|
| Status |
Public on Jan 15, 2014 |
| Title |
tumor tissue without Transcatheter Arterial Infusion chemotherapy |
| Sample type |
SRA |
| |
|
| Source name |
tumor tissue of stage III CRC
|
| Organism |
Homo sapiens |
| Characteristics |
country/location: Chinese in eastern China
tissue: tumor tissue of colorectal cancer
tumor stage: stage III
therapy: no therapy
|
| Treatment protocol |
In Transcatheter Arterial Infusion, we used transfemoral intervention (also known as Seldinger technique) and performed this operation under Digital Subtraction Angiography (DSA) surveillance. 5 Fr-RH catheter was used for chemotherapeutics delivery, catheter tip was inserted into common hepatic artery and mesenteric artery respectively, 1~2 cm deep into target vessel. Ultravist-300 (Schering, Iodine quantity 300mg/mL) was used for angiography, 5~7 ml/s total volume 20~25 ml per time for common hepatic artery angiography and 5~10 ml/s total volume 20~40 ml per time for mesenteric artery angiography. Tumor support artery was chosen for drug delivery according to angiographic images. 1 gram of Tegafur was dissolved in 200 ml of normal saline, 100 mg of Eloxatine was dissolved in 200 ml of 5% Glucose Injection, 10 mg of Mitomycin was dissolved in 100 ml of normal saline. Then 500 mg of Tegafur, 50 mg of Eloxatine and 5mg of Mitomycin were injected into common hepatic artery and tumor support artery separately.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA of the collected tissues were extracted using TRIzol reagent (Invitrogen) according to the manufacturer's instructions. The integrity of the RNA was checked with an ultraviolet spectrophotometry and 2100 BioAnalyzer (Agilent Technologies, Santa Clara, CA, USA). Construction of small RNA libraries from size fractionated RNA was carried out by following Solexa protocol and the obtained libraries were sequenced by Illumina HiSeq 2000 sequencer.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
The T_no_TAI column and norm_T_no_TAI(RPTM) columns show the raw and normalized (Reads Per Ten Million transcripts) read numbers, respectively.
RNA-Seq (18-28nt)
|
| Data processing |
Reads with low scored nucleotides < 15 were removed.
3' adapters were removed and the small RNA sequences were extracted from the raw reads.
The reads with at least 18nt were maintained in the final results.
The unique sequences and their counts were calculated from the extracted sequences.
The unique sequences were aligned to mature miRNAs of human in miRBase (v19) to calcualte their frequencies.
Supplementary_files_format_and_content: unique sequence and count; human mature miRNAs and their raw and normalized (Reads Per Ten Million transcripts) frequency
|
| |
|
| Submission date |
Jan 16, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Yun Zheng |
| E-mail(s) |
zhengyun5488@gmail.com
|
| Organization name |
Yunnan Agricultural University
|
| Street address |
452 Fengyuan Road
|
| City |
Kunming |
| State/province |
Yunnan |
| ZIP/Postal code |
650201 |
| Country |
China |
| |
|
| Platform ID |
GPL11154 |
| Series (1) |
| GSE43550 |
Small RNA Solexa sequencing of colorectal tumor and adjancent normal tissues |
|
| Relations |
| SRA |
SRX217773 |
| BioSample |
SAMN01888218 |
