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PLANET study

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Dr Tam Lab
tamlabsg@gmail.com

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This DAC controls 9 datasets

Dataset ID	Description	Technology	Samples
EGAD00001006570	The clinical relevance of immune landscape intratumoural heterogeneity (immune-ITH) and its role in tumour evolution remain largely unexplored. Here, we uncover significant spatial and phenotypic immune–ITH from multiple tumour sectors and decipher its relationship with tumour evolution and disease progression in hepatocellular carcinomas (HCC). Immune–ITH is associated with tumour transcriptomic-ITH, mutational burden, and distinct immune microenvironments. Tumours with low immune–ITH experience higher immunoselective pressure and escape via loss of heterozygosity in human leukocyte antigens and immunoediting. Instead, the tumours with high immune-ITH evolve to a more immunosuppressive/exhausted microenvironment. This gradient of immune pressure along with immune-ITH represents a hallmark of tumour evolution, which is closely linked to the transcriptome-immune networks that contributes to disease progression and immune inactivation. Remarkably, high immune-ITH and its transcriptomic signature are predictive for worse clinical outcome in HCC patients. This in-depth investigation of ITH provides evidence on tumour-immune co-evolution along HCC progression.	HiSeq X Ten Illumina HiSeq 4000	70
EGAD00001008647	This dataset includes WGS data of samples from our paper titled "Dynamic phenotypic heterogeneity and the evolution of multiple RNA subtypes in Hepatocellular Carcinoma: The PLANET study." (National Science Review, nwab192. https://doi.org/10.1093/nsr/nwab192)	HiSeq X Ten Illumina HiSeq 4000	-
EGAD00001008648	This dataset includes RNA-seq data of samples from our paper titled "Dynamic phenotypic heterogeneity and the evolution of multiple RNA subtypes in Hepatocellular Carcinoma: The PLANET study." (National Science Review, nwab192. https://doi.org/10.1093/nsr/nwab192)	Illumina HiSeq 4000	-
EGAD00001009041	This dataset includes RNA-seq, DNA and Chip-Seq data of samples from our paper.	HiSeq X Ten Illumina HiSeq 4000	-
EGAD00001009042	This dataset includes RNA-seq data of samples from our paper.	Illumina HiSeq 4000	18
EGAD00001009858	WGS data of multi-region samples from PLANET 123 Patient cohort	HiSeq X Ten Illumina HiSeq 4000	12
EGAD00001009859	RNA-seq data of multi-region samples from PLANET 123 Patient cohort	Illumina HiSeq 4000	-
EGAD00001010132	This dataset includes RNA-seq fastq files of pre-treatment and on-treatment samples from 28 patients	Illumina HiSeq 4000	62
EGAD00001010133	This dataset includes WES fastq files of pre-treatment and on-treatment samples from 29 patients	Illumina HiSeq 4000	94