Curator Dashboard

Software tool that calculates distances between BGCs in order to map BGC diversity onto sequence similarity networks, which are then processed for automated reconstruction of Gene Cluster Families, groups of gene clusters that encode biosynthesis of highly similar or identical molecules.

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• RRID
• 4 years ago - by Anonymous

Database for sequences of the human major histocompatibility complex (HLA) and includes the official sequences for the WHO Nomenclature Committee For Factors of the HLA System. It currently contains 9,310 allele sequences (2013) along with detailed information concerning the material from which the sequence was derived and data on the validation of the sequences. It is established procedure for authors to submit the sequences directly to the IMGT/HLA Database for checking and assignment of an official name prior to publication, this avoids the problems associated with renaming published sequences and the confusion of multiple names for the same sequence. The need for reasonably rapid publication of new HLA allele sequences has necessitated an annual meeting of the WHO Nomenclature Committee for Factors of the HLA System. Additionally they now publish monthly HLA nomenclature updates both in journals and online to provide quick and easy access to new sequence information. The IMGT/HLA Database is part of the international ImMunoGeneTics project. In collaboration with the Imperial Cancer Research Fund (ICRF) and European Bioinformatics Institute (EBI) they have developed an Oracle database to house the HLA sequences in such a way as to allow users to present complex queries about the sequence, sequence features, references, contacts and allele designations to the database via a graphical user interface over the web. The IMGT/HLA Database Submission Tool allows direct submission of sequences to the WHO HLA Nomenclature Committee for Factors of the HLA System. The IMGT/HLA Database provides an FTP site for the retrieval of sequences in a number of pre-formatted files.

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• SciCrunch
• 17 years ago - by Anonymous

Software miniscope analysis pipeline that requires low memory and computational demand so it can be run without specialized hardware. Offers interactive visualization that allows users to see how parameters in each step of pipeline affect output.

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• SciCrunch
• 4 years ago - submitted by Jude Frie

Database of related protein sequences (clusters) consisting of proteins derived from the annotations of whole genomes, organelles and plasmids. It currently limited to Archaea, Bacteria, Plants, Fungi, Protozoans, and Viruses. It contains annotation information, publications, domains, structures, and external links and analysis tools including multiple alignments, phylogenetic trees, and genomic neighborhoods (ProtMap). Data is available for download via Protein Clusters FTP

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• SciCrunch
• 17 years ago - by Anonymous

Provides computational resources, services, and support to investigators including clinical research informatics, application and technology development, and bioinformatics analyses.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Catalog of data sets that are generated and held by the Federal Government, including data, tools and resources to conduct research, develop web and mobile applications, design data visualizations, etc. Data.gov provides descriptions of the Federal datasets (metadata), information about how to access the datasets, and tools that leverage government datasets. The data catalogs will continue to grow as datasets are added. Federal, Executive Branch data are included in the first version of Data.gov.

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• SciCrunch
• 15 years ago - by Anonymous

Provides analytical resource focusing on application of mass spectrometry and allied chromatographies to analysis of small molecules, generally of less than 1,000 daltons molecular weight, in complex clinical and biological samples.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Comprehensive lists of plant and animal species, with a rarity rank and legal status for each. It has has over 635,000 geo-located records of species occurrences and over 40,000 records of extremely rare to uncommon species in the Atlantic region, including New Brunswick, Nova Scotia, Prince Edward Island, Newfoundland, and Labrador. The Atlantic CDC also maintains biological and other types of data in a variety of linked databases. The CDC welcomes inquiries from those who would like to contribute data about plant or animal species at risk or rare communities in Atlantic Canada. Its mission is to assemble and provide objective and understandable data and expertise about species and ecological communities of conservation concern, including those at risk, and undertake field biological inventories to support decision-making, research, and education in Atlantic Canada. The Atlantic CDC develops species location data, known as element occurrence records. Occurrence precision (accuracy) ranges from quite precise (within meters) to less precise (within counties) but most commonly it is within 1 5 km. Element occurrence (EO) refers to one or more locations considered important to the continued existence of a species or ecological community. For species, over 30 types of data: taxonomy, biology, etc. are typically examined when identifying EOs. An EO is generally the habitat occupied by a local population. However, occurrence varies among species and some species have more than one type of occurrence (e.g., breeding and winter occurrences). Breeding colonies, breeding ponds, denning sites, and hibernacula are general examples of different types of animal EOs. For an ecological community, an EO may be the area containing a patch of that community type.

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• SciCrunch
• 14 years ago - by Anonymous

Platform for helping science researchers by recommending gene symbol obtained by AI neural proprietary network able to scan millions of papers. Web tool to extract hidden patterns and correlations among genes and diseases from scientific papers.

