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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Lists2Networks Resource Report Resource Website 1+ mentions |
Lists2Networks (RRID:SCR_006323) | L2N | service resource, analysis service resource, data analysis service, production service resource | A web-based software system that allows users to upload lists of mammalian genes/proteins onto a server-based program for integrated analysis. The system includes web-based tools to manipulate lists with different set operations, to expand lists using existing mammalian networks of protein-protein interactions, co-expression correlation, or background knowledge co-annotation correlation, as well as to apply gene-list enrichment analyses against many gene-list libraries of prior biological knowledge such as pathways, gene ontology terms, kinase-substrate, microRNA-mRAN, and protein-protein interactions, metabolites, and protein domains. Such analyses can be applied to several lists at once against many prior knowledge libraries of gene-lists associated with specific annotations. The system also contains features that allow users to export networks and share lists with other users of the system. | high-throughput sequencing, analysis, gene, protein |
is listed by: OMICtools has parent organization: Icahn School of Medicine at Mount Sinai; New York; USA |
PMID:20152038 | Free, Public, Account required | OMICS_02231 | http://www.lists2networks.org | SCR_006323 | Lists2Networks: Integrated analysis of gene/protein lists | 2026-02-15 09:19:25 | 3 | |||||
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MVZ Collections Resource Report Resource Website 1+ mentions |
MVZ Collections (RRID:SCR_010608) | MVZ Collections | material resource, biomaterial supply resource | A collection of over 640,000 specimens of amphibians, reptiles, birds, bird eggs or nests, and mammals, as well as over 50,000 tissue samples from these vertebrate groups. These research collections are ranked as one of the largest in the United States, and the largest of any university museum. In addition, the Museum has numerous special collections that include archived field notes and photographs, historical annotated maps and correspondence, avian sound recordings, chromosome and histology preparations, Milton Hildebrand anatomical and film collections, artwork related to terrestrial vertebrate natural history, and a library of books, reprints, and journals for curation and research activities. Specimen data are accessible online, and the Museum is working to improve data access to the other collections. Museum Collections * Mammal Collection * Herpetological Collection * Bird Collection * Egg & Nest Collection * Tissue Collection * Fieldnotes, Photos, & Map Collection * Other Collections The Museum of Vertebrate Zoology (MVZ) welcomes donations of amphibians, reptiles, birds, bird eggs and nests, mammals and related materials. Acceptance of a donation is at the discretion of MVZ Curators. * Specimens -- May include preserved specimens and/or parts (e.g., tissue samples) as well as unpreserved material (e.g., frozen carcasses, live animals) that will be prepared by Museum Curators, curatorial staff, or students. * Related Materials -- Donations of images (digital or printed photographs or slides), sound recordings, field notes, and other natural history archival material. Materials must be connected to specimens or research projects. Donated material and associated data will be made available for research, education, or public exhibit according to the mission and policies of the Museum and Regents, except by prior signed agreement between the donor and the Museum. | tissue, dna, egg, nest, tissue, blood, protein extract, skin, skeleton |
is listed by: One Mind Biospecimen Bank Listing has parent organization: Museum of Vertebrate Zoology |
Will provide limited grants of tissue from its collections to qualified researchers | nlx_51505 | SCR_010608 | Museum of Vertebrate Zoology Collections | 2026-02-15 09:20:19 | 1 | |||||||
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NeuroMab Resource Report Resource Website 1000+ mentions |
