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Illumina iScan System

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Overview

The Illumina iScan system is an array scanner that supports sensitive and accurate imaging of Illumina’s array based genetic analysis products.

Technology

Illumina bead-based microarray technology uses silica microbeads. As DNA fragments pass over the BeadChip, each probe binds to a complementary sequence in the sample DNA, stopping one base before the locus of interest. Allele specificity is conferred by a single base extension that incorporates one of four labeled nucleotides. When excited by a laser, the nucleotide label emits a signal. The intensity of that signal conveys information about the allelic ratio at that locus.

Key Features

  • High throughput and rapid turnaround.
  • High performance lasers, optics and detection systems deliver sub-micron resolution.

Availability

Wide range of arrays available:

  • Infinium global screening array- 24 v3.0 kit
    • Serves as a customizable genomic tool for disease risk profiling studies, can add up to 100K genetic markers.
    • Consolidated up to date with clinical research screening markers from databases like ClinVar, CPIC andPharmGKB.
    • Array supports sequencing and CNV calling for the following sample types- blood, buccal swabs, FFPE tissue, saliva.
    • Sample throughput- 5750 samples per week
  • Infinium Asian Screening Array-24 v1.0 kit
  • Infinium Japanese Screening Array-24 v1.0 kit
  • Infinium Chinese Genotyping array-24 v1.0
  • Infinium Core 24 v1.2 kit
  • Infinium Core Exome 24 v1.4 kit
  • Infinium Exome 24 v1.1 kit
  • Infinium OmniExpress-24 v1.4 kit
  • Infinium OmniExpressExome-8 kit
  • Infinium PsychArray-24 v1.3 kit
  • Infinium Global Diversity Array-8 v1.0 kit
  • Infinium ImmunoArray-24 v2 BeadChip Kit
  • Infinium OncoArray-500K bead chip
  • Infinium QC Array-24 v1.0 Kit
  • Infinium Omni2.5-8 Kit
  • Infinium Omni2.5Excome-8 Kit
  • Infinium OmniZhongHua-8 v1.4 Kit
  • Infinium Omni5-4 v1.2 Kit
  • Infinium Omni5Exome-4 v1.3 Kit
  • Infinium Methylation EPIC BeadChip Kit
    • This array can selectively interrogate over 850K methylation sites at single-nucleotide resolution.
    • Up to eight Samples per array.
    • FFPE Tissue and low-input samples
  • Infinium Mouse Methylation BeadChip Kit
    • Infinium Mouse Methylation BeadChip enables quantitative methylation measurement at single-nucleotide resolution for understanding murine epigenetic changes.
    • The BeadChip interrogates more than 285,000 methylation sites per sample
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N-Counter Sprint Profiler

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Overview

Digital examination of multiple RNA, DNA pathways in a single tube in an extraction free workflow.

Technology

Directly reads RNA by tagging it with capture probe and reporter probe creating a unique target probe complex. Excess probes are removed after hybridization. The complexes are then immobilized and aligned on the imaging surface. The sample is scanned by an automated fluorescence microscope and data analyzed with an analysis software

Key Features

  • Data is highly reproducible
  • Up to 800 RNA targets can be identified in a single tube, quick turnaround
  • Flexible sample input (FFPE, Serum, Plasma and PBMC)

Availability

Several panels are available:

  • Pan Cancer Progression Panels
  • Pan Cancer IO360™ for FFPE
  • miRNA Panels
  • Neuroscience Panels
  • Immunology Panels
  • Inflammation Panels
  • Pan Cancer Progression Panels
  • Pan Cancer IO360™ for FFPE
  • miRNA Panels
  • Neuroscience Panels
  • Immunology Panels
  • Inflammation Panels
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Digital Spatial Profiling

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Overview

The GeoMx Digital Spatial Profiler (DSP) provides morphological context in spatial transcriptomics and spatial proteomics experiments from just one slide.

Technology

The tissue sections are stained using an mRNA or protein panel with DSP barcodes and immunofluorescent markers. Regions of interest are selected using GeoMx software, the barcodes are photocleaved and collected and quantified to create expression profiles.

Key Features

  • Multiplex spatial profiling of proteins or RNAs on FFPE samples.
  • Samples can be stained and select the desired tissue compartment and readout the expression levels.
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Bioanalyzer

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Overview

The Agilent 2100 Bioanalyzer system is an established automated electrophoresis solution for the sample quality control of biomolecules. The system integrates an instrument, data processing software, reagents, and a microfluidic chip specific for DNA, RNA, or protein analysis.

Technology

Conventional gel electrophoretic assays have been transferred to a chip format. DNA and protein samples are quantitated with the help of an upper marker or known standard while RNA samples are run alongside a ladder and quantitated. For total RNA assays, ribosomal ratio is determined which is an indicator of the integrity of the sample.

Key Features

  • The Agilent RNA 6000 Pico kit will accommodate up to 11 samples with concentration ranging from 50-5000 picograms per microliter for samples in water.
  • The Agilent Small RNA kit will accommodate up to 11 samples and will separate RNA fragments in the range of 6 to 150 nucleotides with a total RNA concentration 1-100 nanograms per microliter.”
  • The Agilent RNA 6000 Nano kit will take a maximum of 12 samples with the concentration range in 25 to 500 nanograms per microliter.
  • The Agilent DNA 1000 kit will accommodate up to 12 samples in the size range of 25 to 1000 bp and a concentration range of 0.1 to 50 nanograms per microliter.

