TIGER: A Web Portal of Tumor Immunotherapy Gene Expression Resource

Chen, Zhihang; Luo, Ziwei; Zhang, Di; Li, Huiqin; Liu, Xuefei; Zhu, Kaiyu; Zhang, Hongwan; Wang, Zongping; Zhou, Penghui; Ren, Jian; An, Zhisheng; Zuo, Zhixiang

doi:10.1016/j.gpb.2022.08.004

Cited by 40 publications

(26 citation statements)

References 36 publications

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“…In this study, 412 MIBC patients were reclassified into 5 subtypes based on different genetic characteristics: luminal‐papillary, luminal, luminal‐infiltrated, neuronal, and basal‐squamous 40 . In addition, according to the immune microenvironment, three major immune phenotypes have been proposed in most solid tumors: “immune inflamed,” “immune excluded,” and “immune desert.” 34 In our study, we selected MIBC patients in TCGA and identified three immune subtypes through unsupervised consensus clustering based on the expression characteristics of 312 immune‐related differentially expressed genes. Then, we analyzed the immune microenvironment and marker genes of the three immune subtypes of MIBC and found that Cluster 1 had the highest stromal score despite the infiltration of immune cells, reflecting the characteristics of the “immune excluded” immunophenotype.…”

Section: Discussionmentioning

confidence: 99%

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Inhibition of FGFR3 upregulates MHC‐I and PD‐L1 via TLR3/NF‐kB pathway in muscle‐invasive bladder cancer

Chen

Jia

et al. 2023

Cancer Medicine

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BackgroundImproving the potency of immune response is paramount among issues concerning immunotherapy of muscle‐invasive bladder cancer (MIBC).MethodsOn the basis of immune subtypes, we investigated possible molecular mechanisms involved in tumor immune escape in MIBC. According to the 312 immune‐related genes, three MIBC immune subtypes were clustered.ResultsCluster 2 subtype is characterized by FGFR3 mutations and has a better clinical prognosis. However, the expression levels of MHC‐I and immune checkpoints genes were the lowest, indicating that this subtype is subject to immune escape and has a low response rate to immunotherapy. Bioinformatics analysis and immunofluorescence staining of clinical samples revealed that the FGFR3 is involved in the immune escape in MIBC. Besides, after FGFR3 knockout with siRNA in RT112 and UMUC14 cells, the TLR3/NF‐kB pathway was significantly activated and was accompanied by upregulation of MHC‐I and PD‐L1 gene expression. Furthermore, the use of TLR3 agonists poly(I:C) can further improve the effect.ConclusionTogether, our results suggest that FGFR3 might involve in immunosuppression by inhibition of NF‐kB pathway in BC. Considering that TLR3 agonists are currently approved for clinical treatment as immunoadjuvants, our study might provide more insights for improving the efficacy of immunotherapy in MIBC.

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Section: Discussionmentioning

confidence: 99%

“…Antigen presentation, the inflammatory response, and NF-kB pathways were analyzed in BC patients with and without FGFR3 mutation. The TIGER platform 34 (http:// tiger.cance romics.org/) was used for single-cell RNA sequencing analysis (Dataset ID:BTCC1, Dataset Name: Chen, Z., Nat Commun 2020 Oct 08).…”

Section: Gsea and Single-cell Rna Sequencing Analysismentioning

confidence: 99%

Inhibition of FGFR3 upregulates MHC‐I and PD‐L1 via TLR3/NF‐kB pathway in muscle‐invasive bladder cancer

Chen

Jia

et al. 2023

Cancer Medicine

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“…This is a web-accessible portal for integrative analysis of gene expression data related to tumor immunology (Additional file 1 : Table S2). TIGER contains bulk transcriptome data for 1508 tumor samples with immunotherapy clinical outcomes [ 12 ].…”

Section: Methodsmentioning

confidence: 99%

Leveraging a cuproptosis-based signature to predict the prognosis and drug sensitivity of cutaneous melanoma

