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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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Related Experiment Video

Updated: Feb 23, 2026

High Throughput SiRNA Screening for Chloropicrin and Hydrogen Fluoride-Induced Cornea Epithelial Cell Injury
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High Throughput SiRNA Screening for Chloropicrin and Hydrogen Fluoride-Induced Cornea Epithelial Cell Injury

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A statistical framework for applying RNA profiling to chemical hazard detection.

Mitchell S Kostich1

  • 1USEPA/ORD/NERL/EMMD, 26 West M. L. King Drive, Cincinnati, OH 45268, USA.

Chemosphere
|September 5, 2017
PubMed
Summary

Environmental science increasingly uses

Area of Science:

  • Environmental science
  • Toxicology
  • Bioinformatics

Background:

  • 'Omics technologies are expanding in environmental science but are limited in application for environmental decision-making.
  • Current applications often focus on laboratory species and struggle to predict outcomes in aquatic communities.
  • Elucidating detailed molecular mechanisms for quantitative predictions remains a significant challenge.

Purpose of the Study:

  • To introduce a novel mechanism-agnostic statistical approach for environmental risk assessment.
  • To enable probabilistic outcome prediction with limited understanding of molecular pathways.
  • To facilitate extrapolation of findings from laboratory species to aquatic communities.

Main Methods:

  • A statistical framework is presented, starting with single RNA variants and progressing to multi-gene profiling and data integration.
Keywords:
AquaticBiomarkerChemicalMicroarrayRNA-seq

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  • The approach incorporates concepts familiar to environmental managers and clinical interpretation of 'omics data.
  • Focus is placed on RNA profiling for hazard identification, with principles extendable to other 'omics and statistical problems.

    • Main Results:

    • The proposed method allows for probabilistic outcome prediction even with incomplete mechanistic knowledge.
    • It enhances the ability to extrapolate findings from laboratory settings to complex aquatic ecosystems.
    • The framework is demonstrated using RNA profiling for distinguishing chemical hazards.

    Conclusions:

    • The mechanism-agnostic statistical approach offers a powerful tool for environmental decision-making.
    • It overcomes limitations in mechanistic understanding for predicting toxicological outcomes.
    • 'Omics data can be effectively utilized for broader ecological risk assessment and community-level predictions.