High-Throughput Gene Expression Screening

Based on next-generation sequencing (NGS) platforms and Digital RNA Sequencing, CD Genomics offers high-throughput gene expression screening services by means of detecting gene expression, which can be used for large-scale target-based drug discovery and screening. Incorporating Unique Molecular Identifier (UMI), it significantly reduces library preparation time and cost, and accelerates the process of projects such as cellular response studies, screening compounds, drugs and therapeutics.

Overview

Currently, omics-based high-throughput technologies are driving the discovery and screening of disease biomarkers and drug candidates. Not only can transcriptome sequencing detect unknown transcripts, but it does so with much higher resolution and sensitivity than gene microarrays. It is convenient to capture dynamic gene expression changes (with simultaneous access to expression information for thousands of genes), including different tissues, specific times and conditions by high throughput RNA-seq. Whole transcriptome sequencing and targeted RNA-seq allow for more complex analyses such as variable splicing and structural variation, while they are too costly and require high sample volumes and purity, which are time-consuming to achieve cost-effectiveness in large-scale gene expression screening.

In contrast, UMI RNA sequencing (digital RNA-seq) is a very useful and cost-effective tool for the rapid detection of gene expression. It introduces specific barcodes into the cDNA as markers prior to library amplification and then enriches after first-strand synthesis, significantly simplifying multi-well processing and library construction time, calculating the 3' ends of transcripts to characterize changes in gene expression. This approach provides complete cell-to-cell data analysis of the transcriptome at a much lower cost than standard RNA sequencing. Our high-throughput gene expression screening service can therefore help you characterize phenotypes more comprehensively and with less bias in a shorter period of time, aiding in compound mechanism studies, drug screening, etc.

Features

Any Species High Throughput Bioinformatics Analysis One-Stop Solution
This method can be applied to any species, from microorganisms to humans. Massively parallel, reduced library preparation time and sequencing cost. Our integrated bioinformatics pipeline can be tailored to suit your project, data visualization. Customized gene expression screening solutions for drugs, cellular response studies, and treatment phenotyping.

Project Workflow

Sample Preparation

1. Sample Preparation

Quality assessment and quantification

Library Preparation

2. Library Preparation

Enrichment, 250~300 bp insert directional cDNA Library

Sequencing

3. Sequencing

Illumina HiSeq;
150 bp paired-end; >30 Million Reads

Data Analysis

4. Data Analysis & Delivery

Visualize and preprocess results, and custom bioinformatics analysis.

Bioinformatics Analysis Pipeline

High-Throughput Gene Expression Screening

In-depth data analysis:

  • Differential expression analysis of transcripts
  • Clustering analysis
  • Custom bioinformatics analysis

Sample Requirements

RNA sample (concentration ≥ 20 ng/uL, amount ≥ 1 ug)

1.8 ≤ OD260/280 ≤ 2.2, OD260/230≥2.0, RIN ≥ 6.5, 28S/18S ≥1.0.

Please make sure that the RNA is not degraded.

Sample Storage: RNA can be dissolved in ethanol or RNA-free ultra-pure water and stored at -80°C. RNA should avoid repeated freezing and thawing.

Shipping Method: When shipping RNA samples, the RNA sample is stored in a 1.5 mL Eppendorf tube, sealed with a sealing film. Shipments are generally recommended to contain 5-10 pounds of dry ice per 24 hours.

Deliverable: FastQ, BAM, coverage summary, QC report, custom bioinformatics analysis report.

References:

  1. Ye C, Ho DJ, Neri M, et al. DRUG-seq for miniaturized high-throughput transcriptome profiling in drug discovery. Nature communications, 2018, 9(1): 1-9.
  2. Yang X, Kui L, Tang M, et al. High-throughput transcriptome profiling in drug and biomarker discovery. Frontiers in genetics, 2020, 11: 19.
* For Research Use Only. Not for use in diagnostic procedures.


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