|
| Status |
Public on Sep 17, 2019 |
| Title |
RNAseq_CS_rep1 |
| Sample type |
SRA |
| |
|
| Source name |
uterin carcinosarcoma
|
| Organism |
Homo sapiens |
| Characteristics |
anatomical site: uterus
Sex: female
age: 35-39
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using RNeasy Micro kit (Qiagen).
Stranded mRNA HT Sample Prep Kit (Illumina) was used with 200 ng of total RNA for the construction of sequencing libraries.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Illumina Casava1.8.2 software used for basecalling
Sequenced reads were mapped to hg19 using bowtie2-2.2.3.
Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated using RSEM-1.3.0.
Rsem.genes.results file has columns named TPM and FPKM. Each columns represent Transcripts Per Million mapped reads and Fragments Per Kilobase of transcript and Million mapped reads for each gene.
Genome_build: hg19
Supplementary_files_format_and_content: Tab-delimited text files include RPKM values for each sample.
|
| |
|
| Submission date |
Mar 20, 2019 |
| Last update date |
Sep 20, 2019 |
| Contact name |
Osamu Gotoh |
| Organization name |
Japanese Foundation For Cancer Research
|
| Street address |
Ariake 3-8-31
|
| City |
Koto-ku |
| State/province |
Tokyo |
| ZIP/Postal code |
135-8550 |
| Country |
Japan |
| |
|
| Platform ID |
GPL11154 |
| Series (1) |
| GSE128630 |
Transcriptome data of uterine and ovarian carcinosarcoma tissues derived from patients in the Cancer Institute Hospital of Japanese Foundation for Cancer Research |
|
| Relations |
| BioSample |
SAMN11178988 |
