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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Astrocyte Reactivity RNA-Seq Browser Resource Report Resource Website 1+ mentions |
Astrocyte Reactivity RNA-Seq Browser (RRID:SCR_015033) | data or information resource, database | Database containing information about RNA-sequencing and astrocyte reactivity. Searching a gene through this engine provides differential expression data for various experimental conditions. | astrocyte, glia, reactivity, rna-seq, search engine | has parent organization: University of California Los Angeles Department of Neurobiology | NIH NS057624; NIH NS084030; NIH P30 NS062691; NIH NS060677; NIH MH099559A; NIH MH104069; Dr. Miriam and Sheldon G. Adelson Medical Foundation ; Wings for Life |
PMID:27027288 | Public | SCR_015033 | 2026-02-14 02:06:46 | 3 | ||||||||
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Nonhuman Primate Reagent Resource Resource Report Resource Website 100+ mentions |
Nonhuman Primate Reagent Resource (RRID:SCR_012986) | NHPRR | material resource, antibody supplier, 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 | NIH Office of the Director R24 OD010976; NIH HHSN272200900037C; NIH HHSN286200400101C; NIH HHSN2722001300031C; NIAID AI126683; NCRR RR016001; NIAID AI040101; NIH 272200900037C; NIH 286200400101C; NIH AI-126683; NIH OD-010976; NIH RR-016001; NIH 2722001300031C; NIH 272201300031C; NIH AI-040101; NIH NHPRR |
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 | 2026-02-14 02:05:32 | 221 | ||||||
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National Centers for Biomedical Computing Resource Report Resource Website 1+ mentions |
National Centers for Biomedical Computing (RRID:SCR_010635) | NCBC | data or information resource, organization portal, portal | The NCBCs are a set of networked computation core facilities for biomedical infrastructure funded under the NIH Common Fund, the National Program of Excellence in Biomedical Computing (NPEBC). There are seven funded Centers that cover systems biology, image processing, biophysical modeling, biomedical ontologies, information integration, and tools for gene-phenotype and disease analysis. The centers will create innovative software programs and other tools that enable the biomedical community to integrate, analyze, model, simulate, and share data on human health and disease. Each Center has Cores that are focused on (1) computational science, (2) biomedical computational science and (3) driving biological projects whose intent is to drive the interaction between computational and biomedical computational science. In addition to the Centers, the NIH has a number of active program announcements to develop collaborations with the biomedical research community��this includes announcements from the Biomedical Information Science and Technology Initiative (BISTI) and the Program for Collaborations with National Centers for Biomedical Computing. There are numerous efforts in education and training that emanate from the Centers and there is an annual all hands meeting. | nih (common fund) |
is related to: iDASH is related to: iTools is related to: Center for Computational Biology at UCLA is related to: i2b2 Research Data Warehouse is related to: Informatics for Integrating Biology and the Bedside is related to: National Alliance for Medical Image Computing is related to: Simbios is related to: National Center for Biomedical Ontology is related to: National Center for Integrative Biomedical Informatics is related to: MAGNet - Multiscale Analysis of Genomic and Cellular Networks is related to: iDASH has parent organization: National Institutes of Health is parent organization of: Biositemaps is parent organization of: National Center for Biomedical Ontology is parent organization of: Biomedical Resource Ontology is parent organization of: National Alliance for Medical Image Computing is parent organization of: NCBO Annotator |
NIH | nlx_62048 | SCR_010635 | NIH Roadmap National Centers for Biomedical Computing | 2026-02-14 02:05:35 | 1 | |||||||
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Complex Portal Resource Report Resource Website 1+ mentions |
Complex Portal (RRID:SCR_015038) | data or information resource, portal, database | Database and encyclopaedic resource of macromolecular complexes found in key model organisms from scientific literature. Data includes protein-only complexes, protein-small molecules, and protein-nucleic acid complexes. The information within the portal is manually curated and available for download. | database, molecular complex, model organism | European Molecular Biology Laboratories Core Funding ; NIH 268201000035C; BBSRC BB/L024179/1 |
PMID:25313161 DOI:10.1093/nar/gku975 |
Open source, Available for download | r3d100013295 | https://doi.org/10.17616/R31NJMR3 | SCR_015038 | EBI Complex Portal | 2026-02-14 02:05:35 | 1 | ||||||
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Inxight Resource Report Resource Website 10+ mentions |
