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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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NESCent - National Evolutionary Synthesis Center Resource Report Resource Website 1+ mentions |
NESCent - National Evolutionary Synthesis Center (RRID:SCR_005911) | NESCent | institution | The National Evolutionary Synthesis Center (NESCent) is a nonprofit science center dedicated to cross-disciplinary research in evolution. NESCent promotes the synthesis of information, concepts and knowledge to address significant, emerging, or novel questions in evolutionary science and its applications. NESCent achieves this by supporting research and education across disciplinary, institutional, geographic, and demographic boundaries. Synthetic research in evolutionary science takes many forms but includes integrating novel data sets and models to address important problems within a discipline, developing new analytical approaches and tools, and combining methods and perspectives from multiple disciplines to answer and even create new fundamental scientific questions. NESCent facilitates such synthetic research by providing an environment for fertile interactions among scientists. Our Science and Synthesis program sponsors postdoctoral fellows and sabbatical scholars as resident scientists, and two kinds of meetings, working groups and catalysis meetings. Catalysis meetings provide a novel mechanism for bringing together diverse research communities and cultures to identify common interests, while working groups provide an opportunity for scientists to work together intensively on fundamental synthetic questions over a several-year period. These activities are community driven through our application process and evaluated by an external advisory board. Our Informatics program provides state of the art informatics tools to visiting and in-house scientists and aims to take the lead in assembling novel databases and developing new analytical tools for evolutionary biology. Finally it is sponsoring a major initiative to provide a digital data repository for work in evolutionary biology. NESCent''s Education and Outreach group communicates the results of evolutionary biology research to the general public and scientific community, provides outreach to groups who are underrepresented in evolutionary biology and works to improve evolution education. | evolution, evolutionary biology |
has parent organization: Duke University; North Carolina; USA has parent organization: University of North Carolina at Chapel Hill; North Carolina; USA has parent organization: North Carolina State University; North Carolina; USA is parent organization of: FEED is parent organization of: Phenoscape Knowledgebase is parent organization of: TreeBASE is parent organization of: Dryad Digital Repository |
NSF EF-0905606 | Wikidata: Q6972505, ISNI: 0000 0000 9027 3547, nlx_149487, grid.419343.8, Crossref funder ID: 100007514 | https://ror.org/001ykb961 | SCR_005911 | National Evolutionary Synthesis Center | 2026-08-01 12:03:01 | 7 | ||||||
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SVM-fold: Protein Fold Prediction Resource Report Resource Website |
SVM-fold: Protein Fold Prediction (RRID:SCR_006834) | SVM-fold | service resource | This web server makes predictions of family, superfamily and fold level classifications of proteins based on the Structural Classification of Proteins (SCOP) hierarchy using the Support Vector Machine (SVM) learning algorithm. SVM-FOLD detects subtle protein sequence similarities by learning from all available annotated proteins, as well as utilizing potential hits as identified by PSI-BLAST. Predictions of classes of proteins that do not have any known example with a significant pairwise PSI-BLAST E-value can still be found using SVMs. | has parent organization: University of Washington; Seattle; USA | NIGMS GM74257-01; NSF EIA-0312706 |
nlx_17631 | http://svm-fold.c2b2.columbia.edu/ | SCR_006834 | SVM-fold, Support Vector Machine fold | 2026-08-01 12:03:22 | 0 | |||||||
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DynGO Resource Report Resource Website 1+ mentions |
DynGO (RRID:SCR_007009) | DynGO | software resource | DynGO is a client-server application that provides several advanced functionalities in addition to the standard browsing capability. DynGO allows users to conduct batch retrieval of GO annotations for a list of genes and gene products, and semantic retrieval of genes and gene products sharing similar GO annotations (which requires more disk and memory to handle the semantic retrieval). The result are shown in an association tree organized according to GO hierarchies and supported with many dynamic display options such as sorting tree nodes or changing orientation of the tree. For GO curators and frequent GO users, DynGO provides fast and convenient access to GO annotation data. DynGO is generally applicable to any data set where the records are annotated with GO terms, as illustrated by two examples. Requirements: Java Platform: Windows compatible, Linux compatible, Unix compatible | gene, annotation, browser, ontology or annotation browser |
