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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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X2K Web Resource Report Resource Website 10+ mentions |
X2K Web (RRID:SCR_023624) | X2K | data access protocol, software resource, web service | Web service to predict involvement of upstream cell signaling pathways, given signature of differentially expressed genes. Used to linking expression signatures to upstream cell signaling networks. | predicts involvement of upstream cell signaling pathways, differentially expressed genes, linking expression signatures, upstream cell signaling networks, | has parent organization: Icahn School of Medicine at Mount Sinai; New York; USA | NCI U24 CA224260; NHLBI U54 HL127624; NIH Office of the Director OT3 OD025467 |
PMID:29800326 | Free, Freely available | https://github.com/MaayanLab/x2k_web | SCR_023624 | eXpression2Kinases (X2K) Web | 2026-09-19 12:55:36 | 25 | |||||
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WormGUIDES Resource Report Resource Website 1+ mentions |
WormGUIDES (RRID:SCR_013733) | atlas, data or information resource | A worm atlas that provides an interactive 4D atlas of nuclear positions, from zygote until hatching which can be used to guide cell identification. The tools enable examination of the connectome during development from integrate knowledge of C. elegans embryogenesis to widely used resources, such as WormAtlas and WormBase. | embryogenesis, development, neural connectivity, diSPIM, 4d atlas, c elegans | has parent organization: Yale University; Connecticut; USA | NIH Office of the Director R24 OD016474 | Free, Public, Requires Java | SCR_014203 | https://orip.nih.gov/comparative-medicine/programs/invertebrate-models, http://www.wormguides.org/wormguides | SCR_013733 | Global Understanding in Dynamic Embryonic Systems | 2026-09-19 12:57:32 | 4 | ||||||
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EchinoBase Resource Report Resource Website 100+ mentions |
EchinoBase (RRID:SCR_013732) | data or information resource, database | Database that provide a genomic information and comparative genomics platform on sea urchins and related echinoderms. It provide collection of information to directly support experimental work on these useful research models in cell and developmental biology. | sea urchins, echinoderms, genome, FASEB list | NIH Office of the Director P40 OD010959 | PMID:19010966 | Free, Public | https://orip.nih.gov/comparative-medicine/programs/genetic-biological-and-information-resources | SCR_013732 | SpBase, Echinoderm genomic database, Gene Library Resource for the Sea Urchin Strongylocentrotus purpuratus, Sea Urchin Genome Database, Echino Base | 2026-09-19 12:57:32 | 108 | |||||||
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Zebrafish International Resource Center Resource Report Resource Website 100+ mentions |
Zebrafish International Resource Center (RRID:SCR_005065) | ZIRC | biomaterial supply resource, material resource, organism supplier | Center that supplies access to wild-type, mutant, and transgenic zebrafish lines, EST's/cDNAs, antibodies and fish health services. ZIRC Health Services include diagnostic pathology testing for zebrafish and other small laboratory fish species. | RIN, Resource Information Network, zebrafish line, expressed sequence tag, cdna, fish, antibody, pathology, research, embryo, adult, RRID Community Authority |
is used by: Integrated Animals is listed by: One Mind Biospecimen Bank Listing is listed by: Resource Information Network is related to: One Mind Biospecimen Bank Listing is related to: ZMP is related to: NIF Data Federation is related to: Zebrafish Information Network (ZFIN) is related to: zfishbook has parent organization: University of Oregon; Oregon; USA |
NCRR RR12546; NICHD HD12546; NIH Office of the Director P40 OD011021; W.M. Keck Foundation |
Restricted | nif-0000-00242 | http://zebrafish.org/home/guide.php | SCR_005065 | Zebrafish International Resource Center | 2026-09-19 12:55:07 | 461 | |||||
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Texas A and M Health Science Center MSC Distribution Resource Report Resource Website 10+ mentions |
Texas A and M Health Science Center MSC Distribution (RRID:SCR_005522) | Texas A&M MSC Distribution | biomaterial supply resource, cell repository, material resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on October 29,2025. Center for cell line distribution and stock at Texas A&M Health Science Center College of Medicine Institute for Regenerative Medicine. Scott & White have received a grant funded by the NIH to provide well-characterized human adult stem cells, rat stem cells, and mouse stem cells to academic researchers worldwide upon request. | stem cell, bone marrow mesenchymal stem cell, multipotent mesenchymal stromal cell, marrow stromal cell, frozen, bone marrow, adult, adult human, adult rat, lewis rat, c57bl/6j, experimental protocol |
