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Series GSE113230 Query DataSets for GSE113230
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
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.
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.
Contributor(s) Zeng K, Wang S
Citation(s) 30454010
Submission date Apr 16, 2018
Last update date Dec 23, 2018
Contact name kaixuan zeng
Phone 17351017802
Organization name southeast university
Street address Yuhuatai District, Communist Youth League Road No. 32
City Nan jing
ZIP/Postal code 210009
Country China
Platforms (1)
GPL21290 Illumina HiSeq 3000 (Homo sapiens)
Samples (6)
GSM3100606 Cancer 1
GSM3100607 Cancer 2
GSM3100608 Cancer 3
BioProject PRJNA450481
SRA SRP140592

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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
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