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Related Concept Videos

RNA-seq03:21

RNA-seq

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RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases. 
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
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Ribosome Profiling02:24

Ribosome Profiling

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Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique...
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DNA Microarrays02:34

DNA Microarrays

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Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...
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Related Experiment Video

Updated: Apr 2, 2026

Identification of Key Factors Regulating Self-renewal and Differentiation in EML Hematopoietic Precursor Cells by RNA-sequencing Analysis
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Circulating Messenger RNA Profiling with Microarray and Next-generation Sequencing: Cross-platform Comparison.

Chun-Liang Shih1, Ji-Dung Luo2, John Wen-Cheng Chang3

  • 1Graduate Institute of Biomedical Sciences, College of Medicine, Chang Gung University, Taoyuan, Taiwan, R.O.C.

Cancer Genomics & Proteomics
|September 30, 2015
PubMed
Summary
This summary is machine-generated.

High-throughput RNA sequencing (RSEQ) is superior for profiling circulating mRNA, especially for highly expressed genes, offering potential biomarkers. This method provides reliable data from challenging samples.

Keywords:
Circulating mRNADASL assayRNA sequencingtranscriptomic profiling

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Area of Science:

  • Biomolecular analysis
  • Cancer research
  • Molecular diagnostics

Background:

  • Circulating mRNA offers a minimally invasive source for research and clinical applications.
  • The low quality of circulating mRNA presents challenges for accurate profiling.
  • Evaluating high-throughput platforms is crucial for extracting meaningful data from these samples.

Purpose of the Study:

  • To compare the efficacy of two high-throughput platforms for circulating mRNA profiling.
  • To assess the ability of platforms to retrieve useful information from low-quality circulating mRNA.
  • To identify reliable methods for biomarker discovery in non-small cell lung cancer.

Main Methods:

  • Analysis of circulating mRNA from non-small cell lung cancer patients and healthy controls.
  • Utilized cDNA-mediated annealing, selection, extension, and ligation (DASL) assay and high-throughput RNA sequencing (RSEQ).
  • Confirmed findings for twelve selected genes using reverse transcription-quantitative polymerase chain reaction (RT-qPCR).

Main Results:

  • Modest-to-moderate correlation observed in expression profiles between DASL and RSEQ platforms.
  • Higher cross-platform concordance for genes with elevated expression levels.
  • Consistent pathway signatures identified by gene set enrichment analysis; RT-qPCR validated RSEQ results.

Conclusions:

  • Highly expressed circulating mRNAs demonstrate cross-platform concordance and potential as biomarkers.
  • High-throughput RNA sequencing (RSEQ) is identified as a more effective tool for circulating mRNA profiling.
  • RSEQ facilitates reliable biomarker discovery from challenging circulating mRNA samples.