Curator Dashboard

Software R package to infer biological activities from omics data using collection of methods.

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• RRID
• 1 year ago - by Anonymous

A toolkit designed to navigate, share and collaboratively annotate massive image data sets of biological specimens. The interface enables synchronized navigation through multiple registered datasets even at vastly different scales such as in comparisons between optical and electron microscopy. The interface is inspired by GoogleMaps, with which it shares basic navigation concepts, enhanced to allow the exploration of 3D biological image data acquired by optical or physical sectioning microscopy techniques. The interface enables seamless sharing of regions of interest through bookmarks and synchronized navigation through multiple registered data sets. With massive biological image data sets it is unrealistic to create a sustainable centralized repository. A unique feature of CATMAID is its partially decentralized architecture where the presented image data can reside on any Internet accessible server and yet can be easily cross-referenced in the central database. In this way no image data are duplicated and the data producers retain full control over their images. CATMAID is intended to serve as data sharing platform for biologists using high-resolution imaging techniques to probe large specimens. Any high-throughput, high-content imaging project such as gene expression pattern screens would benefit from the interface for data sharing and annotation. Features: * Fast terabyte-scale image data browsing * Collaborative microcircuit reconstruction and annotation * Flexible hierarchical semantic annotation * Multiple linked image stack display * Neuron Catalog * SVG and WebGL-based neuronal morphology viewer * Open source software

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• SciCrunch
• 14 years ago - by Anonymous

AmpliconTagger is a rRNA marker gene amplicon pipeline coded in a python framework that enables fine tuning and integration of virtually any potential rRNA gene amplicon bioinformatic procedure. It is designed to work within an HPC environment, supporting a complex network of job-dependencies with a smart-restart mechanism in case of job failure or parameter modifications.

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• SciCrunch
• 6 years ago - submitted by Julien Tremblay

Software package provides flexible, queriable R interface to graphs and walks of reference genomic intervals. gGnome is written in R6 object oriented standard and built around GenomicRanges, data.table, and igraph backend, and thus supports agile interaction with graphs consisting of hundreds of thousands of nodes and edges.

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• 1 year ago - by Anonymous

General purpose simulation platform developed to support the simulation of neural systems ranging from subcellular components and biochemical reactions to complex models of single neurons, simulations of large networks, and systems-level models. As such, GENESIS, and its version for parallel and networked computers (PGENESIS) was the first broad scale modeling system in computational biology to encourage modelers to develop and share model features and components. User contributed GENESIS models and simulations are available. You may to contribute a model or simulation. Educational tutorials for instruction in both neurobiology and computational methods have been developed. These tutorials and GENESIS are now being widely used in graduate and undergraduate instruction. These uses include full semester courses in computational neuroscience or neural modeling, short intensive courses or workshops, an option for a course project, and short units on computational neuroscience within courses on artificial neural nets. They also have a repository of user-contributed tutorials and materials for use in neuroscience education. If you have course descriptions, syllabi, exercises, tutorials, or short HOWTO documents, please upload them to Education.

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• SciCrunch
• 14 years ago - by Anonymous

Core provides facilities including cell analysis and imaging, genomics and bioinformatics, proteins and diagnostics. Services include experimental design advice, sample preparation,data generation,data analysis.

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• SciCrunch
• 6 years ago - submitted by Edyta Vieth

Comprehensive multi-species platform for neuroscience teams to understand brain cells and anatomy. Brain Knowledge Platform includes catalog of relevant data and projects, as well as visualization tools for understanding brain cell types.

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• 1 year ago - submitted by Carol Thompson

This directory contains proprietary and confidential information belonging to the Society for Neuroscience. It is designated a service to and for personal, noncommercial and information use only of its members and granting agencies. Note that links to individual websites are provided by SfN members and are in no way endorsed by the Society for Neuroscience. SfN reserves the right to remove any member information or web links which are contrary in nature to professional, scientific content. The Society for Neuroscience retains all ownership and proprietary rights in the directory and the information contained in the directory. Any commercial use or other solicitation is strictly prohibited. By continuing with your search inquiry, you are hereby agreeing to these provisions. This system is not intended for wholesale searches of large institutions, or of cities, states or countries. To prevent abuse, the system is set to return results only when the number of matching members is 200 or less. Searches returning a large number of matching members will have to be refined so that they return 200 or less.

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• SciCrunch
• 17 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on August 18,2022. Provides services in molecular biology with DNA sequencing, capillary and high throughput services, single cell sequencing services using 10X genomics and Drop-Seq platforms, Luminex, oligonucleotide synthesis (IDT), HPLC analysis and purification, real time PCR and others.

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• SciCrunch
• 6 years ago - submitted by Edyta Vieth

Core provides histology, immunohistochemistry, imaging, and pathology support services for animal and human tissue research. Offers standardized and specialized services including tissue processing, embedding, sectioning, paraffin and frozen staining, multiplex immunohistochemistry/immunofluorescence, digital slide scanning, tissue microarray construction, and technical support for client-use instrumentation.Supports investigators through expert technical guidance, pathology consultation, and training on specialized histology procedures and equipment.

