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Immune signature driven by ADT-induced immune microenvironment remodeling in prostate cancer is correlated with recurrence-free survival and immune infiltration

ABSTRACT: Immune signature driven by ADT-induced immune microenvironment remodeling in prostate cancer is correlated with recurrence-free survival and immune infiltration

PROVIDER: PRJNA631926 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR11777300_1.fastq.gz	Fastqsanger.gz
	SRR11777300_2.fastq.gz	Fastqsanger.gz
	SRR11777301_1.fastq.gz	Fastqsanger.gz
	SRR11777301_2.fastq.gz	Fastqsanger.gz
	SRR11777302_1.fastq.gz	Fastqsanger.gz

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Immune signature driven by ADT-induced immune microenvironment remodeling in prostate cancer is correlated with recurrence-free survival and immune infiltration

2020-09-23 | GSE150368 | GEO

Immune signature driven by ADT-induced immune microenvironment remodeling in prostate cancer is correlated with recurrence-free survival and immune infiltration.

Project description:Androgen deprivation therapy (ADT) is a cornerstone treatment for locally advanced or metastatic prostate cancer (PCa). However, its potential effects on the tumor immune microenvironment (TIM) of PCa patients and the underlying mechanism remain largely unclear. To explore the effects of ADT on PCa TIM, RNA sequencing was performed on six paired pre-ADT biopsy and post-ADT PCa lesions, and five paired paracancerous benign tissues from patients receiving neoadjuvant ADT with locally advanced PCa. Bioinformatics methods including ESTIMATE and ssGSEA were used to evaluate the stromal immune score and immune cell infiltration in PCa and paracancerous tissues. Weighted correlation network analysis was used to screen hub genes in the ADT-induced immune remodeling process. The results showed differences exist between PCa and paracancerous tissues in response to ADT. Compared with paracancerous tissues, the immune remodeling effect of ADT in PCa was more intense. ZFP36, JUNB, and SOCS3 served as hub genes in the ADT-induced immune remodeling process and were associated with PSA recurrent-free survival in the TCGA and our neoadjuvant ADT cohort. To investigate the joint action of the above three hub genes, an immune signature score was constructed. The results showed that immune signature score-based immune subtypes reveal the heterogeneity of the immune microenvironment of PCa and showed significant differences in patient prognosis, tumor immune infiltration, mutation burden, and landscape.

| S-EPMC7502080 | biostudies-literature

Spatially variant immune infiltration scoring in human cancer tissues

Project description:The Immunoscore is a method to quantify the immune cell infiltration within cancers to predict the disease prognosis. Previous immune profiling approaches relied on limited immune markers to establish patients’ tumor immunity. However, immune cells exhibit a higher-level complexity that is typically not obtained by the conventional immunohistochemistry methods. Herein, we present a spatially variant immune infiltration score, termed as SpatialVizScore, to quantify immune cells infiltration within lung tumor samples using multiplex protein imaging data. Imaging mass cytometry (IMC) was used to target 26 markers in tumors to identify stromal, immune, and cancer cell states within 26 human tissues from lung cancer patients. Unsupervised clustering methods dissected the spatial infiltration of cells in tissue using the high-dimensional analysis of 16 immune markers and other cancer and stroma enriched labels to profile alterations in the tumors’ immune infiltration patterns. Spatially resolved maps of distinct tumors determined the spatial proximity and neighborhoods of immune-cancer cell pairs. These SpatialVizScore maps provided a ranking of patients’ tumors consisting of immune inflamed, immune suppressed, and immune cold states, demonstrating the tumor’s immune continuum assigned to three distinct infiltration score ranges. Several inflammatory and suppressive immune markers were used to establish the cell-based scoring schemes at the single-cell and pixel-level, depicting the cellular spectra in diverse lung tissues. Thus, SpatialVizScore is an emerging quantitative method to deeply study tumor immunology in cancer tissues.

2022-10-14 | PXD035340 | Pride

WHSC1/NSD2 regulates immune infiltration in prostate cancer

Project description:WHSC1/NSD2 regulates immune infiltration in prostate cancer

| PRJNA642114 | ENA

Immune Infiltration in Aggressive Papillary Craniopharyngioma: High infiltration But Low Action

Project description:Papillary craniopharyngiomas (PCPs) are biologically benign but clinically aggressive lesions hence affect the quality of life. The expression of inflammatory mediators and regulation of the immune microenvironment in PCPs have not been investigated much. In this study, for the first time, we assessed the immune cell infiltration and immune cell signatures in PCPs by analyzing the bulk-RNA sequencing data. Our results indicated that PCPs are in a state of high immune infiltration but low action with abundant inflammatory cells.

2022-10-28 | GSE216330 | GEO

WHSC1/NSD2 regulates immune infiltration in prostate cancer [RNA-Seq]

Project description:WHSC1/NSD2 regulates immune infiltration in prostate cancer [RNA-Seq]

| PRJNA642237 | ENA

WHSC1/NSD2 regulates immune infiltration in prostate cancer [ATAC-Seq]

Project description:WHSC1/NSD2 regulates immune infiltration in prostate cancer [ATAC-Seq]

| PRJNA642244 | ENA

WHSC1/NSD2 regulates immune infiltration in prostate cancer [ATAC-Seq]

Project description:the WHSC1 enzymes controls immune infiltration in prostate cancer by regulating the expression of genes in immune pathways and genes in the antigen processng and presentation machinery

2020-12-11 | GSE153335 | GEO

WHSC1/NSD2 regulates immune infiltration in prostate cancer [RNA-Seq]

2020-12-11 | GSE153333 | GEO

Novel Race-specific Genetic and Epigenetic Determinants of ADT-Resistance in African American Prostate Cancer

Project description:Purpose: The goals of this study is to compare NGS-derived Androgen Deprivation Therapy (ADT) resistant miRNome profiling to Androgen Deprivation Therapy (ADT) sensitive miRNome profile in African American prostate cancer cells and validate by reverse transcription polymerase chain reaction (qRT–PCR) methods. Method: Mirco-RNA were isolated from different CaP cells who were sensitive and resistant to Androgen Deprivation Therapy (ADT). Total micro-RNA were subjected to miRNA-Seq. Results: We performed whole miRNA-Seq analysis through paired-end deep sequencing to systematically investigate the molecular features of different CaP cell models- RC-77-N, RC-77T/E, RCC7T/E-ADT, RCC7T/E-CD133-plus, E006AA-hT and E006AA-hT-ADT. Conclusions: Our study represents the first detailed analysis of African American ADT resistant miRNome, with biologic replicates, generated by miRNA-seq technology.

2019-07-09 | GSE116636 | GEO

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