NBDC Research ID: hum0120.v1
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SUMMARY
Aims: To identify the biomarkers of predicting metastasis and reccurence in colorectal cancer (CRC).
Methods: DNAs and RNAs were extracted from tumor and matched normal tissues. Whole exome sequencing were performed uisng tumor and matched normal tissues. RNA-seq were performed using tumor tissues.
Participants/Materials: 10 cases of stage 1 and 2 CRCs, which were occurred liver or lung metastasis.
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000221 | NGS (Exome, RNA-seq) | Controlled-access (Type I) | 2020/04/03 |
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MOLECULAR DATA
| Participants/Materials |
CRC (ICD10: C189): 10 cases (36 samples) - tumor tissues (colon: 10 samples, liver: 9 samples, lung: 5 samples) - non-tumor mucosa tissues (colon: 8 samples, lung: 4 samples) |
| Targets | Exome |
| Target Loci for Capture Methods | - |
| Platform | Illumina [HiSeq 2500] |
| Library Source | DNAs extracted from tumor and matched non-tumor tissues from CRCs |
| Cell Lines | - |
| Library Construction (kit name) | SureSelect Human ALL Exon V5 |
| Fragmentation Methods | Ultrasonic fragmentation (Covaris) |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 100 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000311 |
| Total Data Volume | 414 GB (fastq) |
| Comments (Policies) | NBDC policy |
| Participants/Materials |
CRC (ICD10: C189): 10 cases (20 samples) - primary tumor tissues: 8 samples - metastatic tumor tissues: 12 samples |
| Targets | RNA-seq |
| Target Loci for Capture Methods | - |
| Platform | Illumina [HiSeq 2500] |
| Library Source | RNAs extracted from tumor tissues from CRC |
| Cell Lines | - |
| Library Construction (kit name) | Agilent SureSelect Strand Specific RNA Kit |
| Fragmentation Methods | Heat treatment |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 100 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000312 |
| Total Data Volume | 414 GB (fastq) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Koshi Mimori
Affiliation: Department of Surgery, Kyushu University Beppu Hospital
Project / Group Name: -
URL: https://www.beppu.kyushu-u.ac.jp/gekareview/en/
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| Project for Cancer Research and Therapeutic Evolution (P-CREATE), Japan Agency for Medical Research and Development (AMED) | Understanding of molecular mechanisms to generate genetic heterogeneity associated with micro-environmental diversity for development of novel therapy and diagnostic technology in intractable cancers. | JP19cm0106504 |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | |||
| 2 |
USRES (Controlled-access Data)
| Principal Investigator: | Affiliation: | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|
