Whole genome sequencing of 40 gastric cancer tumours and matched normal samples from Singapore.
Genomic DNA of tumours and matched normal gastric tissues was extracted (QIAGEN). Libraries were constructed with 300-400 bp insert length, and 101bp or 151bp paired-end sequencing was performed on Illumina Hiseq instruments
- 80 samples
- DAC: EGAC00001000888
- Technologies: HiSeq X Ten, Illumina HiSeq 2000, Illumina HiSeq 2500
DAC for Singapore Gastric Cancer WGS
Data Access Agreement Definitions: "Data" refers to any and all data obtained from through this Agreement, and in particular, the data referred to in Schedule 1. "Data Provider" refers to the Genome Institute of Singapore Biomedical Sciences Institutes (Co. Reg. No. 199702109N), having its principal office at 60 Biopolis Street, Genome #02-01, Singapore 138672. "Data Subject" refers to an individual to whom the Data relates to. "Project" refers to the research project described in Schedule 1, to which this Agreement pertains to. "Publications" refers, without limitation, to any and all articles published in print journals, electronic journals, reviews, books, posters and other written and verbal presentations of research. "Recipient" refers to any and all individuals or institutions accessing and/or using Data through this Agreement, and in particular, the Recipients described in Schedule 1. In signing this agreement, the Recipient hereby accepts the following terms and conditions:- 1. The Recipient may only use the Data for the purposes outlined in Schedule 1, as permitted by applicable laws and regulations, and as approved by the appropriate ethics committee. 2. The Recipient shall preserve, at all times, the confidentiality of information relating to the Data and the Data Subjects. In particular, the Recipient shall not use or attempt to use the Data to compromise or infringe the confidentiality of information on Data Subjects and their right to privacy. 3. The Recipient shall not attempt to re-identify Data Subjects by linking the Data provided under this agreement to other sources of information or available archive data, even if access to such publicly-available data has been formally granted to the Recipient, or it is freely available without restriction, without specific permission being sought from the relevant data access committee. 4. The Recipient shall not perform germline SNP analysis on the Data. 5. The Recipient acknowledges that access to the Data is granted for the duration of the Project. Upon termination of the project. The Recipient shall destroy the Data in addition to any potentially identifiable downstream analysis files produced using the Data. Any use of the Data for a project other than that described in Schedule 1 will need to be approved under a new Agreement. The Data Provider has the discretion to determine whether or not to grant access to the Data. 6. The Recipient accepts that it may be necessary for the Data Provider to alter the terms of this agreement from time to time in order to address new concerns. In this event, the Recipient may be informed of any material changes. The Recipient agrees that the Recipient's continued use of the Data shall indicate the Recipient's acceptance of the new terms of the Agreement. 7. This Agreement will terminate on the earliest of the following dates: (a) on completion of the Project, or (b) on thirty (30) days written notice by one party to the other party. The Recipient accepts that this agreement will terminate immediately upon any breach by the Recipient as determined by the Data Provider and the Recipient will be required to destroy any Data held. 8. The Recipient recognizes that nothing in this agreement shall operate to transfer to the Recipient any intellectual property rights to the Data. The Recipient agrees not to make intellectual property claims on the Data and not to use intellectual property protection in ways that would prevent or block access to, or use of, any element of the Data, or conclusions drawn directly from the Data. 9. The Data is provided to the Recipient on an "as is" basis only. The Data Provider (a) bears no legal responsibility for the accuracy or comprehensiveness of the Data; (b) accepts no liability for indirect, consequential, or incidental damages or losses (including loss of profits and pure economic loss) arising from use of the Data, or from the unavailability of, interruption in Data access for whatever