is listed by: One Mind Biospecimen Bank Listing has parent organization: Texas A and M Health Science Center College of Medicine; Texas; USA |
NIH Office of the Director P40 OD011050 | THIS RESOURCE IS NO LONGER IN SERVICE. | nlx_144619, SCR_013734 | SCR_005522 | Texas A&M Health Science Center MSC Distribution, Texas A M Health Science Center MSC Distribution, Institute for Regenerative Medicine at Scott & White MSC Distribution, Texas A&M Health Science Center College of Medicine Institute for Regenerative Medicine MSC Distribution, Adult Mesenchymal Stem Cell Resource | 2026-09-19 12:55:54 | 19 | ||||||
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California National Primate Research Center Resource Report Resource Website 10+ mentions |
California National Primate Research Center (RRID:SCR_006426) | CNPRC | data or information resource, organization portal, portal | Center for investigators studying human health and disease, offering the opportunity to assess the causes of disease, and new treatment methods in nonhuman primate models that closely recapitulate humans. Its mission is to provide interdisciplinary programs in biomedical research on significant human health-related problems in which nonhuman primates are the models of choice. | NPRC, NPRC Consortium, ORIP, drug, genetic, animal, biology, cause, cell, cynamolous, developmental, disease, health, human, immunology, model, nonhuman primate, physiology, primate, procedure, psychology, reproductive, surgery, surgical, therapy, titi, treatment, veterinarian, virology |
is listed by: Biositemaps is listed by: National Primate Research Center Consortium has parent organization: University of California at Davis; California; USA is parent organization of: California National Primate Research Center Analytical and Resource Core |
NCRR P51 RR000169; NIH Office of the Director P51 OD011107; NIH Office of the Director U42 OD010990 |
Free, Freely available, | nif-0000-24356 | https://orip.nih.gov/comparative-medicine/programs/vertebrate-models | http://www.cnprc.ucdavis.edu | SCR_006426 | 2026-09-19 12:55:55 | 21 | |||||
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Nonhuman Primate Reagent Resource Resource Report Resource Website 100+ mentions |
Nonhuman Primate Reagent Resource (RRID:SCR_012986) | NHPRR | antibody supplier, material resource, reagent supplier | Center that facilitates the optimal use of nonhuman primate models in biomedical research by identifying, developing, characterizing and producing reagents for monitoring or modulating immune responses. They distribute non-human primate-specific antibodies for in vitro diagnostics, as well as develop and produce primate recombinant antibodies for in vivo cell depletion or modulating immune responses. | anti-ig, antibody, biomedical, cell, depletion, diagnostic, immune, immunoglobulin, in vitro, in vivo, macaque, monkey, nonhuman, primate, reagent, recombinant, research, response, specie | NCRR RR016001; NIAID AI040101; NIAID AI126683; NIH Office of the Director R24 OD010976; NIH 2722001300031C; NIH 272200900037C; NIH 272201300031C; NIH 286200400101C; NIH AI-040101; NIH AI-126683; NIH HHSN2722001300031C; NIH HHSN272200900037C; NIH HHSN286200400101C; NIH NHPRR; NIH OD-010976; NIH RR-016001 |
nif-0000-24368 | https://orip.nih.gov/comparative-medicine/programs/vertebrate-models, http://www.nhpreagents.org/NHP/contact.aspx | http://nhpreagents.bidmc.harvard.edu/NHP/default.aspx | SCR_012986 | nhp reagents, Nonhuman Primate Reagent Resources, Non-human primate repository, Non human Primate Reagent Resources, NHP Reagent Resource, nhpreagents, NIH Nonhuman Primate Reagent Resource, NHP Reagent, nhpreagent, Non-human Primate Reagent Resources | 2026-09-19 12:56:01 | 230 | ||||||
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National Resource for Aplysia Resource Report Resource Website 10+ mentions |
National Resource for Aplysia (RRID:SCR_008361) | National Resource for Aplysia | biomaterial supply resource, material resource, organism supplier | Center where Aplysia californica are cultured and raised for research purposes. Aplysia from the facility serve in research on genomics, human brain function, toxicology for developmental studies, natural products, chemistry for isolation of novel anti-tumor and antibacterial compounds, in the study of transport by digestive tissues and have potential for use in studies of substance addiction and nerve senescence and regeneration. | disease, genomics, aplysia californica, research, brain | has parent organization: University of Miami; Florida; USA | NCRR ; NIH Office of the Director P40 OD010952 |