NeuroMab (RRID:SCR_003086) | NeuroMab | organization portal, data or information resource, portal | A national mouse monoclonal antibody generating resource for biochemical and immunohistochemical applications in mammalian brain. NeuroMabs are generated from mice immunized with synthetic and recombinant immunogens corresponding to components of the neuronal proteome as predicted from genomic and other large-scale cloning efforts. Comprehensive biochemical and immunohistochemical analyses of human, primate and non-primate mammalian brain are incorporated into the initial NeuroMab screening procedure. This yields a subset of mouse mAbs that are optimized for use in brain (i.e. NeuroMabs): for immunocytochemical-based imaging studies of protein localization in adult, developing and pathological brain samples, for biochemical analyses of subunit composition and post-translational modifications of native brain proteins, and for proteomic analyses of native brain protein networks. The NeuroMab facility was initially funded with a five-year U24 cooperative grant from NINDS and NIMH. The initial goal of the facility for this funding period is to generate a library of novel NeuroMabs against neuronal proteins, initially focusing on membrane proteins (receptors/channels/transporters), synaptic proteins, other neuronal signaling molecules, and proteins with established links to disease states. The scope of the facility was expanded with supplements from the NIH Blueprint for Neuroscience Research to include neurodevelopmental targets, the NIH Roadmap for Medical Research to include epigenetics targets, and NIH Office of Rare Diseases Research to include rare disease targets. These NeuroMabs will then be produced on a large scale and made available to the neuroscience research community on an inexpensive basis as tissue culture supernatants or purified immunoglobulin by Antibodies Inc. The UC Davis/NIH NeuroMab Facility makes NeuroMabs available directly to end users and is unable to accommodate sales to distributors for third party distribution. Note, NeuroMab antibodies are now offered through antibodiesinc. | antibody, brain, channel, disease-related protein, k channel subunit, mab, mammalian, membrane protein, monoclonal antibody, mouse, neuronal monoclonal antibody, neuronal protein, neuronal signaling molecule, reagent, receptor, research reagent, synaptic protein, transporter |
is used by: NIF Data Federation is listed by: OMICtools has parent organization: University of California at Davis; California; USA |
NINDS ; NIMH ; NIH Blueprint for Neuroscience Research ; NIH Roadmap for Medical Research ; Office of Rare Diseases Research ; Antibodies Inc. |
Free, Freely available | grid.482686.6, nif-0000-00175 | https://ror.org/00fyrp007 | SCR_003086 | UCDavis/NIH NeuroMab Facility, antibodies.inc, antibodiesinc.com, antibodiesinc | 2026-02-15 09:18:26 | 1810 | |||||
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RIKEN integrated database of mammals Resource Report Resource Website |
RIKEN integrated database of mammals (RRID:SCR_006890) | RIKEN integrated database of mammals | data or information resource, database, portal |
THIS RESOURCE IS NO LONGER IN SERVICE. Documented on August 16, 2019. A database that integrates not only RIKEN''''s original large-scale mammalian databases, such as FANTOM, the ENU mutagenesis program, the RIKEN Cerebellar Development Transcriptome Database and the Bioresource Database, but also imported data from public databases, such as Ensembl, MGI and biomedical ontologies. Our integrated database has been implemented on the infrastructure of publication medium for databases, termed SciNetS/SciNeS, or the Scientists'''' Networking System, where the data and metadata are structured as a semantic web and are downloadable in various standardized formats. The top-level ontology-based implementation of mammal-related data directly integrates the representative knowledge and individual data records in existing databases to ensure advanced cross-database searches and reduced unevenness of the data management operations. Through the development of this database, we propose a novel methodology for the development of standardized comprehensive management of heterogeneous data sets in multiple databases to improve the sustainability, accessibility, utility and publicity of the data of biomedical information. |
integration, network, standardization, biomedical, bio.tools |
is listed by: Debian is listed by: bio.tools is related to: Functional Annotation of the Mammalian Genome is related to: Cerebellar Development Transcriptome Database is related to: Ensembl is related to: Mouse Genome Informatics (MGI) is related to: OBO has parent organization: RIKEN Yokohama Institute; Kanagawa; Japan |
Japanese Ministry of Education Culture Sports Science and Technology MEXT | PMID:21076152 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_151886, biotools:riken | https://bio.tools/riken | SCR_006890 | 2026-02-15 09:19:20 | 0 | |||||