is listed by: Gene Ontology Tools is related to: Gene Ontology |
NSF IIS-0430743 | PMID:16091147 | Free for academic use | nlx_149118 | http://gauss.dbb.georgetown.edu/liblab | SCR_007009 | DynGO: a tool for visualizing and mining of Gene Ontology and its associations | 2026-08-01 12:03:16 | 6 | ||||
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Local Ancestry in adMixed Populations Resource Report Resource Website 1+ mentions |
Local Ancestry in adMixed Populations (RRID:SCR_001258) | LAMP | software resource | A software package for the inference of locus-specific ancestry in recently admixed populations. LAMP-LD takes the genotypes of admixed individuals as well as reference haplotype panels approximating the mixing ancestral populations, and outputs the estimated number of alleles from each ancestry in each locus for each individual. The LAMP-LD package also includes the program LAMP-HAP, which processes haplotype data when high-quality phasing is available, and utilizes trio nuclear family designs to improve estimation accuracy. LAMP-LD is based on a window-based processing combined within a hierarchical Hidden Markov Model. It can process 2,3 or 5 mixing populations, and its short per-sample processing time makes it suitable for analyzing large datasets of dense SNP panels. The original program LAMP does not use the LD and therefore is not as accurate, but it is useful in cases where the SNP density is not high enough or when the ancestral haplotypes are unkown. | locus, ancestry, admixed, population, genotype, haplotype, allele | is listed by: OMICtools | NSF 513599 | PMID:22495753 PMID:19477991 PMID:18252211 |
THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_02080 | SCR_001258 | 2026-08-01 12:01:44 | 8 | ||||||
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InterNano Process Database Resource Report Resource Website 1+ mentions |
InterNano Process Database (RRID:SCR_013719) | InterNano | Database and knowledge base of techniques for processing nanoscale materials, devices, and structures that includes step-by-step descriptions, images, notes on methodology and environmental variables, and associated references and patent information. The purpose of the Process Database is to facilitate the sharing of appropriate process knowledge across laboratories.The processes included here have been previously published or patented | nanoscale, process knowledge, nanomanufacturing | has parent organization: University of Massachusetts Amherst; Massachusetts; USA | Division of Civil Mechanical and Manufacturing Innovation ; NSF 1025020 |
Free, Public | SCR_013719 | InterNano Resources for Nano Manufacturing | 2026-08-01 12:04:53 | 2 | ||||||||
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Antarctic Marine Geology Research Facility Resource Report Resource Website |
Antarctic Marine Geology Research Facility (RRID:SCR_002213) | AMGRF, ARF | biomaterial supply resource, material resource |
National repository for geological materials collected in polar regions housing over 20,000 meters of deep-sea core sediment and over 5,000 kg of dredge, trawl, and grab samples, the largest such Southern Ocean collection in the world. These materials have been acquired from over 90 USAP research vessel cruises. The Facility also houses and curates nearly 3,000 meters of rotary cored geological material acquired by NSF supported drilling programs in the Antarctic. Replacement cost of this core inventory in terms of ship and ice-based drilling is conservatively estimated to be in the range of $150 to $200M. SESAR or the the System for Earth Sample Registration is a service provided by the IDEA. SESAR operates the registry that distributes the International Geo Sample Number IGSN. SESAR catalogs and preserves sample metadata profiles, and provides access to the sample catalog via the Global Sample Search. Facility services include: * curation of the existing collections at the facility * onsite ship and land based curatorial services * receipt and processing of new cores * core description and publication of core descriptions * distribution of samples from the collection to authorized scientists * hosting of scientific meetings and workshops * tours, lectures, and student education and training in Antarctic geoscience * maintenance of: ** a core and sample database ** an Antarctic geology and marine geology reference library and a searchable End Note computer database of the entire collection ** a satellite IODP/MRC for nannofossils and diatoms |
marine, sediment, deep freeze, polar, international geosample number, geosample, x-ray, antarctic, x-radiograph, map, nannofossil, diatom, data set, metadata |
is listed by: CINERGI has parent organization: Florida State University; Florida; USA |
NSF 838901 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154735 | SCR_002213 | Antarctic Research Facility | 2026-08-01 12:10:39 | 0 | ||||||
