Bulk RNA-sequencing data of advanced hepatocellular carcinoma (HCC) patients treated with atezolizumab plus bevacizumab.
The dataset includes FASTq files and normalised gene expression counts from bulk RNA-sequencing of pre-treatment tumour (n=39) and adjacent non-tumour tissue samples (n=13) from advanced hepatocellular carcinoma (HCC) patients treated with atezolizumab plus bevacizumab. Specifically, RNA was extracted from the FFPE tumour tissue using RNeasy Plus Mini Kit (Qiagen), according to the manufacturer’s instructions. RNA quality and quantity were evaluated using Agilent RNA 600 Pico Chips (Agilent Technologies). Sequencing libraries were prepared using the SMARTer Stranded Total RNA-seq kit v3 (Takara Bio). Sequencing was performed on an Illumina NovaSeq 6000 system. After obtaining the Fastq files, read 2 UMIs and adapters were trimmed using seqtk (v1.2), reads were aligned using STAR (v2.7.7a) to the human reference genome (GRCh38) and quantified with HTSeq (v2.0.2).
- 13/06/2025
- 51 samples
- DAC: EGAC50000000520
- Technology: Illumina NovaSeq 6000
Bulk RNA-seq
Bulk RNA-seq
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 |
|---|---|---|
| EGAS50000000838 | Transcriptome Analysis |
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
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| EGAF50000310709 | fastq.gz | 3.1 GB |
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| EGAF50000310710 | fastq.gz | 3.1 GB |
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| EGAF50000310711 | fastq.gz | 2.8 GB |
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| EGAF50000310712 | fastq.gz | 2.9 GB |
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| EGAF50000310713 | fastq.gz | 3.0 GB |
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| EGAF50000310714 | fastq.gz | 2.9 GB |
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| EGAF50000310715 | fastq.gz | 3.5 GB |
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| EGAF50000310716 | fastq.gz | 3.6 GB |
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| EGAF50000310717 | fastq.gz | 3.0 GB |
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| EGAF50000310718 | fastq.gz | 3.1 GB |
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| EGAF50000310719 | fastq.gz | 2.9 GB |
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| EGAF50000310720 | fastq.gz | 3.0 GB |
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| EGAF50000310721 | fastq.gz | 3.0 GB |
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| EGAF50000310722 | fastq.gz | 3.1 GB |
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| EGAF50000310723 | fastq.gz | 2.9 GB |
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| EGAF50000310724 | fastq.gz | 2.6 GB |
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| EGAF50000310725 | fastq.gz | 3.0 GB |
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| EGAF50000310726 | fastq.gz | 3.1 GB |
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| EGAF50000310727 | fastq.gz | 3.3 GB |
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| EGAF50000310728 | fastq.gz | 3.4 GB |
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| EGAF50000310729 | fastq.gz | 3.0 GB |
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| EGAF50000310730 | fastq.gz | 3.1 GB |
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| EGAF50000310731 | fastq.gz | 3.0 GB |
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| EGAF50000310732 | fastq.gz | 3.1 GB |
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| EGAF50000310733 | fastq.gz | 3.0 GB |
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| EGAF50000310734 | fastq.gz | 3.1 GB |
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| EGAF50000310735 | fastq.gz | 3.1 GB |
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| EGAF50000310736 | fastq.gz | 3.1 GB |
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| EGAF50000310737 | fastq.gz | 2.8 GB |
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| EGAF50000310738 | fastq.gz | 2.9 GB |
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| EGAF50000310739 | fastq.gz | 2.5 GB |
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| EGAF50000310740 | fastq.gz | 2.6 GB |
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| EGAF50000310741 | fastq.gz | 2.7 GB |
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| EGAF50000310742 | fastq.gz | 2.9 GB |
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| EGAF50000310743 | fastq.gz | 3.0 GB |
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| EGAF50000310744 | fastq.gz | 3.1 GB |
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| EGAF50000310745 | fastq.gz | 2.9 GB |
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| EGAF50000310746 | fastq.gz | 3.0 GB |
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| EGAF50000310747 | fastq.gz | 2.4 GB |
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| EGAF50000310748 | fastq.gz | 2.4 GB |
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| EGAF50000310749 | fastq.gz | 3.0 GB |
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| EGAF50000310750 | fastq.gz | 3.1 GB |
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| EGAF50000310751 | fastq.gz | 2.7 GB |
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| EGAF50000310752 | fastq.gz | 2.7 GB |
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| EGAF50000310753 | fastq.gz | 3.3 GB |