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• NIF
• 4 years ago - submitted by luigi Bondurri

Open source database system and analysis tools for molecular interaction data. All interactions are derived from literature curation or direct user submissions. Direct user submissions of molecular interaction data are encouraged, which may be deposited prior to publication in a peer-reviewed journal. The IntAct Database contains (Jun. 2014): * 447368 Interactions * 33021 experiments * 12698 publications * 82745 Interactors IntAct provides a two-tiered view of the interaction data. The search interface allows the user to iteratively develop complex queries, exploiting the detailed annotation with hierarchical controlled vocabularies. Results are provided at any stage in a simplified, tabular view. Specialized views then allows "zooming in" on the full annotation of interactions, interactors and their properties. IntAct source code and data are freely available.

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• SciCrunch
• 17 years ago - by Anonymous

Provides services to anything related to genomic analysis, such as RNAseq, genome sequencing, ATACseq etc, from experiment design all the way down to data analysis.Provides expert services for cell isolation, transcriptome and epigenetic profiling, and de novo genome assembly using next generation sequencing platforms from Illumina.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

The perl script nu_correct implements a novel approach to correcting for intensity non-uniformity in MR data that achieves high performance without requiring supervision. By making relatively few assumptions about the data, the method can be applied at an early stage in an automated data analysis, before a tissue intensity or geometric model is available. Described as Non-parametric Non-uniform intensity Normalization (N3), the method is independent of pulse sequence and insensitive to pathological data that might otherwise violate model assumptions. To eliminate the dependence of the field estimate on anatomy, an iterative approach is employed to estimate both the multiplicative bias field and the distribution of the true tissue intensities. Preprocessing of MR data using N3 has been shown to substantially improve the accuracy of anatomical analysis techniques such as tissue classification and cortical surface extraction.

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• SciCrunch
• 14 years ago - by Anonymous

Provided services include Designing assays to identify and quantify immune cell subpopulations; Characterizing and measuring immune function; Monitoring immunological changes in response to both specific and nonspecific stimulation; Mass Cytometry (CyTOF, Helios); Imaging Mass Cytometry (IMC, Hyperion). Supports experimental systems to study human and mouse models by providing expertise and standardized assays to evaluate immune functions in broad range of diseases and therapies in models as well as in healthy human subjects with variable demographics.Provides services to all Mayo Clinic faculty and staff engaged in research. Selective services are available to investigators outside Mayo Clinic.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Service to monitor, search and measure conversations about your publications and those of your competitors captured by Altmetric including tweets, blog posts, news stories and other content that mention scholarly articles. Use the Explorer to deliver insights, track mentions and measure levels of attention over time.

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• SciCrunch
• 14 years ago - by Anonymous

Software package to generate area proportional Euler diagrams using numerical optimization that display set relationships (intersections, unions, and disjoints) with circles or ellipses. Area Proportional Euler and Venn Diagrams with Ellipses.

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• RRID
• 4 years ago - submitted by Elena Brivio

Collection of chemical compounds and other small molecular entities that incorporates an ontological classification of chemical compounds of biological relevance, whereby the relationships between molecular entities or classes of entities and their parents and/or children are specified. The molecular entities in question are either products of nature or synthetic products used to intervene in the processes of living organisms.

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• SciCrunch
• 16 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on November 26,2025. Imaging Core Facility located within National Cancer Institute of Mexico. Provides scientific and technical support in imaging and image analysis to any community. Imaging technologies in ADMiRA include: Confocal, Widefield, Super-Resolution, Lightsheet, FIB-SEM, Laser Microdisection, and Automated digital scanning.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

An ontology for mental functioning, including mental processes such as cognition and traits such as intelligence, and related diseases and disorders. It is developed in the context of the Ontology for General Medical Science and the Basic Formal Ontology. The project is being developed in collaboration between the University of Geneva, Switzerland, and the University at Buffalo, USA. The project is being developed with full involvement of all relevant communities, following best practices laid out by the OBO Foundry. Efforts are currently underway to align with related projects including the Behaviour Ontology, the Cognitive Atlas, the Cognitive Paradigm Ontology and the Neural Electro Magnetic Ontologies.

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• SciCrunch
• 13 years ago - by Anonymous

Software tool as scalable, modular image processing pipeline for multiplexed tissue imaging. Transforms multi channel whole slide images into single cell data.

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• RRID
• 4 years ago - submitted by Sarah Arena

Ontology that describes structures from the dimensional range encompassing cellular and subcellular structure, supracellular domains, and macromolecules. It is built according to ontology development best practices (re-use of existing ontologies; formal definitions of terms; use of foundational ontologies). It describes the parts of neurons and glia and how these parts come together to define supracellular structures such as synapses and neuropil. Molecular specializations of each compartment and cell type are identified. The SAO was designed with the goal of providing a means to annotate cellular and subcellular data obtained from light and electron microscopy, including assigning macromolecules to their appropriate subcellular domains. The SAO thus provides a bridge between ontologies that describe molecular species and those concerned with more gross anatomical scales. Because it is intended to integrate into ontological efforts at these other scales, particular care was taken to construct the ontology in a way that supports such integration.

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• SciCrunch
• 17 years ago - by Anonymous