Bioanalyzer Service

The service fee is $5 per sample. Please submit RNA samples in the concentration range of 15 to 500 ng/μl for use with the Nano chip. Bioanalyzer only orders with RNA samples below 15 ng/μl may use the Pico chip. An RNA Integrity Number (RIN) should be greater than 8.0.

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Autoantigen Microarray

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Overview

Autoantibodies are associated with various autoimmune diseases and dysregulation of the immune system. Profiling of autoantibodies against a broad range of autoantigens is a powerful tool for identification of biomarkers and for prediction and diagnosis of diseases.

Technology

A contact printing robot covalently attaches nanoliter volume of proteins to a nitrocellulose coated glass surface, the hybridization of autoantibodies present in the samples onto the coated antigens is detected by fluorescent tagged secondary antibodies.

Key Features

  • Our Core Facility has established a powerful high-throughput Autoantigen Microarray platform for profiling over 270 autoantibody specificities with as little as 5μl of serum.
  • Our autoantigen arrays have been used by hundreds of investigators from different institutions world-wide. Data generated by using our autoantigen arrays have contributed to dozens of high-impact peer-reviewed publications.
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Affymetrix

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Overview

Affymetrix is a microarray platform that can evaluate the mRNA gene expression profile of thousands of genes in a single experiment.

Technology

The oligonucleotide probes on the array are hybridized with cRNA copies that are made invitro in the presence of biotinylated ribonucleotides. After hybridization, the chip is stained with streptavidin-phycoerythrin and scanned.

Key Features

  • High throughput analysis of gene expression and CNV.
  • We can perform gene level and transcriptome level analysis.
  • Gene-level view of the human transcriptome with Clariom S assays (human, mouse, rat) gives accurate measurement of gene expression from >20,000 well-annotated genes. The system can utilize RNA samples from blood, cells and fresh/frozen or FFPE tissues.
  • Full coverage of the transcribed genome including all known coding and non-coding splice variants can be done with Clariom D assays (human, mouse, rat). Compatible with clinical sample types, and flexible data analysis software. Serves as premier tool for translational researchers performing complex expression biomarker discovery studies and wanting the fastest path to robust, clinically relevant, and actionable results.
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Quanterix Simoa HD-X Analyzer

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Overview

Simoa (Single Molecular Array) HD-X analyzer at the IPC is one of the most sensitive automated bead-based immunoassay platforms with multiplexing and custom assay properties.

Technology

  • Paramagnetic beads coupled to capture antibodies are incubated with the sample analyte of interest and detection antibodies are added.
  • The beads are coupled to an immunocomplex consisting of the capture antibody-analyte-detection antibody.
  • The individual beads are trapped in femtoliter-sized wells along with a fluorogenic enzyme substrate, those that are bound by the immunocomplex are detected by fluorescence that is converted to a digital read.

Key Features

  • High throughput and automated
  • 1000x more sensitive compared to traditional immunoassays
  • Multiplexing up to six biomarkers to as low as fg/ml concentration range

Availability

Panels are available for the following markers:

  • Angiogenesis and Vascular panels
  • Bone metabolism panels
  • Cytokine and chemokine panels
  • Inflammation panels
  • Intracellular signaling panels
  • Neurodegeneration panels
  • Toxicology panels (cardiac, kidney, liver, muscle injuries and natriuretic peptide)
  • SARS-CoV-2 panels
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Meso Scale Discovery

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Overview

We have extensive experience in assay execution using V-plex, U-plex , R-plex , S-plex, T-plex kits. We will work with customers to select validated kits or design custom kits as per your requirements.

Technology

MSD platform relies on electrochemiluminescence for analyte detection and has multi-spot plates to enable quantification of multiple analytes.

Key Features

  • The data generated will be analyzed and presented in a comprehensive format.
  • Excellent dynamic range and high sensitivity, multiplexing up to ten analytes
  • High throughput and quick multiplexing imager

Availability

Panels are available for the following markers:

  • Angiogenesis and Vascular panels
  • Bone metabolism panels
  • Cytokine and chemokine panels
  • Inflammation panels
  • Intracellular signaling panels
  • Neurodegeneration panels
  • Toxicology panels (cardiac, kidney, liver, muscle injuries and natriuretic peptide)
  • SARS-CoV-2 panels
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Luminex

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Overview

Our team has extensive experience in quantifying biomarkers in samples (serum, plasma, CSF and cell culture supernatant). We will work with you and help you find and perform appropriate commercially available assay or customize panels as per your requirements.

Technology

The Luminex® xMAP® technology is a bead-based immunoassay that allows for multiplex detection of up to 80 analytes simultaneously. Using dual laser flow-based detection, the first laser classifies the bead and identifies the analyte, the second laser detects the PE derived signal from the detected antibody bound to the analyte hence directly quantifying the marker of interest. Unlike ELISA assays that are dependent on colorimetric detection, Luminex is dependent on a fluorescence reporter system.

Key Features

  • High intra-assay precision
  • Excellent standard curve recovery
  • Strict acceptance criteria, Standard, controls and samples if assayed in replicates must not have CV greater than 15%
  • Proper handling and storage of sample
  • High sample throughput, quick turnaround and very economical
  • Regular maintenance of the instrument to maintain data integrity and reproducibility
  • Custom panels can be procured from Biorad (Bio-Plex Multiplex Immunoassays), ThermoFisher Scientific (ProcartaPlex Immunoassays), R&D systems (High Performance Panels & Luminex Assay Panels) and Millipore Sigma (Milliplex Multiplex Assays Using Luminex)