NBDC Research ID: hum0342.v1
SUMMARY
Aims: We will conduct an integrated analysis of somatic mutations/expression and protein expression, mainly in gastrointestinal tumors. By correlating these findings with histopathological and clinicopathological findings, we will search for new tissue-specific markers and prognostic factors that can be applied to histopathological and molecular pathological diagnosis.
Methods: Whole exome sequencing (WES) was conducted using tumor and non-tumor tissues obtained from RSPO fusion-positive cases.
Participants/Materials: colorectal cancer
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000538 | NGS (Exome) | Controlled-access (Type I) | 2022/06/27 |
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MOLECULAR DATA
| Participants/Materials |
Colorectal cancer (ICD10: C18): 29 cases tumor tissues: 29 samples, non-tumor tissues: 29 samples |
| Targets | Exome |
| Target Loci for Capture Methods | - |
| Platform | Illumina [NovaSeq 6000] |
| Library Source | DNAs extracted from tumor and non-tumor tissues |
| Cell Lines | - |
| Library Construction (kit name) | SureSelect Human All Exon V6 |
| Fragmentation Methods | Ultrasonic fragmentation (Covaris) |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 2ｘ150 bp |
| Japanese Genotype-phenotype Archive Dataset ID | JGAD000657 |
| Total Data Volume | 512.8 GB (fastq) |
| Comments (Policies) | NBDC policy |
DATA PROVIDER
Principal Investigator: Shigeki Sekine
Affiliation: Department of Diagnostic Pathology, National Cancer Center Hospital
Project / Group Name: -
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| KAKENHI Grant-in-Aid for Scientific Research (C) | Clinicopathological analysis of RSPO fusion-positive colorectal carcinoma | 20K07382 |
| Kurozumi Medical Foundation | Efficient detection of RSPO gene fusion/overexpression in colorectal and gastric cancers using RNA in situ hybridization | - |
PUBLICATIONS
| Title | DOI | Dataset ID | |
|---|---|---|---|
| 1 | Clinicopathological and molecular characteristics of RSPO fusion-positive colorectal cancer | doi: 10.1038/s41416-022-01880-w | JGAD000657 |
| 2 |
USRES (Controlled-access Data)
| Principal Investigator | Affiliation | Country/Region | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|---|
