NBDC Research ID: hum0200.v1
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SUMMARY
Aims: Search for risk stratification factors based on the molecular biological background of non-invasive ductal carcinoma
Methods: Select DCIS cases based on clinical risk factors. Examine association with risk factors by comprehensive gene analysis.
Participants/Materials: Human Ductal Carcinoma In Situ (DCIS)
| Data Set ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| JGAS000202 | Controlled Access (Type I) | 2021/03/29 |
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MOLECULAR DATA
| Participants/Materials |
DCIS (ICD10: D051): 24 cases tumor tissues: 28 samples non-tumor tissues: 24 samples |
| Targets | Exome |
| Target Loci for Capture Methods | - |
| Platform | Illumina [HiSeq 3000] |
| Library Source | DNAs extracted from tumor and non-tumor tissues |
| Cell Lines | - |
| Library Construction (kit name) | SureSelect Human All Exon V7 |
| Fragmentation Methods | Ultrasonic fragmentation (Covaris) |
| Spot Type | Paired-end |
| Read Length (without Barcodes, Adaptors, Primers, and Linkers) | 200 bp |
| Japanese Genotype-phenotype Archive Data set ID | JGAD000287 |
| Total Data Volume | 775 GB (fastq) |
| Comments (Policies) | NBDC policy |
| Participants/Materials |
DCIS (ICD10: D051): 3 cases tumor tissues: 3 samples |
| Targets | single-cell CNV |
| Target Loci for Capture Methods | - |
| Platform | 10x Genomics [Chromium Controller] |
| Source | single-cells from tumor tissues |
| Cell Lines | - |
| Library Construction (kit name) | Chromium Single-Cell DNA Reagent Kit (10x Genomics) |
| Algorithm for detecting CNVs (software) | cellranger-dna-1.1.0 (refdata-GRCh38-1.0.0.) |
| Filtering Methods | cellranger-dna-1.1.0 |
| CNV number | - |
| Japanese Genotype-phenotype Archive Data set ID | JGAD000287 |
| Total Data Volume | 775 GB (fastq) |
| Comments (Policies) | NBDC policy |
This study was supported by “Genome Science”. “Genome Science” is a part of the “Support Programs for Three Fields in Life Sciences (cancer, genome and brain sciences)” established by the Ministry of Education, Culture, Sports, Science and Technology (MEXT) under the Grant-in-Aid for Scientific Research on Innovative Areas.
DATA PROVIDER
Principal Investigator: Satoi Nagasawa
Affiliation: Divison of Breast and Endocrine Surgery, Department of Surgery St. Marianna University School of Medicine
Project / Group Name: -
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
| JSPS Fujita Memorial Fund for Medical Research | Investigation of novel risk factors for recurrence to optimize the treatment of ductal carcinoma in situ (DCIS) of the breast | - |
| KAKENHI Grant-in-Aid for Scientific Research on Priority Areas (Research in a proposed research area) | Platform for Advanced Genome Science | 16H06279 (PAGS) |
PUBLICATIONS
| Title | DOI | Data Set ID | |
|---|---|---|---|
| 1 | |||
| 2 |
USRES (Controlled-Access Data)
| Principal Investigator: | Affiliation: | Data in Use (Data Set ID) | Period of Data Use |
|---|---|---|---|
