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| Status |
Public on Dec 06, 2018 |
| Title |
High-throughput RNA sequencing on circular RNA profiles of human triple-negative breast cancer and adjacent normal tissues |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
Non-coding RNA profiling by high throughput sequencing
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| Summary |
In an attempt to search for metastasis-associated circRNAs, we performed RNA-sequencing on ribosomal RNA-depleted total RNA from three pairs of triple-negative breast cancer (TNBC) and adjacent normal tissues. A computational pipeline based on the anchor alignment of unmapped reads was used to identify circular RNAs. Taken together, 69,815 distinct circRNAs were found in this study and 87% were derived from exons, and the others were derived from introns, intergenic region and 3′ or 5′ UTR, etc. We further identified 5,033 differentially expressed circRNAs (fold change ≥ 2 and p < 0.05). Among them, 3,726 circRNAs were significantly down-regulated and 1,307 circRNAs were significantly up-regulated in TNBC tissues compared with adjacent normal tissues. These data indicate that circRNAs are abundant in human breast tissues and dysregulation of circRNAs may contribute to breast cancer progression.
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| Overall design |
Circular RNAs profiles of three pairs of triple-negative breast cancer (TNBC) and adjacent normal tissues were generated by RNA deep-sequencing, using HiSeq3000, Illumina.
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| Contributor(s) |
Zeng K, Wang S |
| Citation(s) |
30454010 |
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| Submission date |
Apr 16, 2018 |
| Last update date |
Dec 23, 2018 |
| Contact name |
kaixuan zeng |
| E-mail(s) |
[email protected]
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| Phone |
17351017802
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| Organization name |
southeast university
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| Street address |
Yuhuatai District, Communist Youth League Road No. 32
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| City |
Nan jing |
| ZIP/Postal code |
210009 |
| Country |
China |
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| Platforms (1) |
| GPL21290 |
Illumina HiSeq 3000 (Homo sapiens) |
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| Samples (6)
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| Relations |
| BioProject |
PRJNA450481 |
| SRA |
SRP140592 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE113230_T1.N1.circ_expression.txt.gz |
1010.7 Kb |
(ftp)(http) |
TXT |
| GSE113230_T2.T3.N2.N3circ_expression.txt.gz |
1.9 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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