scholarly journals Correction: Validation of a hypoxia related gene signature in multiple soft tissue sarcoma cohorts

Oncotarget ◽  
2019 ◽  
Vol 10 (20) ◽  
pp. 2007-2007
Author(s):  
Lingjian Yang ◽  
Laura Forker ◽  
Joely J. Irlam ◽  
Nischalan Pillay ◽  
Ananya Choudhury ◽  
...  
Keyword(s):  
Soft Tissue ◽  
Soft Tissue Sarcoma ◽  
Gene Signature ◽  
Related Gene

scholarly journals Establishment of A Nomogram for Predicting the Prognosis of Soft Tissue Sarcoma Based on Seven Glycolysis-Related Gene Risk Score

2021 ◽  
Vol 12 ◽  
Author(s):  
Yuhang Liu ◽  
Changjiang Liu ◽  
Hao Zhang ◽  
Xinzeyu Yi ◽  
Aixi Yu
Keyword(s):  
Soft Tissue ◽  
Soft Tissue Sarcoma ◽  
Cox Regression ◽  
Sequence Data ◽  
Tissue Expression ◽  
Gene Signature ◽  
Prognostic Indicators ◽  
Related Gene ◽  
Training Set ◽  
Predictive Values

Background: Soft tissue sarcoma (STS) is a group of tumors with a low incidence and a complex type. Therefore, it is an arduous task to accurately diagnose and treat them. Glycolysis-related genes are closely related to tumor progression and metastasis. Hence, our study is dedicated to the development of risk characteristics and nomograms based on glycolysis-related genes to assess the survival possibility of patients with STS.Methods: All data sets used in our research include gene expression data and clinical medical characteristics in the Genomic Data Commons Data Portal (National Cancer Institute) Soft Tissue Sarcoma (TCGA SARC) and GEO database, gene sequence data of corresponding non-diseased human tissues in the Genotype Tissue Expression (GTEx).Next, transcriptome data in TCGA SARC was analyzed as the training set to construct a glycolysis-related gene risk signature and nomogram, which were confirmed in external test set.Results: We identified and verified the 7 glycolysis-related gene signature that is highly correlated with the overall survival (OS) of STS patients, which performed excellently in the evaluation of the size of AUC, and calibration curve. As well as, the results of the analysis of univariate and multivariate Cox regression demonstrated that this 7 glycolysis-related gene characteristic acts independently as an influence predictor for STS patients. Therefore, a prognostic-related nomogram combing 7 gene signature with clinical influencing features was constructed to predict OS of patients with STS in the training set that demonstrated strong predictive values for survival.Conclusion: These results demonstrate that both glycolysis-related gene risk signature and nomogram were efficient prognostic indicators for patients with STS. These findings may contribute to make individualize clinical decisions on prognosis and treatment.

scholarly journals Validation of a hypoxia related gene signature in multiple soft tissue sarcoma cohorts

Oncotarget ◽  
2017 ◽  
Vol 9 (3) ◽  
pp. 3946-3955 ◽  
Author(s):  
Lingjian Yang ◽  
Laura Forker ◽  
Joely J. Irlam ◽  
Nischalan Pillay ◽  
Ananya Choudhury ◽  
...  
Keyword(s):  
Soft Tissue ◽  
Soft Tissue Sarcoma ◽  
Gene Signature ◽  
Related Gene

scholarly journals Identification and Validation of a Novel Pyroptosis-Related Gene Signature for Prognosis Prediction in Soft Tissue Sarcoma

2021 ◽  
Vol 12 ◽  
Author(s):  
Lin Qi ◽  
Ruiling Xu ◽  
Lu Wan ◽  
Xiaolei Ren ◽  
WenChao Zhang ◽  
...  
Keyword(s):  
Gene Expression ◽  
Soft Tissue ◽  
Soft Tissue Sarcoma ◽  
Risk Score ◽  
Gene Signature ◽  
Differentially Expressed ◽  
Related Gene ◽  
Cox Regression Analysis ◽  
Survival Difference ◽  
Related Risk

Soft tissue sarcoma (STS) represents an uncommon and heterogenous group of malignancies, and poses substantial therapeutic challenges. Pyroptosis has been demonstrated to be related with tumor progression and prognosis. Nevertheless, no studies exist that delineated the role of pyroptosis-related genes (PRGs) in STS. In the present study, we comprehensively and systematically analyzed the gene expression profiles of PRGs in STS. The Cancer Genome Atlas (TCGA) and Genotype-Tissue Expression (GTEx) databases were utilized to identify differentially expressed PRGs. In total, 34 PRGs were aberrantly expressed between STS and normal tissues. Several PRGs were validated with RT-qPCR. Consensus clustering analysis based on PRGs was conducted to divide STS patients into two clusters, and significant survival difference was observed between two distinct clusters (p = 0.019). Differentially expressed genes (DEGs) were identified between pyroptosis-related clusters. Based on the least absolute shrinkage and selection operator (LASSO) COX regression analysis, the pyroptosis-related gene signature with five key DEGs was constructed. The high pyroptosis-related risk score group of TCGA cohort was characterized by poorer prognosis (p < 0.001), with immune infiltration and function significantly decreased. For external validation, STS patients from Gene Expression Omnibus (GEO) were grouped according to the same cut-off point. The survival difference between two risk groups of GEO cohort was also significant (p < 0.001). With the combination of clinical characteristics, pyroptosis-related risk score was identified to serve as an independent prognostic factor for STS patients. In conclusion, this study provided a comprehensive overview of PRGs in STS and the potential role in prognosis, which could be an important direction for future studies.

