10x Visium Spatial Transcriptomics of 61 Human Hepatocellular Carcinoma Samples
This dataset contains spatial transcriptomics sequencing data from 61 hepatocellular carcinoma (HCC) tissue samples profiled using the 10x Genomics Visium platform. The cohort includes 38 resected tumors and 23 tumors from patients treated with atezolizumab plus bevacizumab. Sequencing data are provided as paired-end FASTQ files. These data support the analysis of intra-tumoral heterogeneity and its association with clinical outcomes.
- 24/12/2025
- 49 samples
- DAC: EGAC50000000635
- Technology: NextSeq 2000
Data Access Policy for HCC ST project
1. The User Institution agrees to only use these Data for the purpose of the Project (must be submitted at the following address: Stefano.caruso@inserm.fr) and only for Research Purposes. The User Institution further agrees that it will only use these Data for Research Purposes. 2. The User Institution agrees to preserve, at all times, the confidentiality of these Data. In particular, it undertakes not to use, or attempt to use these Data to compromise or otherwise infringe the confidentiality of information on Research Participants. 3. The User Institution agrees to protect the confidentiality of Research Participants in any research papers or publications that they prepare by taking all reasonable care to limit the possibility of identification. 4. The User Institution agrees not to link or combine these Data to other information or archived data available in a way that could re-identify the Research Participants, even if access to that data has been formally granted to the User Institution or is freely available without restriction. 5. The User Institution agrees only to transfer or disclose these Data, in whole or part, or any material derived from these Data, to the Authorized Personnel. Should the User Institution wish to share these Data with an External Collaborator, the External Collaborator must complete a separate application for access to these Data. 6. The User Institution agrees that the Data Producers, and all other parties involved in the creation, funding or protection of these Data: a) make no warranty or representation, express or implied as to the accuracy, quality or comprehensiveness of these Data; b) exclude to the fullest extent permitted by law all liability for actions, claims, proceedings, demands, losses (including but not limited to loss of profit), costs, awards damages and payments made by the Recipient that may arise (whether directly or indirectly) in any way whatsoever from the Recipient’s use of these Data or from the unavailability of, or break in access to, these Data for whatever reason and; c) bear no responsibility for the further analysis or interpretation of these Data. 7. The User Institution agrees to follow the Fort Lauderdale Guidelines and the Toronto Statement (http://www.nature.com/nature/journal/v461/n7261/full/461168a.html). This includes but is not limited to recognizing the contribution of the Data Producers and including a proper acknowledgement in all reports or publications resulting from the use of these Data. 8. The User Institution agrees not to make intellectual property claims on these Data or downstream discoveries or products generated using the Data and not to use intellectual property protection in ways that would prevent or block access to, or use of, any element of these Data, or conclusion drawn directly from these Data. 9. The User Institution can elect to perform further research that would add intellectual and resource capital to these data and decide to obtain intellectual property rights on these downstream discoveries. In this case, the User Institution agrees to implement licensing policies that will not obstruct further research and to follow the U.S. National Institutes of Health Best Practices for the Licensing of Genomic Inventions (2005) in conformity with the Organisation for Economic Co-operation and Development Guidelines for the Licensing of the Genetic Inventions (2006). 10. The User Institution agrees to destroy/discard the Data held, once it is no longer used for the Project. 12. The User Institution will notify the Data producers within 30 days of any changes or departures of Authorised Personnel. 13. The User Institution will notify the Data producers prior to any significant changes to the protocol for the Project. 14. The User Institution will notify the Data producers as soon as it becomes aware of a breach of the terms or conditions of this agreement. 15. the Data producers may terminate this agreement by written notice to the User Institution. If this agreement terminates for any reason, the User Institution will be required to destroy any Data held, including copies and backup copies. 16. The User Institution accepts that it may be necessary for the Data Producers to alter the terms of this agreement from time to time.. In the event that changes are required, the Data Producers or their appointed agent will contact the User Institution to inform it of the changes and the User Institution may elect to accept the changes or terminate the agreement. 17. If requested, the User Institution will allow data security and management documentation to be inspected to verify that it is complying with the terms of this agreement. 18. The User Institution agrees to distribute a copy of these terms to the Authorized Personnel. The User Institution will procure that the Authorized Personnel comply with the terms of this agreement.