nif-0000-25472 | http://aplysia.miami.edu/ | SCR_008361 | 2026-09-19 12:55:10 | 14 | |||||||
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SigCom LINCS Resource Report Resource Website 1+ mentions |
SigCom LINCS (RRID:SCR_022275) | data access protocol, software resource, web service | Web server that serves over million gene expression signatures processed, analyzed, and visualized from LINCS, GTEx, and GEO. Data and metadata search engine for gene expression signatures. | FAIR data, data and metadata search engine, gene expression signatures, gene expression signature processed, analyzed, and visualized, LINCS, GTEx, GEO, gene expression signatures, | NHLBI U54HL127624; NIDDK R01DK131525; NIH Office of the Director OT2OD030160 |
PMID:35524556 | Free, Freely available | https://github.com/MaayanLab/sigcom-lincs | SCR_022275 | SigCom Library of Integrated Network-based Cellular Signatures | 2026-09-19 12:55:20 | 8 | |||||||
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trRosetta Resource Report Resource Website 100+ mentions |
trRosetta (RRID:SCR_021181) | service resource, simulation software, software application, software resource | Software tool for fast and accurate protein structure prediction. Builds protein structure based on direct energy minimizations with restrained Rosetta. Restraints include inter-residue distance and orientation distributions, predicted by deep residual neural network. Homologous templates are included in network prediction to improve accuracy for easy targets. | protein structure, restraint-guided structure generation, protein structure prediction | uses: Rosetta | China Scholarship Council ; Fok Ying-Tong Education Foundation ; Key Laboratory for Medical Data Analysis and Statistical Research of Tianjin ; National Natural Science Foundation of China ; NIGMS R01 GM092802; NIH Office of the Director DP5 OD026389; Thousand Youth Talents Plan of China |
PMID:31896580 | Free, Freely available | https://github.com/gjoni/trRosetta | SCR_021181 | transformed restrained Rosetta | 2026-09-19 12:54:49 | 100 | ||||||
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Appyters Resource Report Resource Website 10+ mentions |
Appyters (RRID:SCR_021245) | software resource, web application | Collection of web-based software applications that enable users to execute bioinformatics workflows without coding. Turns Jupyter notebooks into fully functional standalone web-based bioinformatics applications. Each Appyter application introduces data entry form for uploading or fetching data, as well as for selecting options for various settings. Once user presses Submit, Appyter is executed in cloud and user is presented with Jupyter Notebook report that contain results. Report includes markdown text, interactive and static figures, and source code. Appyter users can share the link to the output report, as well as download the fully executable notebook for execution on other platforms. | Jupyter Notebooks, data-driven web apps collection, Jupyter Notebook results report |
is used by: Hypothesis Center has parent organization: Icahn School of Medicine at Mount Sinai; New York; USA |
NCI U24 CA224260; NHLBI U54 HL127624; NIH Office of the Director OT2 OD030160 |
DOI:10.1016/j.patter.2021.100213 | Free, Available for download, Freely available | https://github.com/MaayanLab/appyter, https://github.com/MaayanLab/appyter-catalog | SCR_021245 | 2026-09-19 12:54:50 | 16 | |||||||
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Squirrel Monkey Breeding and Research Resource Resource Report Resource Website 10+ mentions |
Squirrel Monkey Breeding and Research Resource (RRID:SCR_006291) | SMBRR | biomaterial supply resource, data or information resource, material resource, portal, project portal, tissue bank | SMBRR maintains the only self-sustaining national research resource of laboratory-born squirrel monkeys, their tissues and other biological materials, as well as the expertise to carry out research on this animal. Scientists with NIH grants utilize squirrel monkeys to study many diseases that threaten human health including Alzheimer's disease and other disorders of the central nervous system, drug addiction, malaria, and viral diseases. Center that carries out research on squirrel monkey biology and its research uses. It meets the needs of the biomedical research community in three ways: providing national resource for laboratory-born squirrel monkeys, having active research component that continues to add new information about the biology of the squirrel monkey with a particular emphasis on reproduction and colony management, and acts as a source of expertise for squirrel monkey biology, management and husbandry. | ORIP, Office of Research Infrastructure Programs, reproductive biology, behavior, reproduction, disease, colony management, tissue, live animal, bodily fluid |
