and Molecular Imaging Core is parent organization of: University of Washington Diabetes Research Center Administrative Core has organization facet: University of Washington Diabetes Research Center Administrative Core has organization facet: University of Washington Diabetes Research Center Cell Function Analysis Core Facility has organization facet: University of Washington Diabetes Research Center Cellular and Molecular Imaging Core has organization facet: University of Washington Diabetes Research Center Human Studies Core Facility has organization facet: University of Washington Diabetes Research Center Quantitative and Functional Proteomics Core Facility has organization facet: University of Washington Diabetes Research Center Vector and Transgenic Mouse Core is organization facet of: Diabetes Research Centers |
Diabetes | NIDDK P30DK017047 | Available to the research community | SCR_015126 | 2026-08-08 12:00:38 | 2 | ||||||||
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LTR_Finder Resource Report Resource Website 500+ mentions |
LTR_Finder (RRID:SCR_015247) | production service resource, web service, software resource, data access protocol, analysis service resource, service resource | 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 | LTR Finder | 2026-08-08 12:00:35 | 807 |
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