Curator Dashboard

Core specializes in mechanical design, fabrication, and repair of research equipment and instrumentation.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Core is responsible for fabricating and repairing intricate pieces of glassware and apparatus, as well as constructing complete high vacuum systems.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software package as collection of image analysis functions used to extract information from 3D images of porous materials typically obtained from X-ray tomography. Software Python toolkit for quantitative analysis of porous media images.

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• RRID
• 3 years ago - by Anonymous

Supports lead optimization programs and has established roster of medium throughput microphysiologic screening platforms including tissue- and tumor-on-a-chip platforms, organoid, and spheroid culture systems that will be used to evaluate efficacy and toxicity of new lead compounds and drug combinations.Provides resources to identify toxic liabilities in lead series molecules before entering pre-clinical or clinical testing. MLOTS can evaluate NME for cardiovascular, neuro, or liver toxicity relative to reference standards using in vitro screening platforms. Facility will potentially enhance the effectiveness of CPRITs drug discovery programs.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software for automated identification and relative quantitation of lipids. Provides automated identification of lipids and integrates entire dataset into concise report showing statistical differences between sample groups.

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• RRID
• 3 years ago - by Anonymous

Tool/Resource Public Description *

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• NIF
• 3 years ago - by Anonymous

Open source platform provides containers to support suite of neuroimaging software. Provides containerised data analysis environment to facilitate reproducible analysis of neuroimaging data. Analysis pipelines for neuroimaging data rely on specific versions of packages and software, and are dependent on their native operating system.

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• RRID
• 3 years ago - by Anonymous

Open source software package for building data infrastructure including data management, data integration, data flows, etc. Includes various data standards and provides software to work with data.

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• RRID
• 3 years ago - submitted by SOURABH PRAKASH

Open source software for parallel control over multiple behavioral systems.C++ optimized control layer software to give access to Raspberry Pi connected hardware. Suitable for time critical operations, and to be simple to expand. Used for general automation in experimental laboratories with its control PC located at some distance.

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• RRID
• 3 years ago - submitted by Jensen Palmer

Software for web application to control Docker containers that run webserver. Used to facilitate presenting analysis results interactively by running Docker images that are constricting any application that offers web interface. Any image can be loaded, and Kiosc manages access to web interface of application.

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• RRID
• 3 years ago - submitted by Mikko Nieminen

Web application for quality control, filtering, prioritization, analysis, and user based annotation of DNA variant data with focus on rare disease genetics. Comprehensive DNA variant analysis for diagnostics and research.

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• RRID
• 3 years ago - submitted by Mikko Nieminen

Software Python API for ISA-Tab files. It is an alternative implementation of ISA-tools data model and ISA-Tab file format.

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• RRID
• 3 years ago - submitted by Mikko Nieminen

Software Django based framework for building scientific data management web apps. Framework for Django web application development.

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• RRID
• 3 years ago - submitted by Mikko Nieminen

Core provides services including Sequencing (Sanger, NGS); Genotyping (micro array, fragment analysis); Molecular karyotyping (micro array); Bioinformatics (exomes [WES], genomes [WGS], gene panels [panels], transcriptome [RNAseq]). Equipment includes Illumina MiSeq sequencer;Ion Torrent Ion Proton sequencer and an Ion Chef for sample preparation;HPC cluster for bioinformatics processing of NGS data (WES, WGS, panels, RNASeq);Affymetrix microarray platform;Sanger sequencer and fragment analyser;Contracts for outsourcing WES, WGS and RNAseq, according to public procurement regulations;Highlander software, developed in-house, for variant analysis from NGS data.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Facility houses research equipment for evaluating materials and biological preparations, and offers 3D printing and 3D scientific illustration services. Available instruments include Cytation3 Automated Microscope Plate Reader, BioTek Inc.; Zetasizer Nano ZSP, Malvern Inc.; Lyophilizers FreeZone 6 and 6 Plus, Labconco; Azure300, Chemiluminescent Gel Imager, Azure Biosystems; Real-Time PCR I-cycler CFX-Connect, Bio-Rad Laboratories; Centrifuge Sorvall X1R, ThermoFisher; MCR302 Rheometer, Anton Paar Inc.; Plasma Cleaner, Harrick Plasma; NanoSight300, Malvern Instruments (Evanston); IncuCyte Live Cell Analysis System, Sartorius; Piuma Nanoindenter, Optics 11; Freezer/Mill, SPEX Sample Prep; J-1500 Circular Dichroism Spectrometer, JASCO.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Provides biomarker testing for human clinilcal research studies across multiple disciplines.Provides expertise with chemistry, special chemistry, radioimmunoassay, nephelometric and ELISA and multiplexing assay methods utilizing automated and manual procedures. Laboratory has Clinical Laboratory Improvement Act certification and follows guidelines established by CLIA for quality control and proficiency testing to ensure results. Core coordinates proper pre-analytical sample collection and processing procedures with project leaders; performs biochemical assays on samples submitted to the laboratory by investigators in manner that assures strict quality control both within and between assay runs; reports results to project staff in timely fashion; makes available expertise and technical assistance for establishing and validating new methodologies to support University of Miami investigators.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Web tool to estimates spectrum and frequency of small insertions and deletions generated in pool of cells by genome editing tools such as CRISPR/Cas9, TALENs and ZFNs. Used for quantification of small indels in DNA of targeted cell pool. Provides rapid and reliable assessment of genome editing experiments of target locus.

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• RRID
• 3 years ago - submitted by Xueqian Wang

Platform for data discovery to enhance the reuse of clinical neuroscience and neuroimaging data. Provides NeuroBridge ontology, and combines machine learning with ontology based search of both neuroimaging repositories like XNAT databases and open access full text journals such as PubMed Central. Connects researchers with potential neuroimaging data, by searching text of papers describing neuroimaging studies that contain information on neuroimaging data.

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• RRID
• 3 years ago - by Anonymous

Software tool to identify of Prokaryotic and Eukaryotic virus derived sequences in virome using deep learning. Used to calculate set of scores that reflect probability that input sequence fragments are prokaryotic and eukaryotic viral sequences.

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• RRID
• 3 years ago - submitted by Edyta Vieth

Software workflow for streamlined assembly and binning of metagenomes. Used for assembly and binning of metagenomes. Performs quality control, basic functional and taxonomic annotation of assembled contigs, using NCBI COG database.

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• RRID
• 3 years ago - submitted by Vinicius W Salazar