Calcium ion-binding genes can predict tumor mutation burden and immune checkpoint blockade response in a pan-cancer model by Wan-Yu Lin, Chien-Jung Huang, Yu-Chao Wang

Subjects: “…Tumor mutation burden (TMB)…”
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Blood-based tumor mutational burden impacts clinical outcomes of immune checkpoint inhibitor treated breast and prostate cancers by Reagan M. Barnett, Albert Jang, Sree Lanka, PIngfu Fu, Leslie A. Bucheit, Hani Babiker, Alan Bryce, Haley M. Meyer, Yujin Choi, Casey Moore, Rohan Garje, Xin Gao, Dae Won Kim, Richard Y. Chang, Pat Gulhati, Ryne Ramaker, Rani Bansal, Tian Zhang, A. Oliver Sartor, Andrew J. Armstrong, Mehmet A. Bilen, Pedro Barata

“…Tissue-based tumor mutation burden (tTMB) has emerged as a predictive biomarker of response to ICIs, including in these “cold tumors”. …”
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Integrative Analysis of Novel Ferroptosis‐Related Genes Signatures as Prognostic Biomarkers in Ovarian Cancer by Leilei Cao, Yiqin Ouyang, Wei Lu, Xiao Qi, Zhijie Wang, Jingshuai Wang

“…Results Our results showed that ferroptosis subtypes 1 (FS1) and 2 (FS2) exhibited different levels of expression and tumor mutation burden (TMB). FS2 had a higher TMB level and survival rate compared to FS1. …”
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Identification of RNA binding protein genes associated with colorectal cancer by bioinformatics analysis by Rong-Chao He, Haibo Wang, Jun He, Hou-Dong Wang, Zhong Shen

“…Although tumor mutation burden (TMB) did not differ between risk groups, high TMB correlated with poorer survival. …”
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Integrative bulk and single-cell transcriptomic analysis identifies a migrasome-associated lncRNA signature predictive of prognosis and immune landscape in clear cell renal cell ca... by Junlin Shen, Chun Wang, Mingpeng Zhang, Bin Chen, Liwei Liu, Jing Tian, Zhiqun Shang

“…The associations between the model and overall survival (OS), functional enrichment, tumor mutation burden (TMB), tumor microenvironment (TME) characteristics, immune evasion, and drug sensitivity were evaluated. …”
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Somatic POLE exonuclease domain mutations elicit enhanced intratumoral immune responses in stage II colorectal cancer by Dan Huang, Sanjun Cai, Long Zhang, Junjie Peng, Shaobo Mo, Xiaoji Ma, Yaqi Li, Ting Hou, Han Han-Zhang, Juanjuan Qian

“…The detailed mutational profile of the entire POLE exonuclease domain, tumor mutation burden (TMB) and immune cell infiltration in POLE EDMs tumors, and the prognostic value of such mutations in stage II CRCs were largely unknown to us. …”
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Effects of KRAS, STK11, KEAP1, and TP53 mutations on the clinical outcomes of immune checkpoint inhibitors among patients with lung adenocarcinoma. by Yao Liang, Osamu Maeda, Chiaki Kondo, Kazuki Nishida, Yuichi Ando

“…<h4>Background</h4>This study aimed to identify the associations between individual KRAS, STK11, KEAP1, or TP53 mutations, as well as the comutation status of these genes, and the tumor mutation burden (TMB) with clinical outcomes of lung adenocarcinoma patients treated with immune checkpoint inhibitors (ICIs).…”
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Identification of copper metabolism-related subtypes, the development of a prognosis model, and characterization of the immune landscape in colorectal cancer by Geng Peng, Lin Zhong, Nan Lai, Lina Luo, Fu Cheng, Manzhao Ouyang

“…Significantly, high-risk group also had a higher incidence of microsatellite instability-high (MSI-H), tumor mutational burden (TMB) and somatic mutation, suggesting enhanced responsiveness to immunotherapy. …”
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Programmed cell death-driven remodeling of the melanoma microenvironment enables prognostic stratification and therapeutic prediction by Bo Hu, Shengnan Chai, Xuan Li, Qiang Zhang, Mei Jin, Long Zhang

“…A 15-gene prognostic signature was developed, effectively stratifying survival and immunotherapy response across multiple cohorts. Low-risk tumors demonstrated favorable immune infiltration (CD8+ T cells, M1 macrophages), higher tumor mutational burden (TMB), and greater immunogenicity, while high-risk tumors exhibited immune exclusion, cancer-associated fibroblast (CAF) enrichment, and adverse mutations.ConclusionThis study highlights the functional and clinical significance of PCD heterogeneity in melanoma and provides a validated prognostic model for patient stratification and therapeutic decision-making. …”
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Evaluation of therapeutic agent selection based on comprehensive genomic profiling in gastroenteropancreatic neuroendocrine neoplasms. by Suguru Miyazawa, Hiroaki Ono, Hironari Yamashita, Daisuke Asano, Yoshiya Ishikawa, Shuichi Watanabe, Hiroki Ueda, Satoru Aoyama, Naoya Ishibashi, Keiichi Akahoshi, Sadakatsu Ikeda, Minoru Tanabe

