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Recirculating chiller that provides reliable temperature control with a temperature range from -5�C to +90�C
Proper citation: Thermo Fisher: ThermoFlex 5000; Recirculating Chiller (RRID:SCR_020854) Copy
https://www.cityofhope.org/research/beckman-research-institute
Not-for-profit medical research facility located at and partnering with the City of Hope National Medical Center in Duarte, CA, United States.Fields of research include Cancer, Diabetes, Metabolic disorder, HIV/AIDS.
Proper citation: Beckman Research Institute of City of Hope (RRID:SCR_020975) Copy
https://www.miltenyibiotec.com/products/macs-flow-cytometry/software/flowlogic-software.html
Software tool for flow cytometry data analysis by Miltenyi Biotec.
Proper citation: Flowlogic (RRID:SCR_020942) Copy
https://guoweilong.github.io/BS_Seeker2/index.html
Software tool as versatile aligning pipeline for bisulfite sequencing data. Used for mapping bisulfite sequencing data and generating DNA methylomes. Improves mappability over existing aligners by using local alignment. Maps reads from RRBS library by building special indexes with improved efficiency and accuracy. Provides additional function for filtering out reads with incomplete bisulfite conversion, which is useful in minimizing overestimation of DNA methylation levels.
Proper citation: Bs-Seeker2 (RRID:SCR_020948) Copy
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3001096/
Software pipeline to identify MITEs as well as other small Class 2 non autonomous Transposable Elements from genomic DNA data sets. Used for discovering miniature inverted repeat transposable elements from genomic sequences. Can search large genomic data sets including whole genome sequences.
Proper citation: MITE-Hunter (RRID:SCR_020946) Copy
Software package for DNA methylation analysis. Used for context-wise, gene-wise, bin-wise, region-wise and sample-wise analysis and visualizations. Used to improve precision of heterozygous SNV calls and supports allele-specific methylation detection and visualization in bisulfite-sequencing data.
Proper citation: cgmapotools (RRID:SCR_020950) Copy
Portal to build, train and deploy state of the art models powered by reference open source in natural language processing.
Proper citation: Hugging Face (RRID:SCR_020958) Copy
https://github.com/Niinleslie/MesKit
Software R package for dissecting cancer evolution from multi region derived tumor biopsies via somatic mutations. Used for characterizing cancer genomic ITH and inferring history of tumor evolution via implementation of well established computational and statistical methods.
Proper citation: MesKit (RRID:SCR_020959) Copy
https://resources.revvity.com/pdfs/tch-opera-phenix-plus-improved-3d-imaging.pdf
Opera Phenix Plus system for high throughput high content assays, phenotypic screening, assays using complex disease models, such as live cells, primary cells and microtissues, and fast response assays like calcium flux or cardiomyocyte beating.Optical design lets you generate information through confocal imaging and at higher throughput through simultaneous acquisition. Delivers speed without compromising sensitivity. Uses Harmony High Content Imaging and Analysis Software to quantify complex cellular phenotypes. Harmony software is designed for PerkinElmer high content screening systems.
Proper citation: Perkin Elmer: Opera Phenix Plus High Content Screening System (RRID:SCR_021100) Copy
https://www.microscope.healthcare.nikon.com/en_EU/products/inverted-microscopes/eclipse-ti2-series
Inverted microscope delivers unparalleled 25mm field of view. With this FOV, the Ti2 maximizes sensor area of large format CMOS cameras without making compromises, and significantly improves data throughput. Stable, drift free platform designed to meet demands of super resolution imaging with high speed imaging applications. Status of each sensor is automatically recorded during acquisition, providing quality control for imaging experiments and enhancing data reproducibility.
Proper citation: Nikon: ECLIPSE Ti2 inverted microscope (RRID:SCR_021068) Copy
https://www.robotreviewer.net/about
Open source web based system that uses machine learning and NLP to semi automate biomedical evidence synthesis, to aid practice of Evidence Based Medicine. Processes full text journal articles describing randomized controlled trials. Designed to automatically extract key data items from reports of clinical trials.
Proper citation: RobotReviewer (RRID:SCR_021064) Copy
https://www.microscopyu.com/museum/model-smz1500-stereomicroscope
SMZ1500 stereoscopic zoom microscope is system with apochromatic objectives, zoom ratio of 15 to 1, range of magnifications from 0.75x to 11.25x for total magnifying capability of 3.75x up to 540x, and is best for in depth imaging.Zoom knob allows to zoom from 1x to 11x at 1x-intervals without interrupting observations. Other facets include high eyepoint eyepieces with built-in diopter adjustments, wide field of view, and built-in aperture diaphragm for achieving optimal depth of focus and improved photomicrography.Provides options of either low eye-level viewing tube or tilting eyepiece tube, with or without eye-level risers. Three different diascopic stands with built-in power supplies may also be utilized with instrument, or standard stand that features low profile for increased clearance.
Proper citation: Nikon: SMZ1500 Zoom Stereoscope (RRID:SCR_018605) Copy
https://www.gmi-inc.com/product/packard-cobra-gamma-counter-series/
Gamma counter available in single, five, or ten detector configurations. Can count RIA tubes, 16x100mm and variety of smaller micro tubes using available adapter.This instrument has dot Matrix Printer, tube racks, and protocol ID tags.Single detector model is available in 2 inch or 3 inch crystal configurations for research grade capabilities.
Proper citation: Packard: Cobra 5000 Gamma Counter (RRID:SCR_018609) Copy
https://mass-spec.stanford.edu/instruments
Shimadzu 8030 triple quadrupole mass spectrometer used for targeted quantitation applications. Listed by Stanford University Mass Spectrometry Vincent Coates Foundation Instruments.
Proper citation: Stanford Shimadzu 8030 LC/MS mass spectrometer (RRID:SCR_018699) Copy
Dual channel fluorimeter for fluorescence measurements when calibrated with known concentration to measure compounds at low concentration with low assay volume.
Proper citation: Promega: TBS-380 Fluorimeter (RRID:SCR_018615) Copy
Microplate luminometer that features two optional injectors and reads both glow- and flash-luminescent reactions in 96-well plates. The sensitivity and range enable a wide range of luminescent assays, including Promega bioluminescent reporter, cell-based and biochemical assays., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.
Proper citation: Promega: GloMax 96 Microplate Luminometer (RRID:SCR_018614) Copy
https://mass-spec.stanford.edu/instruments
Agilent GC/MS is single quadrupole instrument with electron ionization. GC/MS runs under ChemStation open access software, and trained open access users select from menu of standard methods to analyze their samples.
Proper citation: Agilent: 7890/5975 GC/MS system (RRID:SCR_018695) Copy
Web platform for downstream analysis and visualization of proteomics data. Server that facilitates integrated annotation, analysis and visualization of quantitative proteomics data, with emphasis on PTM networks and integration with LINCS library of chemical and genetic perturbation signatures in order to provide further mechanistic and functional insights. Primary input for server consists of set of peptides or proteins, optionally with PTM sites, and their corresponding abundance values.
Proper citation: piNET (RRID:SCR_018693) Copy
Sequencing and quantification platform for epigenetics, mutation gene expression analysis, and microbial identification and resistance typing. With its 96-well format, automatic base-calling function, and dedicated software solutions for methylation analysis and assay design.
Proper citation: Qiagen: PyroMark Q96 System (RRID:SCR_018617) Copy
Liquid handling system for production of complex liquid formulations produced from individual stock solutions of various chemical and liquid properties. With a CV of less than 2%.
Proper citation: Rigaku: Alchemist II Liquid Handler (RRID:SCR_018625) Copy
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