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| Status |
Public on Dec 22, 2018 |
| Title |
RNA sequencing (RNA-SEQ) of Human endothelial cells (HUVEC) in LFS, sFRP2OE, and WT conditioned media |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Purpose: To understand molecular and cellular effects of secreted sFRP2 to endothelial cells
Methods: We performed RNA sequencing of 9 samples from HUVEC cultured in WT, sFRP2OE, LFS conditioned media for 16 hours
Conclusion: apoptosis and angiogenetic molecular factors are activated in HUVEC by secreted sFRP2
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| Overall design |
cDNA library preparation and sequencing were performed at Novogen (http://www.novogen.com/home). Briefly, RNA quality was determined with an Agilent Bioanalyzer (RNA integrity number [RIN] > 7.0 for all samples). mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, and double stranded cDNA synthesized using random hexamers, M-MuLV Reverse Transcriptase (RNase H), and DNA Polymerase I. NEBNext Adaptor with hairpin loop structure were ligated to the cDNA in preparation for hybridization. In order to select cDNA fragments of preferentially 150~200 bp in length, the library fragments are purified with AMPure XP system (Beckman Coulter, Beverly, USA). Library of 150-200 bp fragments at an effective concentration of > 2nM were loaded onto an Illumina HiSeq 4000 for sequencing
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| Contributor(s) |
Kim HS, Yoo S, Zhu J |
| Citation(s) |
30385632 |
| Submission date |
Aug 16, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Seungyeul Yoo |
| Organization name |
Icahn School of Medicine at Mount Sinai
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| Department |
Genetics and Genomic Sciences
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| Lab |
Integrative Network Biology Group
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| Street address |
1425 Madison Avenue
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| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10029 |
| Country |
USA |
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| Platforms (1) |
| GPL20301 |
Illumina HiSeq 4000 (Homo sapiens) |
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| Samples (9)
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| Relations |
| BioProject |
PRJNA398509 |
| SRA |
SRP115558 |
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