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• SciCrunch
• 14 years ago - by Anonymous

Open source software platform for building powerful Web portals that support scientific discovery, learning, and collaboration. Some refer to such web sites as collaboratories supporting team science. They call them hubs because each site becomes a focal point for its user community. HUBzero includes a powerful content management system built to support scientific activities. Users of a HUB can work together in projects, publish datasets and computational tools with Digital Object Identifiers (DOIs), and make these publications available for others to use--not as dusty downloads, but as live, interactive digital resources. Simulation/modeling tools published on a hub can be accessed with the click of a button. They run on cloud computing resources, campus clusters, and other national high-performance computing (HPC) facilities and serve up compelling visualizations. Projects can create public or private groups for collaboration and take advantage of over 10,000 Joomla! software extensions that provide additional functionality.

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• SciCrunch
• 14 years ago - by Anonymous

Software tool as collection of R packages designed for data science which share underlying design philosophy, grammar, and data structures. Packages work in harmony because they share common data representations and API design. Used in everyday data analyses.

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• RRID-Legacy
• 6 years ago - by Anonymous

Core provides services in gene editing using CRISPR/Cas9 approach, services on preserving lines by cryopreservation of sperms, and resurrecting mouse lines using in vitro fertilization (IVF) or embryo transfer. Additional services include rederivation to create pathogen-free mouse lines, developing molecular reagents for genetic engineering, and providing expert advice on mouse genetics and breeding schemes.

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• RRID
• 1 year ago - by Anonymous

Software repository for R packages related to analysis and comprehension of high throughput genomic data. Uses separate set of commands for installation of packages. Software project based on R programming language that provides tools for analysis and comprehension of high throughput genomic data.

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• SciCrunch
• 15 years ago - by Anonymous

Project to connect Earth and space science publishers and data facilities to help translate aspirations of open, available, and useful data from policy into practice. Community driven project to implement common policies and standards to accelerate scientific discovery by promoting open and FAIR data.

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• RRID-Legacy
• 6 years ago - submitted by Anita Bandrowski

Core offers standard and specialised histology services including tissue processing (murine, human and Drosophila tissue), processing of cellular material (cells, crypt cultures, organoids and spheroids), microtomy, cryo-microtomy, haematoxylin and eosin and specialised tissue stains along with automated immunohistochemical/ immunofluorescence/ in situ hybridisation analysis for specific labelling of individual tissue constituents.

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• 1 year ago - by Anonymous

GeneAnswers provide an integrated tool for given genes biological or medical interpretation. It includes statistical test of given genes and specified categories. Microarray techniques have been widely employed in genomic scale studies for more than one decade. The standard analysis of microarray data is to filter out a group of genes from thousands of probes by certain statistical criteria. These genes are usually called significantly differentially expressed genes. Recently, next generation sequencing (NGS) is gradually adopted to explore gene transcription, methylation, etc. Also a gene list can be obtained by NGS preliminary data analysis. However, this type of information is not enough to understand the potential linkage between identified genes and interested functions. The integrated functional and pathway analysis with gene expression data would be very helpful for researchers to interpret the relationship between the identified genes and proposed biological or medical functions and pathways. The GeneAnswers package provides an integrated solution for a group of genes and specified categories (biological or medical functions, such as Gene Ontology, Disease Ontology, KEGG, etc) to reveal the potential relationship between them by means of statistical methods, and make user-friendly network visualization to interpret the results. Besides the package has a function to combine gene expression profile and category analysis together by outputting concept-gene cross tables, keywords query on NCBI Entrez Gene and application of human based Disease ontology analysis of given genes from other species can help people to understand or discover potential connection between genes and functions. Sponsors: This project was supported in part by Award Number UL1RR025741 from the National Center for Research Resources.

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• SciCrunch
• 17 years ago - by Anonymous

A university in Rome that confers degrees in medicine, nursing, dieticians, the science of alimentation, and biomedical engineering.

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• SciCrunch
• 12 years ago - submitted by Andrea Stagg

Core with mission to harness data and expertise to power innovations that improve people’s health through unification and enhancement of interdisciplinary efforts at the intersection of artificial intelligence (AI) and health at the University of Michigan. Provides data services, secure computing resources, support to strategically integrate and study AI models in clinical workflows at Michigan Medicine.

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• RRID
• 1 year ago - submitted by Edyta Vieth

Database of Drosophila genetic and genomic information with information about stock collections and fly genetic tools. Gene Ontology (GO) terms are used to describe three attributes of wild-type gene products: their molecular function, the biological processes in which they play a role, and their subcellular location. Additionally, FlyBase accepts data submissions. FlyBase can be searched for genes, alleles, aberrations and other genetic objects, phenotypes, sequences, stocks, images and movies, controlled terms, and Drosophila researchers using the tools available from the "Tools" drop-down menu in the Navigation bar.

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• SciCrunch
• 16 years ago - by Anonymous