reason; (c) bears no responsibility for the further analysis or interpretation of these Data, over and above that published by the Data Provider; and (d) makes no representations or warranties of any kind, and expressly disclaims all expressed and implied warranties. The Data Provider's total and cumulative liability in connection with this Agreement shall not exceed Singapore Dollars Five Hundred only. 10. The Recipient shall be responsible for all liabilities, demands, damages, expenses, and losses arising out of the Recipient's use for any purpose of the Data. 11. The Recipient agrees to acknowledge the contribution of the Data Provider in any and all oral and written presentations, disclosures, and publications resulting from any and all analyses of Data, in accordance with the format prescribed by the Data Provider. All Recipients must acknowledge Data Provider using the following wording "This study makes use of data generated by the Genome Institute of Singapore" and cite the relevant primary publication of the Data Provider from which the Data was taken. All Recipients must take note that the Data Provider bears no responsibility for the further analysis or interpretation of the Data. 12. This Agreement shall be construed, governed, interpreted and applied in accordance with the laws of the Republic of Singapore in all respects, and all disputes shall be submitted to the exclusive jurisdiction of the Singapore courts. AS WITNESS the hands of the parties hereto the day and year first above written. SIGNED by for and on behalf of GENOME INSTITUTE OF SINGAPORE ______________________ [Name/title of signatory] in the presence of: ___________________________ [Name/title of Witness] For and on behalf of Recipient _________________________________ Name: Designation: Date: Schedule 1 Contact and Project Information A. Name of Recipient (Principal Investigator or post-doctoral scholar), including institutional affiliation and contact details. Please ensure that a full postal address and a valid institutional email address are included. Name: Position: Institution: Institutional Email Address: Website of the Institution: Mailing Address: B. Title of the Project: C. Description of Data: D. Names of other Recipients i.e. individuals authorized to access the Data (including students and institutional employees)*: Please include the names of all individuals who will have access to the controlled data in order to work on the project. Please ensure that a valid institutional email address for each name is included, and ensure that each individual has read and understood the access agreement. Name: Position: Affiliation: Institutional Email Address: Name: Position: Affiliation: Institutional Email Address: Name: Position: Affiliation: Institutional Email Address: *If you require more space to list authorized individuals, please attach a separate file. E. Research Project (Scientific Abstract): Please provide a clear description of the project and its specific aims. Note that any use of the Data, if approved, must fall under the purview of the described project (500 words max): F. Research Credentials Please provide a list of three publications, relevant to the Project description outlined in Section D, of which the Main Applicant is author or co-author. If the Main Applicant has not authored or co-authored three relevant publications please describe his/her relevant expertise or experience in no more than 300 words. G. Ethics: My country/region does not require my project to undergo ethics review. My country/region requires my project to undergo ethics review. This project has been approved by an IRB/REC formally designated to approve and/or monitor research involving humans. The approval letter(s) is/are attached. An institutional approval number should also be provided, if available. Ethics review has been waived for this project. Documentation to this effect is attached.
Studies are experimental investigations of a particular phenomenon, e.g., case-control studies on a particular trait or cancer research projects reporting matching cancer normal genomes from patients.
Study ID | Study Title | Study Type |
---|---|---|
EGAS00001002872 | Other |
This table displays only public information pertaining to the files in the dataset. If you wish to access this dataset, please submit a request. If you already have access to these data files, please consult the download documentation.