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BioCyc Resource Report Resource Website 500+ mentions |
BioCyc (RRID:SCR_002298) | data or information resource, database | A collection of Pathway/Genome Databases which describes the genome and metabolic pathways of a single organism. The BioCyc collection of Pathway/Genome Databases (PGDBs) provides an electronic reference source on the genomes and metabolic pathways of sequenced organisms. BioCyc PGDBs are generated by software that predicts the metabolic pathway complements of completely sequenced organisms from their genome sequences. They also include the results of a number of other computational inference procedures applied to these genomes, including predictions of which genes code for missing enzymes in metabolic pathways, and predicted operons. The BioCyc Web site provides a suite of software tools for database searching and visualization, for omics data analysis, and for comparative genomics and comparative pathway questions. The databases within the BioCyc collection are organized into tiers according to the amount of manual review and updating they have received. Tier 1 PGDBs have been created through intensive manual efforts, and receive continuous updating. Tier 2 PGDBs were computationally generated by the PathoLogic program, and have undergone moderate amounts of review and updating. Tier 3 PGDBs were computationally generated by the PathoLogic program, and have undergone no review and updating. There are 967 DBs in Tier 3. The downloadable version of BioCyc that includes the Pathway Tools software provides more speed and power than the BioCyc Web site. | database, pathway/genome databases, PGDB, genome, metabolic pathway, microbiome, FASEB list |
uses: Pathway Tools is used by: PathCase Pathways Database System lists: Pathway Tools lists: EcoCyc lists: MetaCyc lists: HumanCyc: Encyclopedia of Homo sapiens Genes and Metabolism is listed by: LabWorm is listed by: Human Microbiome Project is related to: Pathway Tools is related to: PathCase Pathways Database System is related to: EcoCyc is related to: MetaCyc is related to: HumanCyc: Encyclopedia of Homo sapiens Genes and Metabolism is related to: EcoCyc is related to: Gramene is related to: NCBI BioSystems Database is related to: KOBAS is related to: Tuberculosis Database is related to: Pathway Tools has parent organization: Stanford Research Institute International |
NIGMS GM080746 | PMID:16246909 | Restricted | nif-0000-00369, r3d100011259 | https://doi.org/10.17616/R36G8H | SCR_002298 | BioCyc Database Collection | 2026-02-14 02:00:23 | 970 | |||||
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MPO Resource Report Resource Website 10+ mentions |
MPO (RRID:SCR_004855) | MPO, MP | data or information resource, ontology, controlled vocabulary | Community ontology to provide standard terms for annotating mammalian phenotypic data. It has a hierarchical structure that permits a range of detail from high-level, broadly descriptive terms to very low-level, highly specific terms. This range is useful for annotating phenotypic data to the level of detail known and for searching for this information using either broad or specific terms as search criteria. Your input is welcome. | mus, phenotype, obo |
is used by: NIF Data Federation is listed by: BioPortal is related to: Rat Genome Database (RGD) is related to: MouseBook is related to: Neurocarta is related to: phenomeNET has parent organization: OBO has parent organization: Mouse Genome Informatics (MGI) |
PMID:17989687 | The community can contribute to this resource | nlx_83784 | http://obofoundry.org/cgi-bin/detail.cgi?id=mammalian_phenotype http://purl.bioontology.org/ontology/MP |
SCR_004855 | Mammalian Phenotype Ontology | 2026-02-14 02:00:48 | 19 | |||||
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Common Upper Mammalian Brain Ontology Resource Report Resource Website |
Common Upper Mammalian Brain Ontology (RRID:SCR_003629) | CUMBO | data or information resource, ontology, controlled vocabulary | Ontology of formal definitions (i.e., machine processable) for the types of structures commonly described in neuroanatomy. | neuroanatomy, brain |
is related to: Linked Neuron Data has parent organization: International Neuroinformatics Coordinating Facility has parent organization: NeuroLex |
nlx_157809 | http://neurolex.org/wiki/Cumbo_terms | SCR_003629 | INCF-CUMBO, Common Upper Mammalian Brain Ontology (CUMBO) | 2026-02-14 02:00:52 | 0 | |||||||