Inxight (RRID:SCR_016490) | data or information resource, organization portal, portal, database | Portal of NCATS (the National Center for Advancing Translational Sciences) for drug development information including:US approved drugs, marketed drugs, investigational drugs. Provides manually curated data supplied by the FDA and private companies. Provides drugs marketing and regulatory status, drug ingredient definitions, biological activity and clinical use. | drug, development, information, approved, marketed, investigational, data, supply, FDA, company, regulatory, status, ingredient, definition, biological, activity, clinical, use | NIH | Free, Freely available | SCR_016490 | 2026-02-14 02:05:14 | 11 | ||||||||||
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OCICB Resource Report Resource Website |
OCICB (RRID:SCR_016597) | OCICB | data or information resource, organization portal, portal | Office of Cyber Infrastructure and Computational Biology of NIAID. | office, cyber, infrastructure, computational, biology, NIAID |
has parent organization: NIAID is parent organization of: Nephele |
NIH | SCR_016597 | Office of Cyber Infrastructure and Computational Biology | 2026-02-14 02:05:37 | 0 | ||||||||
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KOMP2 Resource Report Resource Website 1+ mentions |
KOMP2 (RRID:SCR_017528) | data or information resource, portal, project portal | Knockout Mouse Phenotyping Project, JAX information about their contributions to KOMP2 project. Project to generate and phenotype single gene KO mouse strains from KOMP ES cell lines. Strains are phenotyped using protocols in pipeline designed by International Mouse Phenotyping Consortium. There are three NIH-funded phenotyping centers in United States: JAX, BaSH Consortium (Baylor College of Medicine, the Wellcome Trust Sanger Institute and MRC Harwell), and the DTCC Consortium (University of California at Davis, the Toronto Center for Phenogenomics, Children’s Hospital Oakland Research Institute (CHORI) and Charles River ). | Generate, phenotype, single, gene, KO mouse, strain, KOMP ES cell line, IMPC, JAX |
is related to: International Mouse Phenotyping Consortium (IMPC) is related to: Knockout Mouse Project is related to: Knockout Mouse Project |
NIH | Free, Freely available | SCR_017528 | Knockout Mouse Phenotyping Project | 2026-02-14 02:05:16 | 2 | ||||||||
|
Science of Behavior Change Research Network Resource Report Resource Website |
Science of Behavior Change Research Network (RRID:SCR_017385) | SOBC | data or information resource, portal, project portal | Repository for behavioral science measures that have been validated or are in process of being validated in accordance with SOBC Experimental Medicine Approach. | Data, behavioral, science, SOBC, measure, data, medicine | NIH | SCR_017388 | https://scienceofbehaviorchange.org/measures/ https://scienceofbehaviorchange.org/measures/ |
SCR_017385 | SOBC Measures Repository, Science of Behavior Change (SOBC) Research Network | 2026-02-14 02:05:41 | 0 | |||||||
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MashMap Resource Report Resource Website 10+ mentions |
MashMap (RRID:SCR_022194) | data processing software, alignment software, software application, software resource, image analysis software | Software tool as fast approximate aligner for long DNA sequences. Used for computing local alignment boundaries between long DNA sequences. | mapping genome assembly, long DNA sequences, long reads, reference genome, long DNA sequences aligner | NSF CCF1816027; National Human Genome Research Institute ; NIH |
PMID:30423094 DOI:10.1007/978-3-319-56970-3_5 |
Free, Available for download, Freely available | SCR_022194 | 2026-02-14 02:04:44 | 27 | |||||||||
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Thermo Orbitrap Eclipse nanoLC/MS system Resource Report Resource Website 10+ mentions |
Thermo Orbitrap Eclipse nanoLC/MS system (RRID:SCR_022212) | instrument resource | System includes Thermo Orbitrap Eclipse Tribid mass spectrometer and Waters M-Class Acquity nanoUPLC. This platform features sequential acquisition capabilities and multiple fragmentation types, enabling complex, in depth proteomic experiments. | Thermo Orbitrap Eclipse Tribrid mass spectrometer, Waters M-Class Acquity nanoUPLC, instrument, equipment, USEDit |
is listed by: USEDit is related to: Stanford University Vincent Coates Foundation Mass Spectrometry Laboratory Core Facility |
NIH S10 OD030473 | SCR_022212 | Thermo Orbitrap Eclipse nanoLC/MS, Orbitrap Eclipse nanoLC/MS | 2026-02-14 02:04:44 | 13 | |||||||||
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Kids First Data Resource Portal Resource Report Resource Website 1+ mentions |
Kids First Data Resource Portal (RRID:SCR_016493) | DRP | data repository, storage service resource, portal, data or information resource, organization portal, service resource, disease-related portal, topical portal, database | Portal for analysis and interpretation of pediatric genomic and clinical data to advance personalized medicine for detection, therapy, and management of childhood cancer and structural birth defects. For patients, researchers, and clinicians to create centralized database of well curated clinical and genetic sequence data from patients with childhood cancer or structural birth defects. | pediatric, genomic, clinical, disease, data, children, cancer, birth, defect, analysis | is recommended by: National Library of Medicine | pediatric cancer, birth defect | the Common Fund’s Gabriella Miller Kids First Pediatric Research Program ; NIH |