Yang

Zhang

et al. 2023

J Transl Med

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Immunotherapy is a vital treatment for patients with cutaneous melanoma (CM), but effective predictors to guide clinical immunotherapy are lacking. Cuproptosis is a newly discovered mode of cell death related to tumorigenesis. Exploring the relationship between the mode of cuproptosis and the effect of immunotherapy on CM could better guide clinical management. We clustered all patients with CM in the Cancer Genome Atlas (TCGA) database based on cuproptosis-related genes (CRGs). Prognosis, immunotherapeutic effect, tumor microenvironment score, expression of CD274, CTLA4, and PDCD1, and abundance of CD8 + T infiltration in group A were higher than in group B. Using a combination of LASSO and COX regression analysis, we identified 10 molecules significant to prognosis from differentially expressed genes between the two groups and constructed a cuproptosis-related scoring system (CRSS). Compared with the American Joint Committee on Cancer (AJCC) staging system, CRSS more accurately stratified CM patient risk and guided immunotherapy. CRSS successfully stratified risk and predicted the effect of immunotherapy in 869 patients with eight CM immunotherapy datasets and multiple other tumor immunotherapy cohorts. The nomogram model, which combined AJCC stage and CRSS, greatly improved the ability and accuracy of prognosis prediction. In general, our cuproptosis-related scoring system and nomogram model accurately stratified risk in CM patients and effectively predicted prognosis and the effect of immunotherapy in CM patients.

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“…These scores were also calculated using the Sangerbox online platform. The correlation analysis between EXO5 and immune-gene signatures was performed by the TIGER (Tumor Immunotherapy Gene Expression Resource) database ( http://tiger.canceromics.org/#/ ) ( 19 ).…”

Section: Methodsmentioning

confidence: 99%

SOCS3 as a potential driver of lung metastasis in colon cancer patients

Yang

et al. 2023

Front. Immunol.

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BackgroundThe suppressor of cytokine signaling 3 (SOCS3) is the negative feedback regulator of the JAK-STAT signaling pathway. The purpose of our study was to investigate the SOCS3 status in colon primary tumor and lung metastasis and its relationship with macrophages.MethodsThe SOCS3 expression pattern and its relationship with the immune response in pan-cancer was investigated using multiple methods. Samples and corresponding clinical information of 32 colon cancer patients with lung metastasis were collected, and the CD68, CD163, and SOCS3 status were conducted using immunohistochemistry (IHC). The relationship between SOCS3 status and macrophage markers was analyzed. Besides, we explored the molecular mechanisms of SOCS3 in lung metastasis via the TCGA database.ResultsHigh SOCS3 expression was more inclined to poor prognosis and was positively correlated with main immune cell infiltration in almost each cancer type, especially in colon cancer. Compared with the colon primary tumor, lung metastasis harbored higher CD163 and SOCS3 expression, and high SOCS3 expression was more likely to be associated with high CD163 expression in lung metastasis. Besides, the exceptional differentially expressed genes in lung metastasis significantly enriched in immune responses and regulations.ConclusionsSOCS3 possessed value as a prognostic marker and target for immunotherapeutic intervention in different tumors and might be a potential target of tumor progression and tumor immunotherapy in colon cancer.

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TIGER: A Web Portal of Tumor Immunotherapy Gene Expression Resource

Cited by 40 publications

References 36 publications

Inhibition of FGFR3 upregulates MHC‐I and PD‐L1 via TLR3/NF‐kB pathway in muscle‐invasive bladder cancer

Inhibition of FGFR3 upregulates MHC‐I and PD‐L1 via TLR3/NF‐kB pathway in muscle‐invasive bladder cancer

Leveraging a cuproptosis-based signature to predict the prognosis and drug sensitivity of cutaneous melanoma

SOCS3 as a potential driver of lung metastasis in colon cancer patients

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