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Status |
Public on Jan 30, 2016 |
Title |
HCC7-R-13T-18 |
Sample type |
SRA |
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Source name |
HCC7 Recurrent Tumor
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Organism |
Homo sapiens |
Characteristics |
tissue: HCC Recurrent Tumor individual: HCC7 gender: not collected age: #N/A hbv (pre-olt): #N/A hbv (post-olt): #N/A primary tumor and nat rna: #N/A primary tumor biopsy method: #N/A primary tumor content (%): #N/A primary tumor size (cm): #N/A primary tumor grade: #N/A primary tumor cirrhosis: #N/A recurrent tumor method: #N/A recurrent tumor organ: #N/A recurrent tumor size (cm): #N/A recurrent tumor content (%): #N/A recurrent tumor grade: #N/A recurrent tumor cirrhosis: #N/A glu: #N/A alt: #N/A ast: #N/A ggt: #N/A tb: #N/A db: #N/A alb: #N/A hgb: #N/A pt: #N/A hbsag: #N/A hbvdna: #N/A afp: #N/A cea: #N/A ca199: #N/A bclc stage pre-ltx: #N/A definitions: RFA=Radiofrequency ablation; VATS=Video-assisted thorascopic surgery; OLT=Orthotopic liver transplantation; AFP=Alpha-fetoprotein
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Extracted molecule |
total RNA |
Extraction protocol |
Tumor and normal samples were removed, flash frozen on dry ice, and RNA was harvested. 1 ug of total RNA for the construction of sequencing libraries. 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 1000 |
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Data processing |
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to Human genome reference hg19 via Bowtie Genome_build: hg19 Supplementary_files_format_and_content: The normalized readcount for each gene for each sample processed via Deseq
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Submission date |
Apr 07, 2014 |
Last update date |
May 15, 2019 |
Contact name |
Dong Shen |
E-mail(s) |
shend@medimmune.com
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Phone |
301-398-1269
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Organization name |
Medimmune
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Department |
Translational Science
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Lab |
Pharmacogenomics
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Street address |
MedImmune Way
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City |
Gaithersburg |
State/province |
MD |
ZIP/Postal code |
21878 |
Country |
USA |
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Platform ID |
GPL15433 |
Series (1) |
GSE56545 |
mRNA profiling of Hepatocellular carcinoma (HCC) |
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Relations |
BioSample |
SAMN02720915 |
SRA |
SRX512227 |
Supplementary data files not provided |
SRA Run Selector![Help](/coreweb/images/long_help4.gif) |
Raw data are available on Series record |
Processed data provided as supplementary file |
Raw data are available in SRA |
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