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ERANGE Resource Report Resource Website 10+ mentions |
ERANGE (RRID:SCR_005240) | ERANGE | software resource | Software for Mapping and Quantifying Mammalian Transcriptomes by RNA-Seq. Its functions are to (i) assign reads that map uniquely in the genome to their site of origin and, for reads that match equally well to several sites (''multireads''), assign them to their most likely site(s) of origin; (ii) detect splice-crossing reads and assign them to their gene of origin; (iii) organize reads that cluster together, but do not map to an already known exon, into candidate exons or parts of exons; and (iv) calculate the prevalence of transcripts from each known or newly proposed RNA, based on normalized counts of unique reads, spliced reads and multireads. The new candidate RNA regions produced can be thought of as ESTs, and, like ESTs, some are provisionally appended to existing gene models if they meet several additional criteria. Remaining unassigned candidate transcribed regions (labeled RNAFAR features) can then be used in conjunction with other confirming data to develop new or revised gene models. | transcriptome, rna-seq, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools |
PMID:18516045 | OMICS_01274, biotools:erange | https://bio.tools/erange | SCR_005240 | Enhanced Read Analysis of Gene Expression | 2026-02-14 02:01:04 | 30 | ||||||
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ProtChemSI Resource Report Resource Website 1+ mentions |
ProtChemSI (RRID:SCR_006115) | ProtChemSI | data or information resource, database | The database of protein-chemical structural interactions includes all existing 3D structures of complexes of proteins with low molecular weight ligands. When one considers the proteins and chemical vertices of a graph, all these interactions form a network. Biological networks are powerful tools for predicting undocumented relationships between molecules. The underlying principle is that existing interactions between molecules can be used to predict new interactions. For pairs of proteins sharing a common ligand, we use protein and chemical superimpositions combined with fast structural compatibility screens to predict whether additional compounds bound by one protein would bind the other. The current version includes data from the Protein Data Bank as of August 2011. The database is updated monthly. | protein, chemical, 3d structure, biological network, interaction, ligand, prediction, fasta, fasta sequence, smiles string, complex, bio.tools |
is listed by: bio.tools is listed by: Debian is related to: Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) has parent organization: Heidelberg University; Baden-Wurttemberg; Germany |
PMID:21573205 | Acknowledgement requested | nlx_151590, biotools:protchemsi | https://bio.tools/protchemsi | SCR_006115 | Protein-Chemical Structural Interactions, ProtChemSI: protein-chemical interaction database, ProtChemSI - the database of protein-chemical structural interactions | 2026-02-14 02:06:33 | 3 | |||||
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HaploReg Resource Report Resource Website 1000+ mentions |
HaploReg (RRID:SCR_006796) | HaploReg | data or information resource, database | HaploReg is a tool for exploring annotations of the noncoding genome at variants on haplotype blocks, such as candidate regulatory SNPs at disease-associated loci. Using linkage disequilibrium (LD) information from the 1000 Genomes Project, linked SNPs and small indels can be visualized along with their predicted chromatin state in nine cell types, conservation across mammals, and their effect on regulatory motifs. HaploReg is designed for researchers developing mechanistic hypotheses of the impact of non-coding variants on clinical phenotypes and normal variation. | chromatin state, conservation, regulatory motif, alteration, variant, chromatin, motif, annotation, genome, variation, genome-wide association study, refsnp, refseq gene, snp, bio.tools, FASEB list |
is listed by: Debian is listed by: bio.tools is listed by: SoftCite has parent organization: Broad Institute |
NHGRI R01-HG004037; NHGRI RC1-HG005334; NSF 0644282 |
PMID:22064851 | biotools:HaploReg, nlx_151407 | http://compbio.mit.edu/HaploReg https://bio.tools/HaploReg |
SCR_006796 | 2026-02-14 02:06:27 | 1004 | ||||||
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MamPolMammalia Polymorphism Database Resource Report Resource Website |