is listed by: One Mind Biospecimen Bank Listing has parent organization: University of Texas MD Anderson Cancer Center |
NIH Office of the Director P40 OD010938 | Public | nlx_151947 | https://reporter.nih.gov/search/oopkAZDMqkCSLpwC7X2hHg/project-details/10558468, https://orip.nih.gov/comparative-medicine/programs/vertebrate-models, http://www.kccmr.org/ | SCR_006291 | Keeling Center for Comparative Medicine and Research Squirrel Monkey Breeding and Research Resource, KCCMR SMBRR, KCCMR Squirrel Monkey Breeding and Research Resource | 2026-09-19 12:56:57 | 33 | |||||
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Drugmonizome Resource Report Resource Website 1+ mentions |
Drugmonizome (RRID:SCR_024821) | data or information resource, database | Database with search engine for querying annotated sets of drugs and small molecules for performing drug set enrichment analysis. | annotated sets of drugs and small molecules, searching of annotated sets of drugs and small molecules, drugs, small molecules, | NCI U24CA224260; NHLBI U54HL127624; NIH Office of the Director OT2OD030160 |
PMID:33787872 | Free, Freely available | SCR_024821 | 2026-09-19 01:00:06 | 1 | |||||||||
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Daphnia Atlas Resource Report Resource Website 1+ mentions |
Daphnia Atlas (RRID:SCR_024913) | atlas, data or information resource, reference atlas | Whole organism atlas utilizing 2D and 3D imaging. Atlas at cellular resolution serves as foundation for characterization of tissue and cellular change in Daphnia. | Whole organism atlas, Daphnia, characterization of tissue and cellular change, 2D imaging, 3D imaging, | European Unions Horizon 2020 ; NIH Office of the Director R24OD18559; Penn State Human Health and Environment Seed Grant ; Pennsylvania Department of Health Commonwealth Universal Research Enhancement Program Grant |
DOI:10.1101/2022.03.09.483544 | Free, Freely available, | SCR_024913 | 2026-09-19 01:00:09 | 1 | |||||||||
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Penn State Hershey College of Medicine Atomic Force Microscopy Core Facility Resource Report Resource Website 1+ mentions |
Penn State Hershey College of Medicine Atomic Force Microscopy Core Facility (RRID:SCR_025075) | access service resource, core facility, service resource | Provides College of Medicine research community with access to atomic force microscopy equipment and expertise. | ABRF, atomic force microscopy services, |
is listed by: ABRF CoreMarketplace has parent organization: Pennsylvania State Hershey College of Medicine; Pennsylvania; USA |
NIH Office of the Director S10 OD030279 | ABRF_2637 | https://coremarketplace.org/?FacilityID=2637&citation=1 | SCR_025075 | Hershey College of Medicine Atomic Force Microscopy Core Facility, Atomic Force Microscopy Core | 2026-09-19 01:00:14 | 3 | |||||||
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ColabFold Resource Report Resource Website 100+ mentions |
ColabFold (RRID:SCR_025453) | software resource, source code | Software application offers accelerated prediction of protein structures and complexes by combining homology search of MMseqs2 with AlphaFold2 or RoseTTAFold. Used for protein folding. | prediction of protein structures and complexes, protein folding, protein structure prediction, | Max Planck Society ; National Research Foundation of Korea ; NIAID R21AI156595; NIH Office of the Director DP5OD026389; NSF ; Seoul National University ; University of Göttingen |
PMID:35637307 | Free, Available for download, Freely available | https://github.com/sokrypton/ColabFold/blob/main/AlphaFold2.ipynb | SCR_025453 | 2026-09-19 01:00:25 | 493 | ||||||||
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University of Nebraska Medical Center Advanced Microscopy Core Facility Resource Report Resource Website 10+ mentions |
University of Nebraska Medical Center Advanced Microscopy Core Facility (RRID:SCR_022467) | access service resource, core facility, service resource | Facility houses imaging technologies ranging from super resolution (~ 0.120 um to 0.020 um) to microscopic (~ 0.300 um) to mesoscopic (~ 1 um) biomedical imaging. Imaging specialists provide training and/or actively assist researchers collecting images across imaging instrumentation. Instrumentation includes Zeiss ELYRA PS.1 is inverted microscope for super resolution (SR) structured illumination microscopy (SIM) and single molecule localization microscopy (SMLM) including, PhotoActivated Localization Microscopy (PALM) using photo switchable/convertible fluorescent proteins, Total Internal Reflection Fluorescence (TIRF) and STochastic Optical