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| Status |
Public on Jul 01, 2016 |
| Title |
US-1419253_MK0646_R2 |
| Sample type |
SRA |
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| Source name |
Xenograft tumor tissue
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| Organism |
Homo sapiens |
| Characteristics |
cell line: MCF-7/AC-1
time: Post treatment (Day 28)
treatment: MK-0646
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| Extracted molecule |
total RNA |
| Extraction protocol |
Xenograft tumors were rapidly excised, weighed and preserved in RNA Later (Invitrogen Life Technologies, Carlsbad, CA, USA). Total RNA was isolated using Trizol reagents (Cat#15596-026, Invitrogen, Carlsbad, CA). RNA integrity was confirmed using the Agilent 2100 Bioanalyser (Agilent Technologies, USA).
RNA libraries were prepared for sequencing using standard Illumina protocols
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
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| Data processing |
Next-generation sequencing was performed using the Illumina HiSeq 2000 platform.
RNA-seq data was analyzed with Partek Flow 3.0.
Reads were mapped to the human genome (Ensembl GRCh37) and quantified using the STAR aligner.
Aligned reads to genes using Partek E/M.
Differentially expressed genes determined using gene-specific analysis (GSA).
Genome_build: GRCh37
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each sample
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| Submission date |
Mar 22, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Marc A Becker |
| E-mail(s) |
[email protected]
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| Phone |
507-284-2511
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| Organization name |
Mayo Clinic
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| Department |
Medical Oncology
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| Street address |
200 First St SW
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| City |
Rochester |
| State/province |
MN |
| ZIP/Postal code |
55905 |
| Country |
USA |
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| Platform ID |
GPL11154 |
| Series (1) |
| GSE79492 |
Ridaforolimus (MK-8669) synergizes with Dalotuzumab (MK-0646) in hormone-sensitive breast cancer |
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| Relations |
| BioSample |
SAMN04572547 |
| SRA |
SRX1653246 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM2095965_US-1419253_FPKM.txt.gz |
1.2 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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