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Related Experiment Video

Updated: Jun 5, 2026

Cell-Lineage Guided Mass Spectrometry Proteomics in the Developing (Frog) Embryo

Cell-Lineage Guided Mass Spectrometry Proteomics in the Developing (Frog) Embryo

Published on: April 21, 2022

Defining the transcriptome and proteome in three functionally different human cell lines.

Emma Lundberg¹, Linn Fagerberg, Daniel Klevebring

¹Science for Life Laboratory, Royal Institute of Technology, Stockholm, Sweden.

Molecular Systems Biology

|December 24, 2010

Summary

This summary is machine-generated.

This study reveals that most gene products (>60%) are found in all human cells. While mRNA and protein levels correlate, proteins show greater abundance differences, with cell-specific proteins often being low-abundance and cell-surface located.

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Real-time Analysis of Transcription Factor Binding, Transcription, Translation, and Turnover to Display Global Events During Cellular Activation

Real-time Analysis of Transcription Factor Binding, Transcription, Translation, and Turnover to Display Global Events During Cellular Activation

Published on: March 7, 2018

Area of Science:

Human biology
Molecular biology
Cell biology

Background:

Understanding cell and tissue differences in gene and protein expression is crucial for delineating biological function.
Global analysis of mRNA and protein levels provides insights into cellular specificity.

Purpose of the Study:

To perform a global analysis of mRNA and protein levels in three distinct human cell lines.
To estimate cell-specific and shared gene/protein expression fractions.
To characterize transcriptome and proteome differences across human cells.

Main Methods:

Sequence-based transcriptome analysis (RNA-seq).
Stable Isotope Labeling by Amino acids in Cell culture (SILAC)-based mass spectrometry.
Antibody-based confocal microscopy.

Main Results:

Over 60% of gene products were detected in all cell lines, indicating ubiquitous RNA expression.
High correlations were observed between mRNA and protein level changes, despite proteins having a wider dynamic range.
Cell-type specific proteins were generally low in abundance and enriched in cell-surface proteins.

Conclusions:

The study provides a comprehensive method for characterizing the transcriptome and proteome in human cells.
Cellular specificity is largely defined by the abundance and localization of proteins, particularly cell-surface proteins.