Reconstruction Microscopy (STORM);Zeiss 800 CLSM with Airyscan is an inverted microscope dramatically increasing conventional confocal image resolution to ~180 nm using Airyscan technology; Zeiss 710 LSM is inverted microscope supporting most basic imaging applications, multi channel and spectral, co localization, live cell, 3D, and time series imaging; Zeiss Celldiscoverer 7 is widefield imaging system for automated, time lapse imaging of live samples; Zeiss Axioscan 7 is high performance whole slide scanning system for fluorescence, brightfield, and polarization imaging;Miltenyi Biotec Ultramicroscope II Light Sheet fluorescence microscope (LSFM) extends fluorescent imaging into true 3D, large scale volumetric imaging of intact tissues, organs, and small organisms. AMCF also houses several high-end data analysis workstations with premier image analysis software including HALO (Indica Labs) and IMARIS (Oxford Instruments) facilitating data rendering, analyses, and presentation options. | USEDit, ABRF, biomedical imaging, microscopy |
is listed by: ABRF CoreMarketplace is related to: USEDit has parent organization: University of Nebraska; Nebraska; USA |
NCI CA036727; NCRR RR027301; NIGMS GM103427; NIGMS GM106397; NIH Office of the Director OD030486 |
open | ABRF_1375 | https://coremarketplace.org/?FacilityID=1375&citation=1 | SCR_022467 | UNMC Advanced Microscopy Core Facility | 2026-09-19 12:59:47 | 23 | ||||||
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University of Texas Southwestern Medical Center Quantitative Light Microscopy Core Facility Resource Report Resource Website 1+ mentions |
University of Texas Southwestern Medical Center Quantitative Light Microscopy Core Facility (RRID:SCR_022605) | QLMC | access service resource, core facility, service resource | Provides access to variety of microscope modalities including laser scanning and spinning disk confocal, multiphoton, wide field deconvolution, CFP/YFP FRET, TIRF, single molecule imaging, and more. Offers customized microscopy training, advise and help with sample preparation, image quantification, and offer basic microscope maintenance. Can streamline your data handling and image visualization as well as automate your image analysis workflow through customized Fiji macros. | Light microscopy, laser scanning and spinning disk confocal, multiphoton, wide field deconvolution, CFP/YFP FRET, TIRF, single molecule imaging, ABRF, USEDit |
is related to: USEDit has parent organization: University of Texas Southwestern Medical Center; Texas; USA |
NCI 1P30 CA142543; NCRR 1S10 RR029731; NIH Office of the Director 1S10 OD021684; NIH Office of the Director 1S10OD028630 |
Restricted | SCR_022605 | Quantitative Light Microscopy Core | 2026-09-19 12:59:48 | 2 | |||||||
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La Jolla Institute for Immunology Next Generation Sequencing Core Facility Resource Report Resource Website 1+ mentions |
La Jolla Institute for Immunology Next Generation Sequencing Core Facility (RRID:SCR_023107) | access service resource, core facility, service resource | Core provides latest sequencing technology combined with Institute's expansive bioinformatics capabilities. Provides instrumentation including Illumina Miseq, Covaris Model E220, NovaSeq 6000, Agilent 2200 Tapestation, Beckman Coulter Biomek FXP, HiSeq 2500. | ABRF, USEDit, Next Generation Sequencing, sequencing technology |
is related to: USEDit has parent organization: La Jolla Institute for Immunology |
NIH Office of the Director S10OD016262; NIH Office of the Director S10OD025052 |
Open | SCR_023107 | La Jolla Institute for Immunology Next Generation Sequencing Facility | 2026-09-19 12:59:54 | 9 | ||||||||
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AI-READI Resource Report Resource Website 1+ mentions |
AI-READI (RRID:SCR_027031) | data or information resource, database, portal, project portal | Multidisciplinary data generation project which aims to create and share multimodal dataset optimized for artificial intelligence research in type 2 diabetes. At each release of the AI-READI dataset, two sets will be made available: public access and controlled access set. The public set will be stripped of Protected Health Information (PHI) as well as information related to the sex and race/ethnicity of the participants. | Multidisciplinary data generation, create and share multimodal dataset, artificial intelligence, type 2 diabetes, | is listed by: NIDDK Information Network (dkNET) | NIDDK P30 DK035816; NIH Bridge2AI Program ; NIH Office of the Director 1OT2OD032644 |
PMID:39516364 PMID:39915016 |
SCR_027031 | Artificial Intelligence Ready and Equitable Atlas for Diabetes Insights | 2026-09-19 01:01:03 | 1 |
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