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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.
Web application to search nucleotide databases using a nucleotide query. Algorithms: blastn, megablast, discontiguous megablast.
Proper citation: BLASTN (RRID:SCR_001598) Copy
A portal to biomedical and genomic information. NCBI creates public databases, conducts research in computational biology, develops software tools for analyzing genome data, and disseminates biomedical information for the better understanding of molecular processes affecting human health and disease.
Proper citation: NCBI (RRID:SCR_006472) Copy
https://github.com/howisonlab/softcite-dataset
Gold standard dataset of software mentions in research publications. Provides dataset of annotated software mentions from full text academic literature in biomedicine and economics directly converted from published PDFs with reproducible infrastructure. Includes provenance, and is formatted for immediately usefulness in NLP. Useful for supervised learning at scale.
Proper citation: SoftCite (RRID:SCR_024411) Copy
https://scicrunch.org/resolver/SCR_002250
THIS RESOURCE IS NO LONGER IN SERVICE. Documented Jul 19, 2024. Metadatabase manually curated that provides web accessible tools related to genomics, transcriptomics, proteomics and metabolomics. Used as informative directory for multi-omic data analysis.
Proper citation: OMICtools (RRID:SCR_002250) Copy
http://repeatmasker.org/RMBlast.html
Software tool to support RepeatMasker searches by adding necessary features to stock NCBI blastn program. RepeatMasker compatible version of standard NCBI blastn program.
Proper citation: RMBlast (RRID:SCR_022710) Copy
http://scigendetection.imag.fr/TPD52/
Web server as semi automated tool that identifies nucleotide sequences in scientific publications, determines whether they are correctly identified. Seeks for nucleotide sequences in pdf files and then call local version of blastn. Text mining and text analysis tool to allow peers to identify errors in published or forthcoming scientific literature. Used to search and extract gene identifiers and nucleotide sequences against human genomic and transcript database.
Proper citation: Seek and Blastn (RRID:SCR_016625) 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.
