Genes, Vol. 10, Pages 926: CNV Detection from Circulating Tumor DNA in Late Stage Non-Small Cell Lung Cancer Patients

Genes, Vol. 10, Pages 926: CNV Detection from Circulating Tumor DNA in Late Stage Non-Small Cell Lung Cancer Patients Genes doi: 10.3390/genes10110926 Authors: Hao Peng Lan Lu Zisong Zhou Jian Liu Dadong Zhang Kejun Nan Xiaochen Zhao Fugen Li Lei Tian Hua Dong Yu Yao While methods for detecting SNVs and indels in circulating tumor DNA (ctDNA) with hybridization capture-based next-generation sequencing (NGS) have been available, copy number variations (CNVs) detection is more challenging. Here, we present a method enabling CNV detection from a 150-gene panel using a very low amount of ctDNA. First, a read depth-based CNV estimation method without a paired blood sample was developed and cfDNA sequencing data from healthy people were used to build a panel of normal (PoN) model. Then, in silico and in vitro simulations were performed to define the limit of detection (LOD) for EGFR, ERBB2, and MET. Compared to the WES results of the 48 samples, the concordance rate for EGFR, ERBB2, and MET CNVs was 78%, 89.6%, and 92.4%, respectively. In another cohort profiled with the 150-gene panel from 5980 lung cancer ctDNA samples, we detected the three genes’ amplification with comparable population frequency with other cohorts. One lung adenocarcinoma patient with MET amplification detected by our method reached partial response to crizotinib. These findings show that our ctDNA CNV detection pipeline can detect CNVs with high specificity and concordanc...
Source: Genes - Category: Genetics & Stem Cells Authors: Tags: Article Source Type: research

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The host immune system plays a crucial role in the surveillance, recognition and elimination of tumor cells. Recent studies found that Human lymphocyte antigen class I (HLA I) genes, Killer cell immunoglobulin-like receptor (KIR) genes and HLA/KIR combinations play a role in the defense against tumor cells. To evaluated the associations between HLA I genes, KIR genes and HLA/KIR combinations and non-small cell lung cancer (NSCLC) in a Chinese Han population, a total of 229 patients with NSCLC (adenocarcinoma) and 217 healthy individuals were studied. Our results showed that the HLA-C*08:01 allele occurred at a significantl...
Source: Journal of Cancer - Category: Cancer & Oncology Authors: Tags: Research Paper Source Type: research
Conclusion: Overall, eight miRNAs were closely correlated with survival of NSCLC patients, and the constructed two four-miRNA signatures could be respectively used as prognostic markers in LUAD and LUSC patients.
Source: Journal of Cancer - Category: Cancer & Oncology Authors: Tags: Research Paper Source Type: research
Conclusions: Robotic pulmonary resection proved to be a safe treatment for lung cancer. Longer follow-up periods are required in order to assess long-term survival.RESUMO Objetivo: Descrever morbidade, mortalidade e completude da ressec ção associadas à cirurgia robótica para o tratamento de câncer de pulmão não pequenas células no Brasil, assim como sobrevida global e sobrevida livre de doença. Métodos: Estudo retrospectivo incluindo pacientes com diagnóstico de carcinoma pulmonar de células não pequenas submetidos à ressec&cc...
Source: Jornal Brasileiro de Pneumologia - Category: Respiratory Medicine Source Type: research
Conclusions: Robotic pulmonary resection proved to be a safe treatment for lung cancer. Longer follow-up periods are required in order to assess long-term survival.RESUMO Objetivo: Descrever morbidade, mortalidade e completude da ressec ção associadas à cirurgia robótica para o tratamento de câncer de pulmão não pequenas células no Brasil, assim como sobrevida global e sobrevida livre de doença. Métodos: Estudo retrospectivo incluindo pacientes com diagnóstico de carcinoma pulmonar de células não pequenas submetidos à ressec&cc...
Source: Jornal Brasileiro de Pneumologia - Category: Respiratory Medicine Source Type: research
Conclusions: Robotic pulmonary resection proved to be a safe treatment for lung cancer. Longer follow-up periods are required in order to assess long-term survival.RESUMO Objetivo: Descrever morbidade, mortalidade e completude da ressec ção associadas à cirurgia robótica para o tratamento de câncer de pulmão não pequenas células no Brasil, assim como sobrevida global e sobrevida livre de doença. Métodos: Estudo retrospectivo incluindo pacientes com diagnóstico de carcinoma pulmonar de células não pequenas submetidos à ressec&cc...
Source: Jornal Brasileiro de Pneumologia - Category: Respiratory Medicine Source Type: research
Authors: Okita R, Maeda A, Shimizu K, Nojima Y, Saisho S, Nakata M Abstract UL16-binding protein (ULBP) 1-6 and MHC class I chain-related molecule A and B (MICA/B) are NK group 2, member D (NKG2D) ligands, which are specifically expressed in infected or transformed cells and are recognized by NK cells via NKG2D-NKG2D ligand interactions. We previously reported that MICA/B overexpression predicted improved clinical outcomes in patients with resected non-small cell lung cancer (NSCLC). However, the clinicopathological features and prognostic significance of ULBPs in NSCLC remain unclear. Here,ULBP1-6 expression was e...
Source: Oncotarget - Category: Cancer & Oncology Tags: Oncotarget Source Type: research
Conclusion: The TIMP3 silencing observed in the NLNT and its negative correlation with presurgical expression of miR-20a (from serum exosomes), suggest that miRs can influence ECM remodeling at a distance from the center of the lesion. The miRs expression pattern in serum obtained before surgery significantly differs between AC and SCC subtypes. Moreover, decreased TIMP3 expression in NLNT (in SCC group) negatively correlates with the amount of tobacco smoked in a lifetime in PY.
Source: Frontiers in Oncology - Category: Cancer & Oncology Source Type: research
We examined LATS2 protein expression by immunohistochemistry in 184 resected NSCLC specimens using tissue microarrays. Low LATS2 expression was significantly related to disease recurrence (p = 0.047). In survival analysis, the low LATS2 expression group showed a statistically poorer overall survival (OS) (p = 0.004) and disease-free survival (DFS) (p = 0.014) than the high expression group. In multivariate analysis, downregulated LATS2 expression in NSCLC could be an independent prognostic factor of poor OS and DFS. Furthermore, we evaluated the prognostic signifi...
Source: Polish Journal of Pathology - Category: Pathology Tags: Pol J Pathol Source Type: research
ConclusionsSatisfactory glycemic control during platinum ‐based chemotherapy might provide a survival benefit to T2DM patients with NSCLC. Further studies are warranted to confirm our findings.
Source: Cancer Medicine - Category: Cancer & Oncology Authors: Tags: ORIGINAL RESEARCH Source Type: research
AbstractPersonalised medicine for primary lung cancers (PLCs) requires molecular analysis of cancer tissue or cells. The primary objective of the present prospective study was to assess the concordance between epidermal growth factor receptor (EGFR) gene mutation detection and echinoderm microtubule-associated protein-like (EML) 4-anaplastic lymphoma kinase protein (ALK) expression using liquid-based cytology (LBC) samples and matched histology samples of PLC patients. A total of 117 patients who underwent surgical resection of non-small cell PLC were enrolled. Cytological specimens scratched from the resected PLC lesion w...
Source: Virchows Archiv - Category: Pathology Source Type: research
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