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https://CRAN.R-project.org/package=trend
Software package includes tests for trends and change points detection. Used in analysis of environmental data.
Proper citation: trend (RRID:SCR_018658) Copy
Cell viability counter. Touchscreen fluorescent automated cell counter for primary samples by Nexcelom Bioscience.
Proper citation: McKinley: Cellometer Auto 2000 Cell Viability Counter (RRID:SCR_018656) Copy
https://hartleys.github.io/QoRTs/
Software package for quality control and data processing of RNA-Seq experiments. Software portable multifunction toolkit for assisting in analysis, quality control, and data management of RNA-Seq and DNA-Seq datasets. Used for detection and identification of errors, biases, and artifacts produced by high throughput sequencing technology. Can be used in operating system that supports Java and R.
Proper citation: QoRTs (RRID:SCR_018665) Copy
http://smithlabresearch.org/software/preseq/
Software package for predicting library complexity and genome coverage in high throughput sequencing. Aimed at predicting yield of distinct reads from genomic library from initial sequencing experiment. Predicting molecular complexity of sequencing libraries.
Proper citation: Preseq (RRID:SCR_018664) Copy
https://mass-spec.stanford.edu/instruments
HFX offers scanning rate to improve proteomic depth for discovery applications. Integrates well with targeted applications such as parallel reaction monitoring. Mass Spectrometer to identify and quantify proteins, peptides, lipids, glycans and small molecules accurately.
Proper citation: Thermo Fisher: QE-HFX mass spectrometer (RRID:SCR_018703) Copy
https://mass-spec.stanford.edu/instruments
System includes Thermo Orbitrap Fusion Tribrid mass spectrometer and Waters M-Class Acquity nanoUPLC. This platform features sequential acquisition capabilities and multiple fragmentation types, enabling complex, in depth proteomic experiments.
Proper citation: Thermo Fisher: Orbitrap Fusion nanoLC/MS system (RRID:SCR_018702) Copy
https://mass-spec.stanford.edu/instruments
LTQ XL ion trap mass spectrometer with Agilent 1100 HPLC system for metabolite identification, stability testing, degradation products, and high abundance quantitation.
Proper citation: Thermo Fisher: LTQ XL LC/MS system (RRID:SCR_018701) Copy
https://github.com/wangdingkang/DiscreteMorse
Discrete Morse based pipeline for neuron tracing on tracer injection and single neuron data sets. Automatically generates set of trees summarization of given neuron imaging data. Used to extract tree skeletons of individual neurons from volumetric brain image data, and to summarize collections of neurons labelled by tracer injections.
Proper citation: Discrete Morse (RRID:SCR_018662) Copy
https://bioconductor.org/packages/minet/
Open source software R package for inferring large transcriptional networks using mutual information. Implements algorithms for inferring networks such as gene networks from microarray data.
Proper citation: minet (RRID:SCR_018661) Copy
Web service for querying or retrieving gene annotation data.
Proper citation: MyGene.info (RRID:SCR_018660) Copy
http://labx.com/product/stratagene-stratalinker-1800
UV crosslinker designed to crosslink DNA or RNA to nylon, nitrocellulose, or nylon reinforced nitrocellulose membranes in 25 to 50 seconds. It is equipped with internal photodetector to compensate for aging ultraviolet bulbs.
Proper citation: Stratagene: 1800 UV Crosslinker (RRID:SCR_018631) Copy
https://www.labx.com/product/sciex-4000-qtrap-
Hybrid triple quadrupole linear ion trap mass spectrometer for drug discovery and development, metabolite identification, contaminant testing, proteomic applications, post translationally modified proteins discovery, protein identification, and biomarker validation.
Proper citation: SCIEX: 4000 QTRAP Mass Spectrometer (RRID:SCR_018630) Copy
https://www.tainstruments.com/3200-system/
Mechanical testing apparatus with 225 N or 450 N maximum force and range of static to 300 Hz frequency response. Tests include torsion testing, creep under dynamic loading, special environment hot cold chambers, biomedical research, and engineered materials test applications..
Proper citation: TA Instruments: Electroforce 3200 Mechanical Testing Apparatus (RRID:SCR_018637) Copy
https://diagnostics.roche.com/global/en/products/instruments/discovery-xt-research-platform.html
Immunohistochemistry processor that can be used for immunohistochemistry and in situ hybridization slide preparation and processing.
Proper citation: Roche: Ventana Discovery XT Immunohistochemistry Processor (RRID:SCR_018643) Copy
Laser capture microdissection system that includes infrared lasers. It can be used for laser capture microdissection LCM, ultraviolet UV laser cutting, sanger sequencing, next generation sequencing, and quantitative PCR.
Proper citation: Thermo Fisher: Arcturus Cellect Laser Capture Microdissection System (RRID:SCR_018641) Copy
Automated wide range incubator used to minimize plate movement, receive samples, store plates, and track plates.Temperature range is from 10 to 50 degrees Celsius with humidity level of up to 95 rH.
Proper citation: Thermo Fisher: Cytomat 6001 Automated Wide Range Incubator (RRID:SCR_018646) Copy
http://www.mediacy.com/imagepro
Software platform to perform image processing, analysis, and data reporting for microscope-based research and quality inspection.
Proper citation: Image Pro (RRID:SCR_016497) Copy
https://www.humancellatlas.org
Software tool as a catalog of comprehensive reference of human cells based on their stable properties, transient features, locations and abundances. Map to show the relationships among its elements. Open data international collaborative project involving diverse scientific communities to provide a framework for understanding cellular dysregulation in human disease.
Proper citation: Human Cell Atlas (RRID:SCR_016530) Copy
https://ihg.helmholtz-muenchen.de/cgi-bin/hw/hwa1.pl
Software tool for performing tests for deviation from Hardy-Weinberg equilibrium and tests for association. Used in population-based genetic association studies to identify susceptibility genes for complex diseases.
Proper citation: Tests for deviation from Hardy-Weinberg equilibrium (RRID:SCR_016496) Copy
Platform for analysis of the genetics of cardiovascular disease.Used for searching and analysis of human genetic information linked to myocardial infarction, atrial fibrillation and related traits while protecting the integrity and confidentiality of the data.
Proper citation: Cardiovascular Disease Knowledge Portal (RRID:SCR_016536) Copy
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