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Bacillus Genetic Stock Center (BGSC) Resource Report Resource Website 50+ mentions |
Bacillus Genetic Stock Center (BGSC) (RRID:SCR_014950) | BGSC | biomaterial supply resource, material resource | Supplier of genetically characterized strains, cloning vectors, and bacteriophages for the genus Bacillus and related organisms. The BGSC can distribute these materials to qualified scientists and educators throughout the world. | bacillus, integration vector, cloning vector, strain, bacteriophage |
has parent organization: Ohio State University; Ohio; USA has parent organization: National Science Foundation is hosted by: Ohio State University; Ohio; USA |
NSF 0742066 | Commercially available, Available to the research community | SCR_014950 | Bacillus Genetic Stock Center | 2026-08-01 12:10:57 | 53 | |||||||
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rMATS Resource Report Resource Website 10+ mentions |
rMATS (RRID:SCR_023485) | software resource | Software tool to detect differential alternative splicing events from RNA-Seq data. Calculates P-value and false discovery rate that difference in isoform ratio of gene between two conditions exceeds given user-defined threshold. From RNA-Seq data can automatically detect and analyze alternative splicing events corresponding to all major types of alternative splicing patterns. Handles replicate RNA-Seq data from both paired and unpaired study design. | detection of differential alternative splicing, replicate RNA-Seq data, analysis of paired and unpaired replicates, clinical RNA-Seq datasets, genome studies, | NIGMS R01GM088342; NINDS R01NS076631; NIEHS R01ES024995; NIGMS R01GM105431; NSF DMS1055286; NSF DMS1310391; Alfred Sloan Research Fellowship |
PMID:25480548 | Free, Available to download, Freely available | SCR_023485 | 2026-08-01 12:08:20 | 18 | |||||||||
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ContainerProfiler Resource Report Resource Website 1+ mentions |
ContainerProfiler (RRID:SCR_023770) | software resource | Software tool supports profiling resource utilization including CPU, memory, disk, and network metrics of containerized tasks. Resource utilization metrics are obtained across three levels: virtual machine (VM)/host, container, and process. Implementation leverages facilities provided by Linux operating system that is integral with Docker containers. | Resource profiling, resource utilization, containerized tasks, resource utilization metrics, | NIH R01GM126019; NIH R01GM126019-02S2; NIH U24HG012674; NIH R03AI159286; NSF OAC-1849970 |
DOI:10.48550/arXiv.2005.11491 | Free, Available for download, Freely available | SCR_023770 | 2026-08-01 12:08:22 | 2 | |||||||||
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Bruker: Avance Neo 1.2 GHz NMR Spectrometer Resource Report Resource Website |
Bruker: Avance Neo 1.2 GHz NMR Spectrometer (RRID:SCR_028512) | instrument resource | Spectrometer represents the pinnacle of commercial nuclear magnetic resonance technology. Operating at 28.2 Tesla, this ultra-high-field system is primarily used for advanced structural biology, pharmaceutical research, and materials science. Delivers the highest commercially available spectral resolution, crucial for investigating complex protein dynamics, functional molecular disorders, and viral structures. Console:Avance Neo; Magnet:Gateway; Field Strength: 1.2 GHz; Software:TopSpin 4.4.1 on CentOS 7; Probes:3mm TCI cryoprobe; 3mm BBI room-temperature; 3.2mm HX low-gamma MAS; 1.9mm HX high-gamma MAS; 1.3mm HCN fast MAS; 0.7mm HCN ultra-fast MAS; Chilled SampleCase (up to 24 samples); Automated Tuning and Matching (ATM); Nitrogen Liquefier. | NMR, spectrometer, Gateway 1.2 GHz NMR, | is used by: Ohio State University Campus Chemical Instrument Center NMR Core Facility | NSF RI-1 1935913 | Commercially available | https://raw.githubusercontent.com/SciCrunch/RRID-Instruments/refs/heads/main/PDF/SCR_028512.pdf | Model_Number_Bruker_Avance_Neo_Gateway_1.2 GHz | https://people.ohioinnovationexchange.org/equipment/1696125, https://www.bruker.com/en/products-and-solutions/mr/nmr/avance-nmr-spectrometer.html | SCR_028512 | , Avance Neo 1.2 GHz NMR Spectrometer system, Bruker: Avance Neo Gateway 1.2 GHz NMR Spectrometer system | 2026-08-01 12:14:31 | 0 | |||||
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Fungal Genetics Stock Center Resource Report Resource Website 100+ mentions |