Restricted | SCR_016553 | https://commonfund.nih.gov/kidsfirst https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs001168.v1.p1 https://commonfund.nih.gov/kidsfirst |
SCR_016493 | Data Resource Portal | 2026-02-14 02:04:57 | 3 | ||||
|
BeWith Resource Report Resource Website |
BeWith (RRID:SCR_016573) | BeWith | data analysis software, software resource, data processing software, software application | Software tool for discovering relationships between cancer modules via integrated analysis of mutual exclusivity, co-occurrence and functional interactions. | clustering, framework, identify, module, mutation, interaction, pattern, gene, cancer | Naomi Kadar award ; NIH |
DOI:10.1371/journal.pcbi.1005695 | Free, Available for download, Freely available | SCR_016573 | BEtweenWITHin, Between-Within, BeWith | 2026-02-14 02:04:34 | 0 | |||||||
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Exemplar Microscopy Images of Tissues Resource Report Resource Website 1+ mentions |
Exemplar Microscopy Images of Tissues (RRID:SCR_021052) | EMIT | immuno detection protocol, experimental protocol, data repository, storage service resource, 2d spatial image, image collection, data set, data or information resource, immunofluorescence, service resource, image, image repository, narrative resource | Reference dataset of multiplexed immunofluorescence microscopy images collected at HMS Laboratory of Systems Pharmacology. Includes set of images of different types for development and benchmarking of computational methods for image processing. As of 4/2/2021, EMIT comprises tissue microarray containing cores from 34 cancer, non-neoplastic diseases, and normal tissue collected from clinical discards under IRB supervised protocol. TMA was imaged using cyclic immunofluorescence method. Additional extensions of EMIT are currently in the planning stages. Long term goal is to compose ImageNet like resource for highly multiplexed images of tissues and tumors by consolidating high quality curated datasets. | Reference dataset, multiplexed immunofluorescence microscopy images, tissue microarray, cyclic immunofluorescence, tissues images, tumors images |
is related to: Synapse is related to: Harvard Medical School; Massachusetts; USA |
glioblastoma, lung adenocarcinoma, prostate adenocarcinoma, seminoma, meningioma, mesothelioma, GI stromal tumor, liver cirrhosis, leiomyosarcoma, high-grade serous ovarian cancer, diverticulitis, acute appendicitis, metastatic melanoma, dedifferentiated liposarcoma | NIH U54 CA225088; NCI U2C CA233262; NCI U2C CA233280; Ludwig Center at Harvard Medical School and the Ludwig Cancer Research Foundation |
DOI:10.1101/2021.03.15.435473 | Restricted | SCR_021052 | Exemplar Microscopy Images of Tissues ( and Tumors) | 2026-02-14 02:04:09 | 3 | |||||
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Neurodata Extensions Catalog Resource Report Resource Website 1+ mentions |
Neurodata Extensions Catalog (RRID:SCR_021340) | NDX Catalog | catalog, data or information resource, software application, software resource, database | Community led catalog of extensions to Neurodata Without Borders data standard. | Extensions catalog, NWB, Neurodata Without Borders, data standard, Neurodata Without Borders data standard, software tools catalog |
is related to: Neurodata Without Borders is related to: PyNWB is related to: Hierarchical Data Modeling Framework |
NIH | Free, Available for download, Freely Available | https://github.com/nwb-extensions | SCR_021340 | 2026-02-14 02:04:38 | 1 | |||||||
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Analysis, Visualization, and Informatics Lab-space (AnVIL) Resource Report Resource Website 10+ mentions |
Analysis, Visualization, and Informatics Lab-space (AnVIL) (RRID:SCR_017469) | AnVIL | data repository, storage service resource, portal, data or information resource, service resource, project portal | Portal to facilitate integration and computing on and across large datasets generated by NHGRI programs, as well as initiatives funded by National Institutes of Health or by other agencies that support human genomics research. Resource for genomic scientific community, that leverages cloud based infrastructure for democratizing genomic data access, sharing and computing across large genomic, and genomic related data sets. Component of federated data ecosystem, and is expected to collaborate and integrate with other genomic data resources through adoption of FAIR (Findable, Accessible, Interoperable, Reusable) principles, as their specifications emerge from scientific community. Will provide collaborative environment, where datasets and analysis workflows can be shared within consortium and be prepared for public release to broad scientific community through AnVIL user interfaces. | Dataset, NHGRI, program, NIH, initiative, funded, human, genomic, data, access, sharing, FAIR, analysis, workflow |
is recommended by: NIDDK Information Network (dkNET) is recommended by: National Library of Medicine is recommended by: NIDDK - National Institute of Diabetes and Digestive and Kidney Diseases |
