Related Experiment Video
Updated: May 26, 2026
06:38
Isolation of Adult Spinal Cord Nuclei for Massively Parallel Single-nucleus RNA Sequencing
Published on: October 12, 2018
Comparative analysis of human protein-coding and noncoding RNAs between brain and 10 mixed cell lines by RNA-Seq
Geng Chen1, Kangping Yin, Leming Shi
1Center for Bioinformatics and Computational Biology, and the Institute of Biomedical Sciences, College of Life Science, East China Normal University, Shanghai, China.
Plos One
|December 6, 2011
Summary
Gene expression differences arise from varied isoforms, not just gene presence. This study highlights the importance of analyzing gene isoforms and long noncoding RNAs in understanding human cancers and the transcriptome.
Area of Science:
- Transcriptomics
- Genomics
- Molecular Biology
Background:
- Genes produce diverse functional products, including protein-coding and noncoding RNAs.
- Understanding gene expression complexity requires analyzing isoforms and noncoding RNAs.
Purpose of the Study:
- Investigate protein-coding capacities and isoform expression levels of human genes.
- Analyze conservation and disease association of long noncoding RNAs (ncRNAs).
Main Methods:
- Comparative analysis of transcriptome sequencing datasets from human brain and cell lines.
- Identification and characterization of long noncoding RNAs.
- RT-PCR validation of differentially expressed long ncRNAs.
Main Results:
- Significant differences in expressed isoforms between brain and cell lines, even for common genes.
- 282 human genes identified to produce both protein-coding and noncoding RNAs via alternative splicing.
- Over 1,000 long ncRNAs identified, many with conserved elements across species.
- Several long ncRNAs showed differential expression in breast and lung cancers, correlating with cancer-related genes.
Conclusions:
- Transcriptome differences are largely driven by isoform variation.
- Isoform-level analysis is crucial for a complete understanding of the transcriptome.
- Long ncRNAs play significant roles in human cancers and warrant further investigation.
Related Concept Videos
02:24Ribosome Profiling
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 helps...
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 helps...
03:21RNA-seq
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 microarray-based...
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while microarray-based...