ID | File Type | Size | Located in | |
---|---|---|---|---|
EGAF00001996860 | bam | 255.0 GB | ||
EGAF00001996861 | bam | 100.8 GB | ||
EGAF00001996862 | bam | 95.5 GB | ||
EGAF00001996863 | bam | 83.5 GB | ||
EGAF00001996864 | bam | 107.0 GB | ||
EGAF00001996865 | bam | 103.3 GB | ||
EGAF00001996866 | bam | 98.7 GB | ||
EGAF00001996867 | bam | 97.9 GB | ||
EGAF00001996868 | bam | 91.7 GB | ||
EGAF00001996869 | bam | 160.0 GB | ||
EGAF00001996870 | bam | 106.6 GB | ||
EGAF00001996871 | bam | 101.4 GB | ||
EGAF00001996872 | bam | 87.2 GB | ||
EGAF00001996873 | bam | 102.4 GB | ||
EGAF00001996874 | bam | 100.5 GB | ||
EGAF00001996875 | bam | 106.4 GB | ||
EGAF00001996876 | bam | 111.0 GB | ||
EGAF00001996877 | bam | 108.5 GB | ||
EGAF00001996878 | bam | 103.3 GB | ||
EGAF00001996879 | bam | 99.2 GB | ||
EGAF00001996880 | bam | 106.5 GB | ||
EGAF00001996881 | bam | 110.0 GB | ||
EGAF00001996882 | bam | 119.7 GB | ||
EGAF00001996883 | bam | 110.7 GB | ||
EGAF00001996884 | bam | 91.7 GB | ||
EGAF00001996885 | bam | 100.8 GB | ||
EGAF00001996886 | bam | 114.7 GB | ||
EGAF00001996887 | bam | 106.2 GB | ||
EGAF00001996888 | bam | 98.0 GB | ||
EGAF00001996889 | bam | 100.4 GB | ||
EGAF00001996890 | bam | 95.8 GB | ||
EGAF00001996891 | bam | 108.1 GB | ||
EGAF00001996892 | bam | 102.9 GB | ||
EGAF00001996893 | bam | 106.7 GB | ||
EGAF00001996894 | bam | 97.5 GB | ||
EGAF00001996895 | bam | 108.4 GB | ||
EGAF00001996896 | bam | 101.7 GB | ||
EGAF00001996897 | bam | 102.2 GB | ||
EGAF00001996898 | bam | 115.2 GB | ||
EGAF00001996899 | bam | 106.6 GB | ||
EGAF00001996900 | bam | 94.1 GB | ||
EGAF00001996901 | bam | 99.5 GB | ||
EGAF00001996902 | bam | 107.1 GB | ||
EGAF00001996903 | bam | 125.2 GB | ||
EGAF00001996904 | bam | 98.3 GB | ||
EGAF00001996905 | bam | 120.2 GB | ||
EGAF00001996906 | bam | 186.0 GB | ||
EGAF00001996907 | bam | 153.2 GB | ||
EGAF00001996908 | bam | 180.1 GB | ||
EGAF00001996909 | bam | 173.1 GB | ||
EGAF00001996910 | bam | 256.8 GB | ||
EGAF00001996911 | bam | 292.8 GB | ||
EGAF00001996912 | bam | 231.5 GB | ||
EGAF00001996913 | bam | 261.0 GB | ||
EGAF00001996914 | bam | 283.2 GB | ||
EGAF00001996915 | bam | 180.7 GB | ||
EGAF00001996916 | bam | 280.7 GB | ||
EGAF00001996917 | bam | 263.6 GB | ||
EGAF00001996918 | bam | 195.4 GB | ||
EGAF00001996919 | bam | 178.7 GB | ||
EGAF00001996920 | bam | 182.3 GB | ||
EGAF00001996921 | bam | 284.3 GB | ||
EGAF00001996922 | bam | 123.8 GB | ||
EGAF00001996923 | bam | 198.4 GB | ||
EGAF00001996924 | bam | 164.6 GB | ||
EGAF00001996925 | bam | 138.0 GB | ||
EGAF00001996926 | bam | 129.8 GB | ||
EGAF00001996927 | bam | 204.0 GB | ||
EGAF00001996928 | bam | 244.2 GB | ||
EGAF00001996929 | bam | 239.3 GB | ||
EGAF00001996930 | bam | 281.3 GB | ||
EGAF00001996931 | bam | 286.0 GB | ||
EGAF00001996932 | bam | 255.7 GB | ||
EGAF00001996933 | bam | 274.5 GB | ||
EGAF00001996934 | bam | 273.1 GB | ||
EGAF00001996935 | bam | 173.9 GB | ||
EGAF00001996936 | bam | 185.9 GB | ||
EGAF00001996937 | bam | 275.1 GB | ||
EGAF00001996938 | bam | 258.9 GB | ||
EGAF00001996939 | bam | 209.7 GB | ||
80 Files (12.5 TB) |