Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2017 Mar 14:4:170024.
doi: 10.1038/sdata.2017.24.

Comprehensive RNA-seq transcriptomic profiling in the malignant progression of gliomas

Zheng Zhao  1 , Fanlin Meng  2 , Wen Wang  1   3   4 , Zheng Wang  1 , Chuanbao Zhang  1 , Tao Jiang  1   3   5   6
Affiliations

Comprehensive RNA-seq transcriptomic profiling in the malignant progression of gliomas

Zheng Zhao et al. Sci Data. .

Abstract

Gliomas are the most common and lethal intracranial tumours. RNA sequencing technologies and advanced data analyses recently enabled the characterization of transcriptomic information, including protein-coding gene expression, non-coding gene expression, alternative splicing, and fusion gene detection, to facilitate detection of diseases and altered phenotypes. As a part of the Chinese Glioma Genome Atlas (CGGA) project, our aim was to delineate comprehensive transcriptome profiling in the malignant progression of human gliomas. Three hundred twenty five gliomas with different grades were collected over the past twelve years. Using the Illumina HiSeq 2,000 system, over 92 million high quality 101-bp paired-end reads were generated per sample, yielding a total of 30 billion reads. This comprehensive dataset will be useful to deepen the comprehensive understanding of gliomas, providing an opportunity to generate new therapies, diagnoses, and preventive strategies.

PubMed Disclaimer

Conflict of interest statement

The authors declare no competing financial interests.

Figures

Figure 1
Figure 1. A representative example of quality control metrics of RNA sequenced reads as indicated by FastQC (sample: CGGA_909).
(a) Phred quality score distribution over all reads in each base. (b) GC content (%) distribution over all sequences. (c) The distribution of duplicated reads compared to the total number of sequences. (d) Quality score distribution over all sequences.
Figure 2
Figure 2. Heatmap and one-dimensional hierarchical clustering of differentially expressed genes (DEGs) across different grades of gliomas.
The genes are displayed in rows and samples are displayed in columns.
See this image and copyright information in PMC

References

Data Citations

    1. Beijing Neurosurgical Institute2016. Figshare. https://dx.doi.org/10.6084/m9.figshare.c.3594560 - DOI
    1. Ye W. 2014. NCBI Sequence Read Archive. SRP027383
    1. Beijing Neurosurgical Institute2016. NCBI Sequence Read Archive. SRP091303

References

    1. Jiang T. et al. Prevalence estimates for primary brain tumors in China: a multi-center cross-sectional study. Chinese medical journal 124, 2578–2583 (2011). - PubMed
    1. Stupp R. et al. Radiotherapy plus concomitant and adjuvant temozolomide for glioblastoma. The New England journal of medicine 352, 987–996 (2005). - PubMed
    1. Van Meir E. G. et al. Exciting new advances in neuro-oncology: the avenue to a cure for malignant glioma. CA: a cancer journal for clinicians 60, 166–193 (2010). - PMC - PubMed
    1. Cabili M. N. et al. Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses. Genes & development 25, 1915–1927 (2011). - PMC - PubMed
    1. Bao Z. S. et al. RNA-seq of 272 gliomas revealed a novel, recurrent PTPRZ1-MET fusion transcript in secondary glioblastomas. Genome research 24, 1765–1773 (2014). - PMC - PubMed

Publication types