“…We conducted a cross-sectional analysis of genomic alterations, including tumor mutational burden (TMB) and microsatellite instability (MSI), in gastroenteropancreatic neuroendocrine neoplasms (GEP-NENs), comparing neuroendocrine tumors (NETs) and neuroendocrine carcinomas (NECs).…”
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Environmental interpretation of the impact of vehicle emissions on prostate cancer progression by Bingzheng An, Shuo Chen, Chen Zhang, Junyan Wang, Zhaoxin Guo, Ze Gao

“…In patients with high VEs scores, tumor mutation burden (TMB) (R = 0.29, p < 0.001) and the cytolytic activity (CYT) (R = 0.161, p < 0.001) scores were increased, as was the expression of immunosuppressive ligands. …”
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Comprehensive analysis of cutaneous and uveal melanoma liver metastases by Annegien Broeks, Ines Pires da Silva, Sarah Warren, Pia Kvistborg, Georgina V Long, Richard A Scolyer, Christian U Blank, Esmee P Hoefsmit, Elisa A Rozeman, Trieu My Van, Petros Dimitriadis, Jordan W Conway, Jacqueline E van der Wal, Steven L C Ketelaars, Kaspar Bresser, Ron M Kerkhoven, Jason W Reeves, Ellen W Kapiteijn, Ton N M Schumacher

“…Therefore, we characterized metastases of CM and UM from the same metastatic site (liver), in order to dissect the potential underlying mechanism in differential response on ICB.Methods Tumor liver samples from CM (n=38) and UM (n=28) patients were analyzed at the genomic (whole exome sequencing), transcriptional (RNA sequencing) and protein (immunohistochemistry and GeoMx Digital Spatial Profiling) level.Results Comparison of CM and UM metastases from the same metastatic site revealed that, although originating from the same melanocyte lineage, CM and UM differed in somatic mutation profile, copy number profile, tumor mutational burden (TMB) and consequently predicted neoantigens. …”
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NOX4 serves as a pan-cancer prognostic biomarker and therapeutic target in tumorigenesis by Jiting Sun, Zhiyuan Gong, Lijie Zheng, Zhixian Ding, Lusheng Wang, Yu Tang, Shizhan Deng, Yonggan Dong, Heng Tang

“…We systematically analyzed NOX4 expression patterns across various cancer types and explored the correlations between NOX4 expression and patient survival, immune infiltration, tumor mutational burden (TMB), and microsatellite instability (MSI). …”
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Nationwide Genomic Data Analysis of Japanese Prostate Cancer Patients From C‐CAT Database by Shigehiro Tsukahara, Masaki Shiota, Shohei Nagakawa, Tokiyoshi Tanegashima, Satoshi Kobayashi, Takashi Matsumoto, Masatoshi Eto

“…We assessed the frequency of genomic alterations, tumor mutation burden (TMB), and microsatellite instability (MSI) status. …”
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Integrated single-cell analysis reveals heterogeneity and therapeutic insights in osteosarcoma by Dongan He, Xiaoqian Che, Haiming Zhang, Jiandong Guo, Lei Cai, Jian Li, Jinxi Zhang, Xin Jin, Jianfeng Wang

“…Furthermore, immune cell infiltration analyses revealed distinct immune profiles across OSA subtypes, correlating with tumor mutational burden (TMB) and clinical outcomes. …”
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Analysis of the molecular nature associated with microsatellite status in colon cancer identifies clinical implications for immunotherapy by Wei Wu, Qihan Fu, Lulu Liu, Yi Zheng, Hangyu Zhang, Peng Zhao, Weijia Fang, Xuanwen Bao, Shaobing Cheng, Xiaomeng Dai, Xudong Zhu, Zhou Tong, Fanglong Liu

“…The association of the mutation pattern and microsatellite status was analyzed by a random forest algorithm in The Cancer Genome Atlas (TCGA) and validated by our in-house dataset (39 tumor mutational burden (TMB)-low MSS colon cancer, 10 TMB-high MSS colon cancer, 15 MSI colon cancer). …”
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Elucidating divergent biology in uterine carcinosarcoma by Vikas Garg, Stephenie D. Prokopec, Simone C. Stone, Sara Pakbaz, Min Li Chen, Bernard Lam, Czin Czin Benito, Michelle Mcmullen, Ilinca Lungu, Samanta Del Rossi, Anthony Msan, Valerie Bowering, Valentin Sotov, Christine Tran, Marcus O. Butler, Amit M. Oza, Phedias Diamandis, Ben X. Wang, Stephanie Lheureux

“…Results: WGS and EM-seq of 18 samples from 9 patients revealed a low tumor mutation burden (TMB; median = 0.97 mutations/Mb) and no evidence of microsatellite instability (MSI). …”
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An integrative pan-cancer analysis of USP37 and functional validation in pancreatic cancer by Jiafei Chen, Jiafei Chen, Liang Lin, Dongxing Chen, Jingui Wang, Wuhan Zhou

“…Its expression was also strongly correlated with immune regulators, tumor mutational burden (TMB), and microsatellite instability (MSI), highlighting its potential as a predictive marker for immunotherapy outcomes. …”
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