Fungal Genetics Stock Center (RRID:SCR_008143) | biomaterial supply resource, material resource, organism supplier | The Fungal Genetics Stock Center is a resource available to the Fungal Genetics research community and to educational and research organizations in general. While some fungi can cause disease in humans, most people have innate immunity against fungi. Some people with diseases of the immune system are at increased risk of infection by fungi. Drugs have been developed in the last 5 years that help with this. Fungal Genetics is the study of genes and genetic traits in fungi. In the past this has been important in the elucidation of what a gene is, what the genetic material is, how genes relate to enzymes, how enzymes relate to traits and how important traits change or evolve. In the present, Fungal Genetics is important to understanding how fungi are pathogens of plants and animals, how fungi can be used in industry for the production of enzymes, chemicals, food, and drugs. Fungi are also essential to processing bio-mass in the attempt to use ethanol as a fuel source. The FGSC is funded largely by a grant from the National Science Foundation (Award Number 0235887) of the United States of America. Sponsors: Supported by a grant from the National Science Foundation. | drug, fungal genetic, fungus, animal, basic research knowledge base, database, disease, plant, FASEB list | has parent organization: University of Missouri; Missouri; USA | NSF G12967 | nif-0000-20977 | SCR_008143 | FGSC | 2026-08-03 09:33:54 | 190 | ||||||||
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Genes to Cognition - Biological Resources Resource Report Resource Website 1+ mentions |
Genes to Cognition - Biological Resources (RRID:SCR_001675) | G2C Biological Resources | biomaterial supply resource, material resource, organism supplier | Biological resources, including gene-targeting vectors, ES cell lines, antibodies, and transgenic mice, generated for its phenotyping pipeline as part of the Genes to Cognition research program are freely-available to interested researchers. Available Transgenic Mouse Lines: *Hras1 (H-ras) knockout,C57BL/6J *Dlg4 (PSD-95) knockout,129S5 *Dlg4 (PSD-95) knockout,C57BL/6J *Dlg3 (SAP102) knockout with hprt mutation,129S5 *Dlg3 (SAP102) knockout (wild-type for hprt,C57BL/6J *Syngap1 (SynGAP) knockout (from 8.24 clone), C57BL/6J *Dlg4 (PSD-95) guanylate kinase domain deletion, C57BL/6J *Ptk2 (FAK) knockout,C57BL/6J | transgenic, mutant mouse strain, c57bl/6j, 129s5, transgenic mouse line, vector, es cell line, transgenic mouse |
is listed by: One Mind Biospecimen Bank Listing has parent organization: University of Edinburgh; Scotland; United Kingdom |
Wellcome Trust ; MRC ; BBSRC ; Gatsby Charitable Foundation ; Human Frontiers Science Programme ; European Union ; Framework Programme ; EPSRC ; NSF |
Free, Freely Available | nif-0000-10163 | http://www.genes2cognition.org/mice_resources/ | http://www.genes2cognition.org/resources.html | SCR_001675 | G2C Mice Resources, G2C Biological Resources, G2C-Biological Resources, G2C - Biological Resources | 2026-08-03 09:31:24 | 2 | ||||
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Caenorhabditis elegans Natural Diversity Resource (CeNDR) Resource Report Resource Website 10+ mentions |
Caenorhabditis elegans Natural Diversity Resource (CeNDR) (RRID:SCR_014958) | CeNDR | biomaterial supply resource, material resource, organism supplier | Supplier and researcher of wild C. elegans strains. CeNDR supplies organisms, analyzes whole-genome sequences, and facilitates genetic mappings to aid researchers in gene discovery. | c. elegans, caenorhabditis elegans, strains, n2, roundworm, nematode, gene analysis, organism supplier, portal | has parent organization: Northwestern University; Illinois; USA | American Cancer Society Research Scholar Award ; Amazon Web Services Research Grant ; Weinberg College of Arts and Sciences starter innovation award ; Northwestern University Start-up Funds ; NIGMS R01GM107227; NSF DGE-1324585 |
PMID:27701074 | Available to the research community | SCR_014958 | Caenorhabditis elegans Natural Diversity Resource | 2026-08-03 09:35:41 | 22 | ||||||
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Chlamydomonas Resource Center Resource Report Resource Website 100+ mentions |
Chlamydomonas Resource Center (RRID:SCR_014960) | CRC | biomaterial supply resource, material resource, organism supplier | Central repository that receives, catalogs, preserves, and distributes wild type and mutant cultures of the green alga Chlamydomonas reinhardtii, as well as useful molecular reagents and kits for education and research. | Chlamydomonas reinhardtii, green alga, chloroplast, flagellar assembly, chloroplast genomes, catalog, FASEB list | has parent organization: National Science Foundation | NSF 0951671; NSF 00017383 |
Commercially available | SCR_014960 | Chlamydomonas Resource Center (CRC) | 2026-08-03 09:35:57 | 146 | |||||||
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TEtranscripts Resource Report Resource Website 10+ mentions |
TEtranscripts (RRID:SCR_023208) | software toolkit, software resource | Software package for including transposable elements in differential enrichment analysis of sequencing datasets. Used for including transposable elements in differential expression analysis of RNA-seq datasets. RNAseq TE quantification tool. | Transposable Elements, transposable elements, RNAseq TE, sequencing datasets, RNAseq TE quantification | uses: DESeq2 | Rita Allen Foundation ; NSF MCB 1159098; NCI CA 045508 |
