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https://precisionhealth.umich.edu/our-research/michigangenomics/

Collaborative research effort among physicians, researchers, and patients at the University of Michigan with goal of combining patient electronic health record data with corresponding genetic data to gain novel biomedical insights. Biobank linking genotypes and electronic clinical records in Michigan Medicine patients. MGI participants agree to provide study team with access to EHR data for clinical information and biospecimen including blood or saliva.

Proper citation: Michigan Genomics Initiative (RRID:SCR_023556) Copy   

•   Source: SciCrunch Registry

https://github.com/frlender/DendroX

Web application for multi-level multi-cluster selections in dendrogram. Provides interactive visualization of dendrogram in which users can divide dendrogram at any level and into any number of clusters.

Proper citation: DendroX (RRID:SCR_023434) Copy   

•   Source: SciCrunch Registry

https://pypi.org/project/roifile/

Software Python package to read, write, create, and plot ImageJ ROI format, an undocumented and ImageJ application specific format to store regions of interest, geometric shapes, paths, text, and whatnot for image overlays.

Proper citation: roifile (RRID:SCR_023331) Copy   

•   Source: SciCrunch Registry

https://www.gmi-inc.com/product/nuaire-labgard-es-nu-425-biosafety-cabinet-series-2/

Designed for laboratory safety, proper ergonomics, and energy efficiency.Models available from GMI are 2-ft. NU-425-200, 3-ft. NU-425-300, 4-ft. NU-425-400, and 6-ft. NU-425-600. LabGard NU-425 biosafety cabinets feature control system to control blower, lights, and outlets, Minihelic gauge that measures plenum performance, and Attenumount vibration control system for attenuation of sound and vibration. Cabinets are equipped with highly efficient, energy-saving motor/blower to increase filter life and cut electricity costs.

Proper citation: NuAire: LabGard ES NU-425-600E Biosafety Cabinet (RRID:SCR_023448) Copy   

•   Source: SciCrunch Registry

https://www.perkinelmer.com/product/harmony-5-1-office-hh17000012

Software tool designed by PerkinElmer for high content screening systems. Used to quantify complex cellular phenotypes. High content analysis software.

Proper citation: Harmony (RRID:SCR_023543) Copy   

•   Source: SciCrunch Registry

https://www.fasteris.com/en-us/NGS

Fasteris, the brand of Genesupport SA for all Life Science Services, provides Next Generation Sequencing and Sanger sequencing services.Offers customized approaches and consulting services at each step of your projects.

Proper citation: Fasteris Next Generation Sequencing Services (RRID:SCR_023421) Copy   

•   Source: SciCrunch Registry

https://www.gehealthcare.com/products/advanced-visualization/all-applications/volume-viewer

Software tool to provide data 3D visualization and processing. Used for reading and comparing CT, MR, 3D X-ray, PET, and PET/CT datasets.

Proper citation: GE Volume Viewer (RRID:SCR_023417) Copy   

•   Source: SciCrunch Registry

https://www.fz-juelich.de/en

One of the largest interdisciplinary research centers in Europe for inspiring science exchange from all over the world. It is member of the Helmholtz Association.

Proper citation: Research Center Jülich; Jülich; Germany (RRID:SCR_023416) Copy   

•   Source: SciCrunch Registry

https://broadinstitute.github.io/warp/docs/Pipelines/SlideSeq_Pipeline/README/

Software pipeline developed in collaboration with BRAIN Initiative Cell Census Network and BRAIN Initiative Cell Atlas Network. Supports processing of spatial transcriptomic data generated with Slide-seq commercialized as Curio Seeker assay.

Proper citation: Slide-seq Pipeline (RRID:SCR_023379) Copy   

•   Source: SciCrunch Registry

https://github.com/CaT-zTools/CaT-z_Software

Software tool for 3D tracking and automatic classification of rodent behavior. Used for acquisition, annotation, and automatic behavioral profile characterization of laboratory rodents' RGB-D videos. Utilizes video segmentation, tracking of body parts, and automated classification of behaviors through machine learning and computer vision methods. Setup uses low costing RGB-D cameras for tracking behaviors in various environments. Software includes GUI interfaces for video acquisition, annotation, and processing of behavioral data. Software is capable of automated behavior detection with only 30 minutes of annotated video.