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 |
|---|---|---|
| EGAS50000001474 | Transcriptome Sequencing |
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 | Quality Report |
Located in
i
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|---|---|---|---|---|
| EGAF00008776176 | fastq.gz | 3.0 GB |
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| EGAF00008776177 | fastq.gz | 3.0 GB |
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| EGAF00008776178 | fastq.gz | 3.1 GB |
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| EGAF00008776179 | fastq.gz | 1.0 GB |
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| EGAF00008776180 | fastq.gz | 3.8 GB |
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| EGAF00008776181 | fastq.gz | 1.4 GB |
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| EGAF00008776182 | fastq.gz | 4.3 GB |
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| EGAF00008776183 | fastq.gz | 2.2 GB |
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| EGAF00008776184 | fastq.gz | 1.4 GB |
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| EGAF00008776185 | fastq.gz | 4.1 GB |
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| EGAF00008776186 | fastq.gz | 2.9 GB |
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| EGAF00008776187 | fastq.gz | 4.3 GB |
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| EGAF00008776188 | fastq.gz | 3.7 GB |
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| EGAF00008776189 | fastq.gz | 3.0 GB |
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| EGAF00008776190 | fastq.gz | 4.3 GB |
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| EGAF00008776191 | fastq.gz | 2.2 GB |
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| EGAF00008776192 | fastq.gz | 4.2 GB |
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| EGAF00008776193 | fastq.gz | 1.8 GB |
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| EGAF00008776194 | fastq.gz | 2.4 GB |
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| EGAF00008776195 | fastq.gz | 3.0 GB |
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| EGAF00008776196 | fastq.gz | 3.1 GB |
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| EGAF00008776197 | fastq.gz | 2.1 GB |
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| EGAF00008776198 | fastq.gz | 2.6 GB |
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| EGAF00008776199 | fastq.gz | 2.0 GB |
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| EGAF00008776200 | fastq.gz | 2.7 GB |
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| EGAF00008776201 | fastq.gz | 3.0 GB |
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| EGAF00008776202 | fastq.gz | 4.1 GB |
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| EGAF00008776203 | fastq.gz | 1.8 GB |
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| EGAF00008776204 | fastq.gz | 1.9 GB |
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| EGAF00008776205 | fastq.gz | 3.5 GB |
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| EGAF00008776206 | fastq.gz | 3.8 GB |
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| EGAF00008776207 | fastq.gz | 3.0 GB |
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| EGAF00008776208 | fastq.gz | 1.6 GB |
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| EGAF00008776209 | fastq.gz | 3.9 GB |
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| EGAF00008776210 | fastq.gz | 2.9 GB |
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| EGAF00008776211 | fastq.gz | 4.2 GB |
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| EGAF00008776212 | fastq.gz | 2.0 GB |
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| EGAF00008776213 | fastq.gz | 3.2 GB |
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| EGAF00008776214 | fastq.gz | 3.5 GB |
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| EGAF00008776216 | fastq.gz | 1.5 GB |
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| EGAF00008776217 | fastq.gz | 2.3 GB |
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| EGAF00008776218 | fastq.gz | 2.6 GB |
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| EGAF00008776219 | fastq.gz | 2.8 GB |
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| EGAF00008776220 | fastq.gz | 3.9 GB |
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| EGAF00008776221 | fastq.gz | 4.9 GB |
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| EGAF00008776222 | fastq.gz | 5.7 GB |
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| EGAF00008776223 | fastq.gz | 2.9 GB |
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| EGAF00008776224 | fastq.gz | 3.5 GB |
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| EGAF00008776225 | fastq.gz | 2.5 GB |
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| EGAF00008776226 | fastq.gz | 4.8 GB |
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| EGAF00008776227 | fastq.gz | 2.7 GB |
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| EGAF00008776228 | fastq.gz | 3.7 GB |
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| EGAF00008776229 | fastq.gz | 3.8 GB |
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| EGAF00008776230 | fastq.gz | 3.6 GB |
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| EGAF00008776231 | fastq.gz | 4.3 GB |
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| EGAF00008776232 | fastq.gz | 4.1 GB |
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| EGAF00008776233 | fastq.gz | 5.0 GB |
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| EGAF00008776234 | fastq.gz | 4.9 GB |
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| EGAF00008776235 | fastq.gz | 3.2 GB |
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| EGAF00008776236 | fastq.gz | 3.7 GB |
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| EGAF00008776237 | fastq.gz | 5.1 GB |
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| EGAF00008776238 | fastq.gz | 3.2 GB |
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| EGAF00008776239 | fastq.gz | 4.8 GB |
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| EGAF00008776240 | fastq.gz | 4.3 GB |
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| EGAF00008776241 | fastq.gz | 2.5 GB |
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| EGAF00008776242 | fastq.gz | 2.5 GB |
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| EGAF00008776243 | fastq.gz | 5.2 GB |
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| EGAF00008776244 | fastq.gz | 3.6 GB |
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| EGAF00008776245 | fastq.gz | 4.9 GB |
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| EGAF00008776246 | fastq.gz | 4.3 GB |
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| EGAF00008776249 | fastq.gz | 4.2 GB |
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| EGAF00008776250 | fastq.gz | 4.2 GB |
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| EGAF00008776251 | fastq.gz | 2.8 GB |
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| EGAF00008776252 | fastq.gz | 5.1 GB |
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| EGAF00008776254 | fastq.gz | 2.8 GB |
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| EGAF00008776255 | fastq.gz | 1.9 GB |
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| EGAF00008776256 | fastq.gz | 2.6 GB |
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| EGAF00008776257 | fastq.gz | 2.6 GB |
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| EGAF00008776258 | fastq.gz | 4.7 GB |
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| EGAF00008776260 | fastq.gz | 5.1 GB |
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| EGAF00008776261 | fastq.gz | 1.9 GB |
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| EGAF00008776263 | fastq.gz | 3.1 GB |
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| EGAF00008776264 | fastq.gz | 1.8 GB |
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| EGAF00008776265 | fastq.gz | 2.9 GB |
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| EGAF00008776266 | fastq.gz | 2.9 GB |
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| EGAF00008776267 | fastq.gz | 3.7 GB |
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| EGAF00008776268 | fastq.gz | 3.7 GB |
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| EGAF00008776269 | fastq.gz | 5.3 GB |
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| EGAF00008776271 | fastq.gz | 3.2 GB |
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| EGAF00008776273 | fastq.gz | 2.8 GB |
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| EGAF00008776274 | fastq.gz | 2.4 GB |
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| EGAF00008776275 | fastq.gz | 3.4 GB |
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| EGAF00008776276 | fastq.gz | 3.9 GB |
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| EGAF00008776277 | fastq.gz | 3.5 GB |
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| EGAF00008776278 | fastq.gz | 3.3 GB |
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| EGAF00008983539 | fastq.gz | 3.2 GB |
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| EGAF00008983540 | fastq.gz | 3.5 GB |
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| EGAF00008983768 | fastq.gz | 1.9 GB |
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| 98 Files (322.9 GB) | ||||