NIH | Restricted | https://www.genome.gov/Funded-Programs-Projects/Computational-Genomics-and-Data-Science-Program/Genomic-Analysis-Visualization-Informatics-Lab-space-AnVIL | SCR_017469 | Visualization, and Informatics Lab-space, AnVIL, Analysis Visualization and Informatics Lab-space, Analysis | 2026-02-14 02:03:12 | 24 | ||||||
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Hemodialysis Pilot Studies Consortium Resource Report Resource Website |
Hemodialysis Pilot Studies Consortium (RRID:SCR_017468) | HDPSC | data or information resource, organization portal, portal, consortium | Consortium to design and conduct pilot and feasibility studies of novel therapies to reduce morbidity and mortality for patients treated with maintenance hemodialysis. Data Coordinating Center (DCC) for consortium provides scientific expertise and operational support for pilot studies that will be conducted at HDPSC Participating Clinical Centers. Data Coordinating Center for Hemodialysis Pilot Studies Consortium. | Novel, therapy, reduce, morbidity, patient, maintenance, hemodialysis, data, coordinating, center | has parent organization: University of Pennsylvania Perelman School of Medicine; Pennsylvania; USA | NIH ; NIDDK |
SCR_017468 | 2026-02-14 02:03:28 | 0 | |||||||||
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PatchDock Resource Report Resource Website 50+ mentions |
PatchDock (RRID:SCR_017589) | web service, software application, data access protocol, software resource, simulation software | Web server for molecular docking. Performs structure prediction of protein–protein and protein–small molecule complexes. Molecular docking algorithm based on shape complementarity principles. | Molecular, docking, structure, prediction, protein, molecule, shape, complex, bio.tools |
is listed by: Debian is listed by: bio.tools |
Israel Science Foundation ; Hermann Minkowski-Minerva Center for Geometry at Tel Aviv University ; Israeli Ministry of Science ; National Cancer Institute ; NIH |
PMID:15980490 | Free, Freely available | biotools:patchdock | https://bio.tools/patchdock | SCR_017589 | 2026-02-14 02:03:22 | 85 | ||||||
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immuneXpresso Resource Report Resource Website |
immuneXpresso (RRID:SCR_017578) | text-mining software, data or information resource, service resource, software application, software resource | Software tool as text-mining engine that structures and standardizes knowledge of immune intercellular communication. Knowledgebase contains interactions and separate mentions of cells or cytokines in context of thousands of diseases. Intercellular interactions were text-mined from all available PubMed abstracts across disease conditions. | Structure, standardize, immune, cellular, interaction, cytokine, disease, cell, PubMed, abstract |
is listed by: NIDDK Information Network (dkNET) is listed by: OMICtools |
NIH ; NIAID ; Rappaport Family Institute for Research in the Medical Sciences |
PMID:29912209 | Free, Freely available | SCR_017578 | 2026-02-14 02:03:22 | 0 | ||||||||
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The Human BioMolecular Atlas Program Resource Report Resource Website 10+ mentions |
The Human BioMolecular Atlas Program (RRID:SCR_016922) | HuBMAP | data or information resource, funding resource, portal, project portal | Project to facilitate research on single cells within tissues by supporting data generation and technology development to explore the relationship between cellular organization and function, as well as variability in normal tissue organization at the level of individual cells. Framework for functional mapping the human body with cellular resolution.Designed to support diverse spatial and non-spatial omics and imaging data types and to integrate with a wide range of analysis workflows. | organism, cell, tissue, data, generation, technology, organization, functional, mapping, human, body |
uses: Azimuth is listed by: NIDDK Information Network (dkNET) is related to: HuBMAP Data Portal |
NIH | https://humanatlas.io/omap https://avr.hubmapconsortium.org/ https://commonfund.nih.gov/HuBMAP https://zenodo.org/records/5244551 |
SCR_016922 | Human BioMolecular Atlas Program, HuBMAP, The Human BioMolecular Atlas Program, NIH HuBMAP | 2026-02-14 02:03:11 | 22 | |||||||
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EMAN Resource Report Resource Website 100+ mentions |
EMAN (RRID:SCR_016867) | EMAN | image processing software, software resource, data processing software, software application | Software suite for processing data from transmission electron microscopes. Used in supercomputing facilities as a test application for large-scale computing. Used for single particle reconstruction, helical reconstruction, 2-D crystallography and whole-cell tomography. | image, processing, data, transmission, electron, microscope, single, particle, reconstruction, helical, 2D, whole, cell, tomography, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian is listed by: SoftCite |
NIH | PMID:16859925 | Free, Available for download, Freely available | biotools:eman | https://bio.tools/eman | https://blake.bcm.edu/emanwiki/EMAN1 | SCR_016867 | EMAN1, EMAN2 | 2026-02-14 02:03:20 | 106 |
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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 2U24DK097771-09.
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