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http://www.moleculardevices.com/systems/metamorph-research-imaging/metafluor-fluorescence-ratio-imaging-software

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on June 1, 2023. Software designed to take single or multi-wavelength intracellular ion measurements an provide simultaneous display of the raw data, ratio image, graphs of intensities, ratios, ion concentrations, and a non-ratiometric image for microscope techniques such as a brightfield or phase-contrast image. Two different ratiometric indicators can be imaged and measured simultaneously to provide greater insight to ion exchange and intracellular function regardless of dye loading concentrations, conditions, or emission intensities.

Proper citation: MetaFluor Fluorescence Ratio Imaging Software (RRID:SCR_014331) Copy   

•   Source: SciCrunch Registry

https://www.cubi.bihealth.org/software/varfish/

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.

Proper citation: VarFish (RRID:SCR_023710) Copy   

•   Source: SciCrunch Registry

https://www.micro-shop.zeiss.com/en/us/system/axio+observer-axio+observer+3-inverted+microscopes/10301/

Inverted microscope Axio Observer 3 for transmitted light brightfield LED and differential interference contrast. Used for demanding multimodal imaging.

Proper citation: Zeiss: Axio Observer 3 (RRID:SCR_023693) Copy   

•   Source: SciCrunch Registry

https://github.com/mskcc/lohhla

Software tool to evaluate HLA loss using next-generation sequencing data. Computational tool to determine HLA allele-specific copy number from sequencing data.

Proper citation: LOHHLA (RRID:SCR_023690) Copy   

•   Source: SciCrunch Registry

https://www.standardbio.com/

American company engaged in design, manufacture and sale of biological research equipment based on integrated fluidic circuit technology. Founders leveraged their semiconductor experience to create integrated circuits that carried fluids rather than electrons.

Proper citation: Standard BioTools (RRID:SCR_023606) Copy   

•   Source: SciCrunch Registry

https://www.ionpath.com/

Pioneer in high definition spatial proteomics, tissue imaging and analysis to accelerate medical discovery and improve human health. With MIBI technology and expertise of pathology and data science teams, Ionpath provides actionable insights to translational and clinical researchers at leading pharmaceutical, biotechnology, and research organizations in immuno-oncology, immunology, neuroscience, and infectious disease research.

Proper citation: Ionpath (RRID:SCR_023605) Copy   

•   Source: SciCrunch Registry

https://www.keyence.com/

Direct sales organization that develops and manufactures automation sensors, vision systems, barcode readers, laser markers, measuring instruments, and digital microscopes. Founder Takemitsu Takizaki. Headquarters Osaka, Osaka, Japan.

Proper citation: Keyence (RRID:SCR_023604) Copy   

•   Source: SciCrunch Registry

https://pypi.org/project/oncoboxlib/

Software library to calculate Pathways Activation Levels. It takes file that contains gene symbols in HGNC format, their expression levels for one or more samples and calculates PAL values for each pathway in each sample.

Proper citation: oncoboxlib (RRID:SCR_023722) Copy   

•   Source: SciCrunch Registry

https://github.com/KumarLabJax/JABS-behavior-classifier

Video based phenotyping platform for laboratory mouse. Provides complete details of software and hardware, including 3D designs used for data collection. Data acquisition system consists of video collection hardware and software, behavior labeling and active learning app, and online database for sharing classifiers. Hardware and software solution collects high quality data for behavior analysis.

Proper citation: JAX Animal Behavior System (RRID:SCR_023721) Copy   

•   Source: SciCrunch Registry

https://industry.nikon.com/en-us/products/x-ray-ct/xt-h-225-xt-h-320/

Provides insight into the inside of components and specimens, allowing users to visualize, analyze and measure complex internal geometry as well as surfaces, all non-destructively. Versatile microfocus CT system for high resolution inspection in R&D and failure analysis of components ranging from tiny plastic connectors up to aluminum castings.

Proper citation: Nikon: XT H 225 ST uCT system (RRID:SCR_023687) Copy   

•   Source: SciCrunch Registry

https://andor.oxinst.com/

Provides development and manufacture of high performance scientific digital cameras, microscopy systems and spectrographs for academic, industrial and government applications.

Proper citation: Andor (RRID:SCR_023609) Copy   

•   Source: SciCrunch Registry

https://www.bruker.com/en.html

Bruker Daltonics is subsidary of Bruker Corporation American. Bruker is manufacturer of scientific instruments for molecular and materials research, as well as for industrial and applied analysis.

Proper citation: Bruker Daltonics (RRID:SCR_023608) Copy   

•   Source: SciCrunch Registry

https://ngdc.cncb.ac.cn/databasecommons/

Curated catalog of worldwide biological databases to provide landscape of biological databases throughout the world and enable easy retrieval and access to specific collection of databases of interest. Catalog of worldwide biological databases as well as their curated meta information and derived statistics.

Proper citation: Database Commons (RRID:SCR_023661) Copy   

•   Source: SciCrunch Registry

https://github.com/vpc-ccg/svict

Software tool for detecting structural variations from cell free DNA containing low dilutions of circulating tumor DNA.

Proper citation: SViCT (RRID:SCR_023656) Copy   

•   Source: SciCrunch Registry

https://github.com/emo-bon/MetaGOflow

Software pipeline for marine Genomic Observatories data analysis. Used to address challenges of analysis of European Marine Omics Biodiversity Observation Network data.

Proper citation: metaGOflow (RRID:SCR_023674) Copy   

•   Source: SciCrunch Registry

http://www.proteomesoftware.com/products/scaffold/

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on June 1,2023. Visualize and validate complex MS/MS proteomics experiments

Proper citation: Scaffold (RRID:SCR_014321) Copy   

•   Source: SciCrunch Registry

https://www.10xgenomics.com/instruments/xenium-analyzer

Xenium Analyzer offers subcellular profiling of 100s to 1,000s of RNA targets alongside multiplexed protein, in fresh, frozen or FFPE tissue.

Proper citation: 10x Genomics: Xenium Analyzer (RRID:SCR_023910) Copy   

•   Source: SciCrunch Registry

https://github.com/eMetaboHUB/Forum-LiteraturePropagation

Method extending ’guilt by association’ principle to literature information by using Bayesian framework to suggest diseases associated with overlooked metabolites.

Proper citation: Forum Literature Propagation (RRID:SCR_023874) Copy   

•   Source: SciCrunch Registry

https://www.akoyabio.com/

Spatial biology company offering solutions for high parameter tissue analysis from discovery through clinical and translational research, enabling development of more precise therapies for immuno-oncology and other drug development applications.

Proper citation: Akoya Biosciences (RRID:SCR_023774) Copy   

•   Source: SciCrunch Registry

https://www.akoyabio.com/phenocycler/instrument/

PhenoCycler-Fusion system is integrated platform combining automated, ultrahigh-plex cycling platform, Akoya PhenoCycler, and its high-speed imaging platform, PhenoImager (formerly Phenoptics), into end-to-end, integrated workflow.

Proper citation: Akoya Biosciences: PhenoCycler-Fusion (RRID:SCR_023773) Copy   

•   Source: SciCrunch Registry