Proper citation: CaT-z (RRID:SCR_023399) Copy   

•   Source: SciCrunch Registry

https://www.questionpro.de/

Survey software to design and host questionaires. Used as survey creator. Enables to choose from survey question types ranging from net promoter score questions for efficient customer satisfaction surveys to advanced multiple-choice and logic-based research questions.

Proper citation: QuestionPro (RRID:SCR_023309) Copy   

•   Source: SciCrunch Registry

https://lookerstudio.google.com/

Former name Google Data Studio, is online tool for converting data into customizable informative reports and dashboards introduced by Google on March 15, 2016 as part of enterprise Google Analytics 360 suite. Online service for graphic data visualization.

Proper citation: Google Looker Studio (RRID:SCR_023549) Copy   

•   Source: SciCrunch Registry

https://github.com/IGGoncalves/PhysiCOOL

Software Python library tailored to perform model calibration studies with PhysiCell. Generalized framework for model Calibration and Optimization Of modeLing projects.

Proper citation: PhysiCOOL (RRID:SCR_023305) Copy   

•   Source: SciCrunch Registry

https://github.com/Nanostring-Biostats/GeomxTools/

Software package contains tools for analyzing data from NanoString GeoMx Digital Spatial Profiler. Provides functions to read, quality control and normalize starting from Nanostring DCC and PKC files generated from NanoString GeoMx DSP. Contains definition of NanoStringGeoMxSet class which inherits from Biobase’s ExpressionSet class and NanoStringRCCSet class.

Proper citation: NanoString GeoMx Tools (RRID:SCR_023424) Copy   

•   Source: SciCrunch Registry

https://github.com/AIRI-Institute/DeepCT

Software tool can learn complex interconnections of epigenetic features and infer unmeasured data from any available input. Can learn cell type-specific properties, build biologically meaningful vector representations of cell types, and utilize these representations to generate cell type-specific predictions of effects of non-coding variations in human genome.

Proper citation: DeepCT (RRID:SCR_023302) Copy   

•   Source: SciCrunch Registry

https://choishingwan.gitlab.io/EraSOR/

Software Python tool for removing bias introduced from having overlapped samples between base GWAS data and target genotype data for Polygenic Risk Score analyses. Used for adjusting inflation in PRS prediction and association statistics in presence of sample overlap or close relatedness between GWAS and target samples.

Proper citation: EraSOR (RRID:SCR_023544) Copy   

•   Source: SciCrunch Registry

https://non-igg-ab.creative-biolabs.com/non-igg-antibody-application-for-clinical-diagnosis.htm

Provides high quality custom non-IgG antibody services.

Proper citation: Creative Biolabs Non-IgG Antibody Isotypes Services (RRID:SCR_023640) Copy   

•   Source: SciCrunch Registry

https://www.hamamatsu.com/jp/en/product/life-science-and-medical-systems/digital-slide-scanner/C13220-01.html

NanoZoomer series is family of whole slide scanners that rapidly scan glass slides to convert them to digital data. NanoZoomer S360 is ideal for use in hospitals and clinical laboratories.

Proper citation: Hamamatsu: NanoZoomer S360 Digital slide scanner (RRID:SCR_023761) Copy   

•   Source: SciCrunch Registry

https://www.hamamatsu.com/jp/en/product/life-science-and-medical-systems/digital-slide-scanner/C13239-01.html

NanoZoomer series is family of whole slide scanners that rapidly scan glass slides to convert them to digital data. NanoZoomer S210 provides high performance capable of handling large number of slides.

Proper citation: Hamamatsu: NanoZoomer S210 Digital slide scanner (RRID:SCR_023760) Copy   

•   Source: SciCrunch Registry

https://www.hamamatsu.com/jp/en/product/life-science-and-medical-systems/kinetic-plate-imager/C15711-02.html

Kinetic plate imager optimized for 96-, 384-, and 1536-well for high throughput screening, enabling whole microplate imaging and simultaneous injections to all wells. System achieves high sensitivity imaging with qCMOS sensor, and highly accurate and repeatable micro-dispensing by adopting 1536 ch dispensing unit capable of dispensing variable volumes. By combining optional parts, robot free semi automation system can be built according to user's purpose.

Proper citation: Hamamatsu: FDSS-GX Kinetic Plate Imager (RRID:SCR_023759) Copy   

•   Source: SciCrunch Registry