MamPolMammalia Polymorphism Database (RRID:SCR_007769) | MamPol | data or information resource, database | Database providing a collection of all the existing polymorphic sequences in the Mammalia group. It allows the search for any polymorphic set according to different parameter values of nucleotide diversity. For data collection, diversity measures and updating they use PDA, a pipeline made of a set of Perl modules that automates the process of sequence retrieving, grouping, aligning and estimating diversity parameters from GenBank sequences. Diversity measures, including polymorphism estimates in synonymous and non-synonymous sites, linkage disequilibrium and codon bias, are calculated for each polymorphic set in different functional regions. The database also includes the primary information retrieved from different external sources: the mammalian publicly available nucleotide sequences (excluding ESTs, STSs, GSSs, working draft and patents) with their annotations and references from GenBank, and the cross-references to the PopSet database. The database content is daily updated, and records are assigned unique and permanent MamPol identification numbers to facilitate cross-database referencing. | polymorphism | has parent organization: Autonomous University of Barcelona; Barcelona; Spain | nif-0000-03100 | SCR_007769 | 2026-02-14 02:06:02 | 0 | |||||||||
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Cell Type Ontology Resource Report Resource Website 1+ mentions |
Cell Type Ontology (RRID:SCR_004251) | CL | data or information resource, ontology, controlled vocabulary | Ontology designed as a structured controlled vocabulary for cell types. It was constructed for use by the model organism and other bioinformatics databases. It includes cell types from prokaryotes, mammals, and fungi. The ontology is available in the formats adopted by the Open Biological Ontologies umbrella and is designed to be used in the context of model organism genome and other biological databases. | cell ontology, ontology repository |
is listed by: BioPortal is listed by: Ontology Lookup Service is related to: CELDA Ontology is related to: OBO is related to: Cell Line Knowledge Base |
BBSRC ; MRC ; NIH ; NSF DBI-9978564; NSF PGRP-0321666 |
PMID:15693950 | Free, Freely available | nlx_26501 | http://purl.bioontology.org/ontology/CL | http://cellontology.org, http://www.obofoundry.org/cgi-bin/detail.cgi?id=cell, | SCR_004251 | cellontology.org, Obo-cell-type, Cell Ontology | 2026-02-14 02:04:28 | 6 | |||
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MPromDb Resource Report Resource Website 1+ mentions |
MPromDb (RRID:SCR_002136) | MPromDb | data or information resource, database | A curated database that strives to annotate gene promoters identified from ChIP-Seq experiment results. The long term goal of the database is to provide an integrated resource for mammalian gene transcriptional regulation and epigenetics. Users can search based on Enterz gene id/symbol, or by tissue/cell specific activity and filter results based on any combination of tissue/cell specificity, known/novel, CpG/NonCpG, and protein-coding/non-coding gene promoters. It is also integrated with GBrowse genome browser for visualiztion of ChIP-seq profiles and display the annotations. | gene, promoter, chip-seq, chip-chip, visualization, gene promoter, annotation, rna pol-ii chip-seq, protein-coding gene |
is listed by: OMICtools is related to: Gene Expression Omnibus has parent organization: Wistar Institute |
PMID:21097880 PMID:16381984 |
THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_01876 | SCR_002136 | Mammalian Promoter Database | 2026-02-14 02:06:08 | 8 | ||||||
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TRIP Database Resource Report Resource Website 1+ mentions |
TRIP Database (RRID:SCR_002058) | TRIP Database | data or information resource, database | A manually curated database of protein-protein interactions (PPIs) for mammalian transient receptor potential (TRP) channels. The detailed summary of PPI data, fits into 4 categories: screening, validation, characterization, and functional consequence. These categorizations give answers for four basic questions about PPIs: how to identify PPIs (screening); how to confirm PPIs (validation); what are biochemical properties of PPIs (characterization); what are biological meaning of PPIs (functional consequence). Users can find in-depth information specified in the literature on relevant analytical methods, gene constructs, and cell/tissue types. The database has a user-friendly interface with several helpful features, including a search engine, an interaction map, and a function for cross-referencing useful external databases. | protein-protein interaction, transient receptor potential channel, cellular protein |