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| EGAF50000310754 | fastq.gz | 3.3 GB |
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| EGAF50000310755 | fastq.gz | 3.1 GB |
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| EGAF50000310756 | fastq.gz | 3.2 GB |
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| EGAF50000310757 | fastq.gz | 2.9 GB |
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| EGAF50000310758 | fastq.gz | 3.0 GB |
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| EGAF50000310759 | fastq.gz | 3.5 GB |
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| EGAF50000310760 | fastq.gz | 3.5 GB |
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| EGAF50000310761 | fastq.gz | 3.1 GB |
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| EGAF50000310762 | fastq.gz | 3.1 GB |
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| EGAF50000310763 | fastq.gz | 3.0 GB |
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| EGAF50000310764 | fastq.gz | 3.0 GB |
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| EGAF50000310765 | fastq.gz | 3.0 GB |
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| EGAF50000310766 | fastq.gz | 3.1 GB |
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| EGAF50000310767 | fastq.gz | 3.2 GB |
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| EGAF50000310768 | fastq.gz | 3.1 GB |
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| EGAF50000310769 | fastq.gz | 2.7 GB |
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| EGAF50000310770 | fastq.gz | 2.7 GB |
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| EGAF50000310771 | fastq.gz | 2.6 GB |
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| EGAF50000310772 | fastq.gz | 2.7 GB |
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| EGAF50000310773 | fastq.gz | 3.0 GB |
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| EGAF50000310774 | fastq.gz | 3.1 GB |
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| EGAF50000310775 | fastq.gz | 3.6 GB |
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| EGAF50000310776 | fastq.gz | 3.5 GB |
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| EGAF50000310777 | fastq.gz | 3.1 GB |
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| EGAF50000310778 | fastq.gz | 3.2 GB |
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| EGAF50000310779 | fastq.gz | 3.1 GB |
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| EGAF50000310780 | fastq.gz | 3.0 GB |
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| EGAF50000310781 | fastq.gz | 2.9 GB |
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| EGAF50000310782 | fastq.gz | 2.9 GB |
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| EGAF50000310783 | fastq.gz | 2.7 GB |
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| EGAF50000310784 | fastq.gz | 2.7 GB |
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| EGAF50000310785 | fastq.gz | 2.9 GB |
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| EGAF50000310786 | fastq.gz | 2.9 GB |
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| EGAF50000310787 | fastq.gz | 2.8 GB |
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| EGAF50000310788 | fastq.gz | 2.7 GB |
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| EGAF50000310789 | fastq.gz | 3.1 GB |
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| EGAF50000310790 | fastq.gz | 3.2 GB |
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| EGAF50000310791 | fastq.gz | 3.0 GB |
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| EGAF50000310792 | fastq.gz | 3.1 GB |
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| EGAF50000310793 | fastq.gz | 2.9 GB |
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| EGAF50000310794 | fastq.gz | 3.0 GB |
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| EGAF50000310795 | fastq.gz | 3.5 GB |
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| EGAF50000310796 | fastq.gz | 3.6 GB |
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| EGAF50000310797 | fastq.gz | 2.5 GB |
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| EGAF50000310798 | fastq.gz | 2.5 GB |
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| EGAF50000310799 | fastq.gz | 2.6 GB |
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| EGAF50000310800 | fastq.gz | 2.5 GB |
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| EGAF50000310801 | fastq.gz | 3.0 GB |
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| EGAF50000310802 | fastq.gz | 2.8 GB |
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| EGAF50000310803 | fastq.gz | 2.9 GB |
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| EGAF50000310804 | fastq.gz | 3.0 GB |
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| EGAF50000310805 | fastq.gz | 2.5 GB |
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| EGAF50000310806 | fastq.gz | 2.5 GB |
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| EGAF50000310807 | fastq.gz | 2.5 GB |
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| EGAF50000310808 | fastq.gz | 2.5 GB |
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| EGAF50000310809 | fastq.gz | 3.2 GB |
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| EGAF50000310810 | fastq.gz | 3.1 GB |
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| 102 Files (303.1 GB) | ||||