Curator Dashboard

SISTR command-line tool. Open web accessible tool for rapidly typing and subtyping draft salmonella genome assemblies.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Database of genetic and molecular biological information about Candida albicans. Contains information about genes and proteins, descriptions and classifications of their biological roles, molecular functions, and subcellular localizations, gene, protein, and chromosome sequence information, tools for analysis and comparison of sequences and links to literature information. Each CGD gene or open reading frame has an individual Locus Page. Genetic loci that are not tied to DNA sequence also have Locus Pages. Provides Gene Ontology, GO, to all its users. Three ontologies that comprise GO (Molecular Function, Cellular Component, and Biological Process) are used by multiple databases to annotate gene products, so that this common vocabulary can be used to compare gene products across species. Development of ontologies is ongoing in order to incorporate new information. Data submissions are welcome.

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• SciCrunch
• 17 years ago - by Anonymous

test1

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• SciCrunch
• 10 years ago - submitted by Jamie Li

Software tool as clustering method for amplicon-based studies.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Online platform for visualizing and editing the morphology of neurons. Written in Java.

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• SciCrunch
• 17 years ago - by Anonymous

Database for marine genomics data. Users can access genomics datasets from various organisms as well as carry out BLAST and submit genomics information of their own. Data sets include coral, aiptasia, sponges, and sybiodinium.

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• RRID-Legacy
• 10 years ago - by Anonymous

Software tool as command line program that performs many of the common routines in pattern matching in biological strings. It was originally designed for restriction enzyme analysis and while that still forms core of the program, it has been expanded to fill more roles, sort of 'grep' for DNA.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

The Structural Genomics Project aims at determination of the 3D structure of all proteins. It also aims to reduce the cost and time required to determine three-dimensional protein structures. It supports selection, registration, and tracking of protein families and representative targets. This aim can be achieved in four steps : -Organize known protein sequences into families. -Select family representatives as targets. -Solve the 3D structure of targets by X-ray crystallography or NMR spectroscopy. -Build models for other proteins by homology to solved 3D structures. PSI has established a high-throughput structure determination pipeline focused on eukaryotic proteins. NMR spectroscopy is an integral part of this pipeline, both as a method for structure determinations and as a means for screening proteins for stable structure. Because computational approaches have estimated that many eukaryotic proteins are highly disordered, about 1 year into the project, CESG began to use an algorithm. The project has been organized into two separate phases. The first phase was dedicated to demonstrating the feasibility of high-throughput structure determination, solving unique protein structures, and preparing for a subsequent production phase. The second phase, PSI-2, has focused on implementing the high-throughput structure determination methods developed in PSI-1, as well as homology modeling and addressing bottlenecks like modeling membrane proteins. The first phase of the Protein Structure Initiative (PSI-1) saw the establishment of nine pilot centers focusing on structural genomics studies of a range of organisms, including Arabidopsis thaliana, Caenorhabditis elegans and Mycobacterium tuberculosis. During this five-year period over 1,100 protein structures were determined, over 700 of which were classified as unique due to their < 30% sequence similarity with other known protein structures. The primary goal of PSI-1 was to develop methods to streamline the structure determination process, resulted in an array of technical advances. Several methods developed during PSI-1 enhanced expression of recombinant proteins in systems like Escherichia coli, Pichia pastoris and insect cell lines. New streamlined approaches to cell cloning, expression and protein purification were also introduced, in which robotics and software platforms were integrated into the protein production pipeline to minimize required manpower, increase speed, and lower costs. The goal of the second phase of the Protein Structure Initiative (PSI-2) is to use methods introduced in PSI-1 to determine a large number of proteins and continue development in streamlining the structural genomics pipeline. Currently, the third phase of the PSI is being developed and will be called PSI: Biology. The consortia will propose work on substantial biological problems that can benefit from the determination of many protein structures Sponsors: PSI is funded by the U.S. National Institute of General Medical Sciences (NIGMS),

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• SciCrunch
• 17 years ago - by Anonymous

Software for de novo data simulation. It uses empirical distribution to reproduce Illumina pair-end reads with real distribution of substitution sequencing errors, quality values and GC%-depth bias.

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• SciCrunch
• 13 years ago - by Anonymous

Software tool for protein structure alignment based on TM-score.Used to identify structural alignment between protein pairs that combines the TM-score rotation matrix and Dynamic Programming. Used for sequence independent protein structure comparisons.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Seismic Reflection Field Data from the academic research community. Their partner Academic Seismic Portal at UTIG offers additional seismic resources, http://www.ig.utexas.edu/sdc/

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• SciCrunch
• 14 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 23,2024.Core which provides islets to the local diabetes research community in the Boston area. They collaborate with researchers nationally to provide nonhuman primate (NHP) islets for research.

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• SciCrunch
• 10 years ago - submitted by Kristen Jensen

Software R package provides bindings for the Geospatial Data Abstraction Library. Translator library for raster and vector geospatial data formats.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Sample Catalog and Registry for the International Geo Sample Number. SESAR catalogs and preserves sample metadata profiles, and provides access to the sample catalog via the Global Sample Search.

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• SciCrunch
• 14 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on November 6,2024. Core that maintains a centralized facility for the generation and propagation of reprogrammed iPS cells for use in molecular and cellular pathologies underlying diabetes and its complications.

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• SciCrunch
• 10 years ago - submitted by Kristen Jensen

Automated Biological Calorimetry Facility provides infrastructure and support for individual investigators to undertake studies of macromolecule binding and folding, as well as protein and lipid quantification. Our calorimetry instruments are fully automated and require the least amount of sample of any commercially available instruments.Provides instrumentation and collaborative assistance for Isothermal titration calorimetry for studying ligand-macromolecule binding; Differential scanning calorimetry for investigating stability and folding thermodynamics. Staff is available to assist with project development and research.

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• SciCrunch
• 3 years ago - submitted by Craig Praul

Independent international facilitator catalyzing and coordinating global development of neuroinformatics aiming to advance data reuse and reproducibility in global brain research. Integrates and analyzes diverse data across scales, techniques, and species to understand brain function and positively impact the health and well being of society.

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• SciCrunch
• 17 years ago - by Anonymous

Core whose services include generation of human induced pluripotent stem cells (iPSCs) from DHC-relevant patient cells and directed differentiation of human pluripotent stem cells (hPSCs) to human intestinal organoids (HIOs).

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• SciCrunch
• 10 years ago - submitted by Kristen Jensen

Software R package enables creation of Ridgeline plots in 'ggplot2'

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

This simple visualization tool allows to load several images at the same time. The cursor across all windows are coupled and you can move/zoom on all the images at the same time. Very useful for quality control, image comparison.

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• SciCrunch
• 14 years ago - by Anonymous