is listed by: OMICtools is related to: Cytoscape has parent organization: Seoul National University College of Medicine; Seoul; South Korea |
PMID:23071747 PMID:20851834 |
Free | OMICS_01912 | http://www.trpchannel.org/ | SCR_002058 | Mammalian TRansient receptor potential channel-Interacting Protein Database | 2026-02-14 02:06:06 | 5 | |||||
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RESNET Resource Report Resource Website 1000+ mentions |
RESNET (RRID:SCR_002121) | ResNet | data or information resource, database | Databases that represent sets of pre-compiled information on biological relationships and associations, interactions and facts which have been extracted from the biomedical literature using Ariadne's MedScan technology. ResNet databases store information harvested from the entire PubMed in a formal structure that allows searching, retrieval and updating by Pathway Studio user. ResNet is seamlessly installed when Pathway Studio is installed. There are several available ResNet databases: *ResNet Mammalian Database includes data for Human, Rat, and Mouse *ResNet Plant Database has data on Arabidopsis, Rice and several other plants. Features of ResNet: *All extracted relations have linked access to the original article or abstract *Synonyms and homologs are included to maintain gene identity and to obviate redundancy in search results *Users can update ResNet as often as required using the MedScan technology built into all Ariadne products *Updates are made available by Ariadne every quarter To purchase Pathway Studio software with ResNet database, for information, or to schedule a web demonstration, call our sales department at (240) 453-6272, or (866) 340-5040 (toll free)., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | biological relationship, biomedical, literature, interaction, FASEB list |
is listed by: Biositemaps has parent organization: Indiana University School of Medicine; Indiana; USA |
THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-20909 | http://www.ariadnegenomics.com/products/databases/ariadne-resnet/ | SCR_002121 | Ariadne ResNet Databases, ResNet Databases | 2026-02-14 02:05:38 | 1384 | ||||||
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CORUM Resource Report Resource Website 100+ mentions |
CORUM (RRID:SCR_002254) | CORUM | data or information resource, database |
Database of manually annotated protein complexes from mammalian organisms. Annotation includes protein complex function, localization, subunit composition, literature references and more. All information is obtained from individual experiments published in scientific articles, but data from high-throughput experiments is excluded. The majority of protein complexes in CORUM originates from man (65%), followed by mouse (14%) and rat (14%)., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. |
mammalian protein, protein, protein complex, protein function, FASEB list |
is listed by: OMICtools is related to: Interaction Reference Index is related to: ConsensusPathDB has parent organization: Institute of Bioinformatics and Systems Biology; Neuherberg; Germany |
BMBF 031U212C | PMID:19884131 PMID:17965090 |
THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-02688, OMICS_01904 | http://mips.gsf.de/genre/proj/corum | SCR_002254 | CORUM the Comprehensive Resource of Mammalian protein complexes, CORUM - the Comprehensive Resource of Mammalian protein complexes | 2026-02-14 02:05:46 | 163 | ||||
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GeneSeer Resource Report Resource Website |
GeneSeer (RRID:SCR_002626) | GeneSeer | data or information resource, database | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 14,2026. Database to access gene information through common names and allows identification of homologs and paralogs for a given gene. This publicly available tool leverages public sequence data, gene metadata information, and other publicly available data to calculate and display orthologous and paralogous gene relationships for all genes from several species, including yeasts, insects, worms, vertebrates, mammals, and primates such as humans. | gene, homolog, paralog, genome, search engine, ortholog | PMID:16176584 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_156048 | http://katahdin.mssm.edu/geneseer/scripts/main.pl | http://geneseer.cshl.org/ | SCR_002626 | 2026-02-14 02:05:40 | 0 | ||||||
