NBDC Research ID: hum0065.v1

 

SUMMARY

Aims: This study aimed at establishment of CTOS (cancer tissue-originated spheroid) panel covering intra-patient heterogeneity for colorectal cancer, lung cancer and small cell carcinoma of the cervix. With the panel, changes in preparation, culture, and xenograft were pathologically, biochemically, and molecular biologically monitored.

Methods: Exome analysis by using Illumina Hiseq 2000

Participants/Materials: Colorectal cancer, Lung cancer, Small cell carcinoma of uterine cervix

 

Data Set IDType of DataCriteriaRelease Date
JGAS00000000089 NGS (Exome) Controlled Access (Type I) 2018/04/06

*Release Note

* Data users need to apply the Form 2 (Application Form for Using NBDC Human Data) to reach the Controlled Access Data. Learn more

 

MOLECULAR DATA

JGAS00000000089

Participants/Materials

colorectal cancer: 8 cases, lung cancer: 2 cases, small cell carcinoma of uterine cervix: 2case

 1. blood cells: 12 samples

(colorectal cancer: 8 samples, lung cancer: 2 samples, small cell carcinoma of uterine cervix: 2samples)

 2. CTOS (primary culture): CTOS derived from patient tumors: 5 samples

(colorectal cancer: 2 samples, lung cancer: 2 samples, small cell carcinoma of uterine cervix: 1 sample)

 3. CTOS (subculture):

  a. CTOS prepared from a CTOS (the same as 2)-derived mouse xenograft: 14 samples

   1st subculture: 1 sample (colorectal cancer: 1 sample)

   2nd subculture: 4 samples (small cell carcinoma of uterine cervix: 1 sample, colorectal cancer: 3 samples)

   3rd subculture: 5 samples (colorectal cancer: 3 samples, lung cancer: 2 samples)

   5th subculture: 4 samples (colorectal cancer: 2 samples, lung cancer: 2 samples)

  b. CTOS (the same as 2) cultured in vitro: 3 samples (lung cancer: 2 samples, colorectal cancer: 1 sample)

   2nd subculture: 1 sample (lung cancer: 1 sample)

   5th subculture: 2 samples (lung cancer: 1 sample, colorectal cancer: 1 sample)

Targets Exome
Target Loci for Capture Methods -
Platform Illumina [Hiseq 2000]
Library Source DNAs extracted from blood cells and CTOSs
Cell Lines -
Library Construction (kit name) SureSelect Human All Exon V5 + lincRNA
Fragmentation Methods Ultrasonic fragmentation (Covaris, E220)
Spot Type Paired-end
Read Length (without Barcodes, Adaptors, Primers, and Linkers) 100 bp
Japanese Genotype-phenotype Archive Data set ID JGAD00000000089
Total Data Volume

1 TB

 Data files : 68 (fastq)

Comments (Policies) NBDC policy & P-DIRECT policy

 

DATA PROVIDER

Principal Investigator: Masahiro Inoue

Affiliation: Department of Biochemistry, Osaka International Cancer Institute

URL: http://www.mc.pref.osaka.jp/en/department/biochem/

Funds / Grants (Research Project Number):

NameTitleProject Number
Project for Development of Innovative Research on Cancer Therapeutics Development of an innovative drug evaluation system using a shuttle system between patient-derived tumors and an ex vivo assay 15cm0106155h0002

 

PUBLICATIONS

TitleDOIData Set ID
1 -

 

USRES (Controlled-Access Data)

Principal Investigator: Affiliation: Data in Use (Data Set ID)Period of Data Use