scholarly journals PO-0836: A hypoxia related gene signature is independently prognostic in multiple soft tissue sarcoma cohorts

2018 ◽  
Vol 127 ◽  
pp. S436-S437
Author(s):  
L. Yang ◽  
L. Forker ◽  
J.J. Iram ◽  
N. Pillay ◽  
A. Choudhury ◽  
...  
Keyword(s):  
Soft Tissue ◽  
Soft Tissue Sarcoma ◽  
Gene Signature ◽  
Related Gene

scholarly journals Identification of Novel Prognostic Risk Signatures of Soft Tissue Sarcoma Based on Ferroptosis-Related Genes

2021 ◽  
Vol 11 ◽  
Author(s):  
Wenjing Huang ◽  
Yuhe Duan ◽  
Xiuwei Yang ◽  
Cong Shang ◽  
Xin Chen ◽  
...  
Keyword(s):  
Soft Tissue ◽  
Soft Tissue Sarcoma ◽  
Disease Free Survival ◽  
Risk Groups ◽  
Gene Expression Omnibus ◽  
Comprehensive Analysis ◽  
Related Gene ◽  
Free Survival ◽  
Disease Free

BackgroundThe role of ferroptosis in tumorigenesis has been confirmed in previous studies. However, the comprehensive analysis of ferroptosis-related gene (FRG) to study the role of FRG in soft tissue sarcoma (STS) is lacking.MethodsRNA sequencing profile of TCGA-SARC cohort and GTEx were used to select differentially expressed FRGs (DEFRGs). Univariate, LASSO, and multivariate Cox analyses were selected to determine overall survival (OS)- and disease-free survival (PFS)-related FRGs. Two prognostic signatures were established and validated in two independent sets from Gene Expression Omnibus (GEO). Finally, the expression of key FRGs were validated with RT-qPCR.ResultsIn total, 198 FRGs (90.4%) were abnormally expressed in STS. Twelve DEFRGs were incorporated in the final signatures and showed favorable discrimination in both training and validation cohorts. Patients in the different risk groups not only showed different prognosis, but also showed different infiltration of immune cells. Two nomograms combining signature and clinical variables were established and the C-indexes were 0.852 and 0.752 for the OS and DFS nomograms, respectively. Finally, the expression of NOX5, HELLS, and RPL8 were validated with RT-qPCR.ConclusionThis comprehensive analysis of the FRG landscape in STS revealed novel FRGs related to carcinogenesis and prognosis. These findings have implications for prognosis and therapeutic responses, which revealed potential prognostic biomarkers and promote precision medicine.

scholarly journals Development of a radiosensitivity gene signature for patients with soft tissue sarcoma

Oncotarget ◽  
2017 ◽  
Vol 8 (16) ◽  
pp. 27428-27439 ◽  
Author(s):  
Zaixiang Tang ◽  
Qinghua Zeng ◽  
Yan Li ◽  
Xinyan Zhang ◽  
Jinlu Ma ◽  
...  
Keyword(s):  
Soft Tissue ◽  
Soft Tissue Sarcoma ◽  
Gene Signature

scholarly journals A Three-Gene Signature for Outcome in Soft Tissue Sarcoma

2009 ◽  
Vol 15 (16) ◽  
pp. 5191-5198 ◽  
Author(s):  
Andreas-Claudius Hoffmann ◽  
Kathleen D. Danenberg ◽  
Helge Taubert ◽  
Peter V. Danenberg ◽  
Peter Wuerl
Keyword(s):  
Soft Tissue ◽  
Soft Tissue Sarcoma ◽  
Gene Signature

Morphological Examination of a Herpes-type Virus Indigenous for Tree Shrews

1970 ◽  
Vol 28 ◽  
pp. 160-161
Author(s):  
J. P. Brunschwig ◽  
R. M. McCombs ◽  
R. Mirkovic ◽  
M. Benyesh-Melnick
Keyword(s):  
Electron Microscopy ◽  
Soft Tissue ◽  
Chick Embryo ◽  
Soft Tissue Sarcoma ◽  
Cell Cultures ◽  
Tree Shrew ◽  
Type Virus ◽  
Morphological Examination ◽  
Tree Shrews ◽  
Embryo Cells

A new virus, established as a member of the herpesvirus group by electron microscopy, was isolated from spontaneously degenerating cell cultures derived from the kidneys and lungs of two normal tree shrews. The virus was found to replicate best in cells derived from the homologous species. The cells used were a tree shrew cell line, T-23, which was derived from a spontaneous soft tissue sarcoma. The virus did not multiply or did so poorly for a limited number of passages in human, monkey, rodent, rabbit or chick embryo cells. In the T-23 cells, the virus behaved as members of the subgroup B of herpesvirus, in that the virus remained primarily cell associated.

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