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Mammalian Mitochondrial Genomics Database Resource Report Resource Website |
Mammalian Mitochondrial Genomics Database (RRID:SCR_003084) | MamMiBase | data or information resource, database | Database developed to assist the phylogeneticist user in retrieving individual gene sequence alignments for genes in complete mammalian mitochondrial genomes. Data retrieval in MamMiBase requires three stages. At the first stage, the user must select the mammalian species or group that (s)he wishes to study. In the second stage, the user will select the outgroup from a list that included all species selected in the first stage plus Xenopus laevis and Gallus gallus. Finally, at the third stage, the user will select individual mitochondrial gene alignments or a phylogenetic tree that (s)he wishes to download. | phylogeny, mitochondrial, genome, gene, sequence | has parent organization: National Laboratory for Scientific Computing; Rio de Janeiro; Brazil | Brazilian Ministry of Science Technology and Innovation ; National Research Council ; Rio de Janeiro Science Foundation ; FAPERJ |
PMID:15713730 | Free, Freely available | nif-0000-03099 | SCR_003084 | 2026-02-14 02:06:13 | 0 | ||||||
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RNAdb Resource Report Resource Website 1+ mentions |
RNAdb (RRID:SCR_003578) | RNAdb | data or information resource, database | A comprehensive mammalian noncoding RNA database containing sequences and annotations for tens of thousands of noncoding RNAs. These include a wide range of microRNAs, small nucleolar RNAs and larger mRNA-like ncRNAs. All raw data from the original RNAdb 2.0 database can be downloaded in XML or FASTA format. This website serves to archive the final snapshot of the RNAdb 2.0 datasets for legacy purposes. It will remain active indefinitely. | non-protein-coding rna, rna | has parent organization: University of Queensland; Brisbane; Australia | PMID:17145715 | nif-0000-03417 | SCR_003578 | RNAdb 2.0 - A database of mammalian noncoding RNAs | 2026-02-14 02:05:44 | 9 | |||||||
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CSHL - Hannon Lab Resource Report Resource Website 50+ mentions |
CSHL - Hannon Lab (RRID:SCR_005982) | Hannon Lab | organization portal, data or information resource, laboratory portal, portal | The Hannon laboratory comprises a broad spectrum of programs in small RNA biology, mammalian genetics and genomics. We study RNAi and related pathways in a wide variety of organisms to extract common themes that define both the mechanisms by which small RNAs act and the biological processes which they impact. Currently, we focus on microRNAs, endogenous siRNAs and piRNAs and their roles in gene regulation, cancer biology, stem cell biology and in defense of the genome against transposons. In collaboration with Steve Elledge (Harvard) and Scott Lowe (CSHL), we develop genome-wide shRNA tools for RNAi-based genetics in mammalian cells, and we are now producing similar collections of artificial microRNAs for Arabidopsis with Detlef Weigel (MPI), Dick McCombie (CSHL) and Rob Martienssen (CSHL) as part of the 2010 project (see 2010.cshl.edu). Our genomic efforts include the application of RNAi-based genetic screens to cancer biology and stem cells. We also make heavy use of next generation sequencing methodologies for probing small RNA populations, in part as a member of the ENCODE consortium (with Tom Gingeras, CSHL). Finally, we develop (with Dick McCombie) and apply focal re-sequencing methods for identifying disease relevant mutations, for probing the epigenetic landscape and for the study of human evolution. | rnai, rna, mammal, genetics, genomics, microrna, sirna, pirna, gene regulation, cancer biology, stem cell biology, defense, genome, transposon, cancer, stem cell | has parent organization: Cold Spring Harbor Laboratory | nlx_151354 | SCR_005982 | Cold Spring Harbor Laboratory - Hannon Lab | 2026-02-15 09:19:16 | 66 |
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Welcome to the Neuroscience Information Framework Project, designed to serve the biomedical research community. NIF maintains the largest searchable collection of neuroscience data, the largest catalog of biomedical resources, and the largest ontology for neuroscience on the web. We welcome all feedback and suggestions and are actively looking for resource providers to make their resources accessible through NIF. Learn about the tools available to help you share your data and discover a dynamic inventory of Web-based neuroscience resources.
