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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.
http://db.systemsbiology.net/kaviar/
A database containing a compilation of SNVs, indels, and complex variants observed in humans, designed to facilitate testing for the novelty and frequency of observed variants.
Proper citation: KAVIAR (RRID:SCR_013737) Copy
A data repository containing transcriptome and associated metadata for the developing and adult human brain. It provides genome-wide, exon-level transcriptome data from both sexes and multiple ethnicities.
Proper citation: Human Brain Transcriptome (RRID:SCR_013742) Copy
http://supfam.org/SUPERFAMILY/dcGO/
A database of domain-centric ontologies on functions, phenotypes, diseases and more. As a biomedical ontology resource, dcGO integrates functional, phenotypic, disease, and drug information. As a protein domain resource, it includes annotations to both the individual domains and supra-domains. Domain classifications and ontologies are organized in hierarchies, and dcGO includes the facility to browse the hierarchies: SCOP Hierarchy for browsing domains, GO Hierarchy for browsing GO terms, and BO Hierarchy for browsing other terms (mostly phenotypes). Users can mine and browse through resources.
Proper citation: dcGO (RRID:SCR_014392) Copy
https://www.nursa.org/nursa/transcriptomine/index.jsf
A database of tissue specific nuclear receptor transcriptomes based on annotated published genome wide transcriptional profiling experiments in the field of nuclear receptor signaling. Queries can include single and multiple genes, Gene Ontology terms, disease terms, and uploaded custom gene lists.
Proper citation: NURSA Transcriptomine (RRID:SCR_013746) Copy
http://cts.fiehnlab.ucdavis.edu
A translation service which contains a registry of pubicly available chemical information such as structures, chemical names, chemical synonyms, database identifiers, molecular masses, XlogP and proton-donor/acceptor data for compound-specific, structure-based cross references. It offers single ID conversion, batch ID conversion, InChI code conversion, and other services.
Proper citation: Chemical Translation Service (RRID:SCR_014681) Copy
This site has been developed by Kazusa DNA Research Institute for the purpose of offering the science community the analyzed sequence data produced by a multi-national Arabidopsis genome sequencing project coordinated by the Arabidopsis Genome Initiatives (AGI). The aim of this service is to enable users to browse the annotated sequence data produced by all the sequencing teams of AGI through an user-friendly graphic display system and search engines. Gene structures proposed on the annotated sequences as well as those predicted by computer programs are presented and each graphic item has a hyperlink to detailed information of the corresponding area. The nucleotide sequence data deposited in GenBank by AGI was downloaded, re-computer-analyzed at Kazusa and parsed results are displayed graphically.
Proper citation: Kazusa Arabidopsis data opening site (RRID:SCR_013511) Copy
http://www.nitrc.org/projects/pcp/
A project which systematically preprocess the data from the 1000 Functional Connectomes Project (FCP) and International Neuroimaging Data-sharing Initiative (INDI) and openly share the results. Data is currently hosted in an Amazon Web Services Public S3 Bucket and at NITRC.
Proper citation: Preprocessed Connectomes Project (RRID:SCR_014162) Copy
Artificial intelligence image analysis platform that facilitates life science research. It offers data analysis, processing functions, and security features to accelerate research productivity.
Proper citation: IMACEL (RRID:SCR_015868) Copy
Database of interactive neural computation computer models at levels ranging from simple linear filters to large-scale networks of spiking units. Interface tools are provided while browsing and exploring models.
Proper citation: iModel (RRID:SCR_014811) Copy
https://www.crossref.org/services/event-data/
Database of events about articles that is run by CrossRef. It allows users to view social media mentions, news publication references, annotations, and more.
Proper citation: Crossref EventData (RRID:SCR_016281) Copy
https://www.gem-beta.org/Public/Home.aspx
Database that contains behavioral and social science measures organized by theoretical constructs. GEM is designed to enable researchers to use common measures with the goal of exchanging harmonized data.
Proper citation: Grid-Enabled Measures Database (RRID:SCR_016043) Copy
https://rtips.cancer.gov/rtips/index.do
Database of cancer control interventions and program materials. It is designed to provide program planners and public health practitioners easy and immediate access to research-tested materials.
Proper citation: Research-tested Intervention Programs (RTIPs) (RRID:SCR_016042) Copy
http://mosas.sysu.edu.cn/genome
Database project to document the genome sequence of the Lancelet, a basal extant chordate. Information provided includes reference haploid genome sequence and annotation data, gene models and function, and integrated information from diploid genome sequence and annotation data.
Proper citation: Lancelet Genome Sequence and Annotation Project Database (RRID:SCR_014987) Copy
https://github.com/wilsonGW/SomaDetection
Source code for a machine learning method to detect somas on confocal microscopic images of the Drosophila brain. The method can be applied to the original raw images where the noises are not removed and the number of somas is unknown.
Proper citation: SomaDetection (RRID:SCR_015717) Copy
http://servers.binf.ku.dk/bloodspot/
Database that provides gene expression profiles of genes and gene signatures in healthy and malignant hematopoiesis and includes data from both humans and mice. In addition to the default plot, which displays an integrated expression plot, two additional levels of visualization are available: an interactive tree showing the hierarchical relationship between the samples, and a Kaplan-Meier survival plot. The database is sub-divided into several datasets that are accessible for browsing.
Proper citation: BloodSpot (RRID:SCR_015563) Copy
http://compartments.jensenlab.org/Downloads
Web resource that integrates evidence on protein subcellular localization from manually curated literature, high-throughput screens, automatic text mining, and sequence-based prediction methods. All evidence is mapped to common protein identifiers and Gene Ontology terms, and further unify it by assigning confidence scores that facilitate comparison of the different types and sources of evidence and visualize these scores on a schematic cell.
Proper citation: COMPARTMENTS Subcellular localization database (RRID:SCR_015561) Copy
Database for the identification of the human proteome and its use across the scientific community. Users can browse proteins and chromosomes and contribute to the data repository.
Proper citation: ProteomicsDB (RRID:SCR_015562) Copy
Database of barcoded food products. Food Repo provides data that is on the package of each product, and collects its data via food distributors and volunteer contributors.
Proper citation: Food Repo (RRID:SCR_016097) Copy
C. elegans RNAi feeding library distributed by Source BioScience Ltd. Designed for genome wide study of gene function in C. elegans through loss of function studies.
Proper citation: C. elegans RNAi Collection (Ahringer) (RRID:SCR_017064) Copy
https://academic.oup.com/gigascience/pages/data_note
Dataset. We have a DataNote paper in Gigascience, in press which introduces a large videography dataset that is freely available for anyone to study the principles of tactile navigation.
Proper citation: Rodent tactile navigation (RRID:SCR_016538) Copy
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