PMID:26206304 | Free, Available for download, Freely available | SCR_023208 | 2026-08-02 09:08:42 | 15 | ||||||||
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DADA2 Resource Report Resource Website 500+ mentions |
DADA2 (RRID:SCR_023519) | software toolkit, software resource | Open source software R package for modeling and correcting Illumina sequenced amplicon errors. Fast and accurate sample inference from amplicon data with single nucleotide resolution. | modeling and correcting amplicon errors, Illumina sequenced amplicon errors, amplicon errors, sample inference, amplicon data, single nucleotide resolution |
is used by: ImmuMicrobiome is related to: dadasnake has parent organization: Stanford University; Stanford; California |
NSF ; NIAID R01AI112401; Samarth Foundation |
PMID:27214047 | Free, Available for download, Freely available | https://bioconductor.org/packages/dada2/ | SCR_023519 | 2026-08-02 09:08:38 | 960 | |||||||
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GeneWays Resource Report Resource Website |
GeneWays (RRID:SCR_000572) | Geneways | service resource | System for automatically extracting, analzying, visualizing and integrating molecular pathway data from the research literature. System focuses on interactions between molecular substances and actions, providing a graphical consensus view on the collected information. GeneWays is designed as open platform, allowing researchers to query, review and critique integrated information. | pathway, molecule, literature, natural language processing, gene, protein, interaction, database |
is listed by: OMICtools has parent organization: Argonne National Laboratory has parent organization: Columbia University; New York; USA |
NSF ; DOE ; NIGMS GM61372 |
PMID:15016385 | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-30019, SCR_008368, OMICS_01182 | http://anya.igsb.anl.gov/genewaysApp | SCR_000572 | GeneWays: A System for Extracting Analyzing Visualizing and Integrating Molecular Pathway Data, GeneWays: A System for Extracting Analyzing Visualizing Integrating Molecular Pathway Data | 2026-08-02 09:02:54 | 0 | ||||
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metagear Resource Report Resource Website |
metagear (RRID:SCR_017085) | software toolkit, software resource | Software R package for research synthesis taxonomy from applying systematic review approach to assemble and screen literature, to extract data from studies, and to summarize and analyze these data with statistics of meta analysis. | sythesis, taxonomy, systematic, review, assemble, screen, literature, extract, meta, data, analysis, statistical |
is listed by: CRAN is related to: R Project for Statistical Computing has parent organization: University of South Carolina; South Carolina; USA |
NSF DBI-1262545; NSF DEB-1451031 |
DOI:10.1111/2041-210X.12472 | Free, Available for download, Freely available | https://github.com/cran/metagear, https://lajeunesse.myweb.usf.edu | SCR_017085 | 2026-08-02 09:07:40 | 0 | |||||||
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ipyrad Resource Report Resource Website 10+ mentions |
ipyrad (RRID:SCR_022016) | software toolkit, software resource | Software interactive toolkit for assembly and analysis of restriction site associated genomic data sets including RAD, ddRAD, GBS, for population genetic and phylogenetic studies. Used for interactive assembly and analysis of RADseq data sets. | RADseq data sets interactive assembly and analysis, data assembly, data analysis, restriction site associated genomic data, genomic data, restriction site, | NSF DEB1253710; NSF DEB1745562; NSF DEB1557059; Sao Paulo Research Foundation ; Graduate Center of the City University of New York |
DOI:10.1093/bioinformatics/btz966 | Free, Available for download, Freely available | SCR_022016 | 2026-08-02 09:08:21 | 20 | |||||||||
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Datasharing.net Resource Report Resource Website |
Datasharing.net (RRID:SCR_003312) | Datasharing.net | topical portal, portal, data or information resource | The U.S. National Institutes of Health Final NIH Statement on Sharing Research Data (NIH-OD-03-032) is now in effect. It specifies that all high-direct-cost NIH grant applications include plans for sharing of research data. To support and encourage collegial, enabling, and rewarding data sharing for neuroscience and beyond, the Laboratory of Neuroinformatics at Weill Medical College of Cornell University has established this site. A source of, and portal to, tools and proposals supporting the informed exchange of neuroscience data. | data management, neuroinformatics, data sharing | has parent organization: Weill Cornell Medical College; New York; USA | Human Brain Project ; NSF ; NIMH MH/NS57153; NINDS MH/NS57153 |
THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-00061 | SCR_003312 | DataSharing | 2026-08-04 09:40:52 | 0 |
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