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SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.
Biobank provides data collected at Assessment Center and via online questionnaires on participants aged 40-69 years recruited throughout United Kingdom and provides summary information to improve prevention, diagnosis and treatment of serious and life threatening illnesses.
Proper citation: UK Biobank (RRID:SCR_012815) Copy
Web accessible database for visualizing and mining global yeast genetic interaction network. Allows users to easily access, visualize, explore, and functionally annotate genetic interactions, or to extract and reorganize sub networks, using data driven network layouts in intuitive and interactive manner. Used for storing and visualizing genetic interactions in S. cerevisiae.
Proper citation: TheCellMap (RRID:SCR_018728) Copy
https://www.sdbonline.org/sites/fly/atlas/00atlas.htm
Collection of color illustrations that follow main events of embryogenesis and post embryonic development of Drosophila.
Proper citation: Atlas of Drosophila Development (RRID:SCR_017506) Copy
Database that annotates SNPs with known and predicted regulatory elements in intergenic regions of H. sapiens genome. Known and predicted regulatory DNA elements include regions of DNAase hypersensitivity, binding sites of transcription factors, and promoter regions that have been biochemically characterized to regulation transcription. Source of these data include public datasets from GEO, ENCODE project, and published literature.
Proper citation: RegulomeDB (RRID:SCR_017905) Copy
Interactive database of miRNA targets and miRNA-regulated gene networks to integrate expression data from hundreds of cellular and tissue conditions. Website includes CoMeTa corank lists and additional targets for all of human miRNAs, their associated pathways resulting from COOL analysis, and miRNA communities with their corresponding enriched functional categories. Website is searchable by miRNA, target gene, or biological function of interest, and represents unique resource to gain insight into miRNA-controlled gene networks and functions.
Proper citation: CoMeTa Website (RRID:SCR_017357) Copy
Genome wide database of gene expression in mouse brain. Genome-wide atlas of gene expression in the adult mouse brain.
Proper citation: ABA Mouse Brain: Atlas (RRID:SCR_017479) Copy
http://geno2mp.gs.washington.edu/Geno2MP/#/
Collection of phenotypic profiles for affected individuals and, for unaffected individuals, the phenotypic profile of their affected. Collaborative, shared resource for the human genetics community.
Proper citation: Geno2MP (RRID:SCR_016872) Copy
Atlas of brain cell types, derived from single cell RNA-Seq data from Linnarsson Lab. Can be browsed by taxon, cell type, tissue, and gene, with information on enriched genes, specific markers, anatomical location and more. Single cell gene expression atlas of mouse nervous system.
Proper citation: mousebrain.org (RRID:SCR_016999) Copy
Web tool to explore and visualize Antibiotic Resistance Genes found on Tara Oceans samples. Can be explored by individual ARG or grouped by antibiotic class.
Proper citation: ResistomeDB (RRID:SCR_018305) Copy
http://meme-suite.org/tools/dreme
Software tool to discover short, ungapped motifs (recurring, fixed-length patterns) that are relatively enriched in sequences compared with shuffled sequences or control sequences (sample output from sequences).
Proper citation: DREME (RRID:SCR_016860) Copy
https://www.ebi.ac.uk/metagenomics/
Portal for the analysis and exploration of metagenomic, metatranscriptomic, amplicon and assembly data. Provides functional and taxonomic analyses of user-submitted sequences, as well as analysis of publicly available metagenomic datasets held within the European Nucleotide Archive (ENA).Microbiome analysis resource in 2020.
Proper citation: MGnify (RRID:SCR_016429) Copy
Database for study of early phonological development using Phon program. Child phonology component of TalkBank system.
Proper citation: PhonBank (RRID:SCR_016312) Copy
https://www.nichd.nih.gov/research/supported/NCS/researchers
Data and sample repository for National Children's Study. Provides access to data and samples collected from over 5,600 U.S. birth families to study environmental influences on child health and development. Data and biological and environmental samples are freely available, with approved request, for scientific research.
Proper citation: National Children's Study (NCS) Archive (RRID:SCR_016311) Copy
https://github.com/kingufl/cOMet
Software for error correction of optical mapping data.
Proper citation: cOMet (RRID:SCR_016276) Copy
Web application viewer for large microscopy data.
Proper citation: ViewTool Cheng Lab (RRID:SCR_016430) Copy
Collects and provides data on the human genome and epigenome to facilitate genetic studies of type 2 diabetes and its complications. A component of the AMP T2D consortium, which includes the National Institute for Diabetes and Digestive and Kidney Diseases (NIDDK) and an international collaboration of researchers.
Proper citation: Diabetes Epigenome Atlas (RRID:SCR_016441) Copy
http://www.actigraphy.com/solutions/actiware/
Software package to analyze, manage, and export recorded activity data from all Actiwatch models. Used to view long-term sleep/wake patterns, activity, illuminance, and event markers in an easy-to-read actogram format.
Proper citation: Respironics Actiware (RRID:SCR_016440) Copy
https://www.biomax.com/neuroxm
Software toolkit for semantic integration of multi-modal brain data. It is used to collect, structure, connect, analyze and re-use brain data.
Proper citation: NeuroXM Brain Science Suite (RRID:SCR_016372) Copy
https://github.com/HicServices/RDMP/wiki
Software toolkit which automates the loading, storage, linkage and provision of data sets. It also cleans, transforms and documents provenance meta-data and domain knowledge to make data sets “research ready”.
Proper citation: Research Data Management Platform (RRID:SCR_016268) Copy
https://github.com/cortex-lab/Kilosort
Software tool that implements an integrated template matching framework for detecting and clustering spikes from multi-channel electrophysiological recordings.
Proper citation: KiloSort (RRID:SCR_016422) Copy
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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.
