copy number alterations

拷贝数更改
  • 文章类型: Journal Article
    结膜黑色素瘤(CM)是一种罕见但侵袭性的癌症。在过去的十年里,使用快速发展技术的分子研究日益提高了我们对CM遗传学的理解。CMs的主要特征是MAPK和PI3K/AKT/mTOR通路失调,由通常突变的(BRAF,NRAS,NF1)或较不常见的突变(KIT,PTEN)基因。在CM中经常突变的另一组基因包括TERT和ATRX,在端粒维持和染色质重塑/表观遗传调控中具有已知作用。葡萄膜黑色素瘤相关基因(BAP1,SF3B1,GNAQ/11)也可以在CMs中突变,虽然很少。使用更全面的遗传分析,已经越来越多地确定了其他与CM相关的突变基因。等待在更多/更大的研究中进一步确认。作为在部分暴露于阳光的粘膜组织中出现的肿瘤,CM表现出独特的基因组图谱,包括紫外线(UV)特征的频繁存在(和高突变负荷),以及除特定基因突变外,还常见的大结构变异(分布在整个基因组中)。迄今为止,从CM遗传研究中获得的知识导致了新的治疗途径,包括在一些病例中使用靶向和/或免疫疗法有希望的结果。因此,在CM患者的常规临床护理中实施肿瘤基因检测有望进一步改善和个性化治疗。同样,对CMs不良预后相关遗传变化的认识不断提高(NRAS,TERT,和葡萄膜黑色素瘤特征突变和染色体10q缺失)可能最终指导未来的预后测试策略,以进一步改善临床结局(通过调整监测并考虑对高风险原发性肿瘤患者的预防性治疗)。
    Conjunctival melanoma (CM) is a rare but aggressive cancer. Over the past decade, molecular studies using rapidly advancing technologies have increasingly improved our understanding of CM genetics. CMs are mainly characterized by dysregulated MAPK and PI3K/AKT/mTOR pathways, driven by commonly mutated (BRAF, NRAS, NF1) or less commonly mutated (KIT, PTEN) genes. Another group of genes frequently mutated in CMs include TERT and ATRX, with known roles in telomere maintenance and chromatin remodeling/epigenetic regulation. Uveal melanoma-related genes (BAP1, SF3B1, GNAQ/11) can also be mutated in CMs, albeit infrequently. Additional CM-related mutated genes have increasingly been identified using more comprehensive genetic analyses, awaiting further confirmation in additional/larger studies. As a tumor arising in a partly sun-exposed mucosal tissue, CM exhibits a distinct genomic profile, including the frequent presence of an ultraviolet (UV) signature (and high mutational load) and also the common occurrence of large structural variations (distributed across the genome) in addition to specific gene mutations. The knowledge gained from CM genetic studies to date has led to new therapeutic avenues, including the use of targeted and/or immuno-therapies with promising outcomes in several cases. Accordingly, the implementation of tumor genetic testing into the routine clinical care of CM patients holds promise to further improve and personalize their treatments. Likewise, a growing knowledge of poor prognosis-associated genetic changes in CMs (NRAS, TERT, and uveal melanoma signature mutations and chromosome 10q deletions) may ultimately guide future strategies for prognostic testing to further improve clinical outcomes (by tailoring surveillance and considering prophylactic treatments in patients with high-risk primary tumors).
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  • 文章类型: Editorial
    “病理学杂志”2023年刊,病理学的最新进展,包含12个关于病理学当前感兴趣的主题的邀请评论。今年,我们的主题包括免疫肿瘤学和计算病理学方法在人类疾病诊断和研究中的应用。对组织微环境的评论包括凋亡细胞来源的外泌体的影响,了解肿瘤微环境如何预测预后,以及成纤维细胞亚型在健康和疾病中的不同功能的日益重视。我们还包括对恶性肿瘤分子基础的现代方面的最新评论,我们的最终审查涵盖了心脏疾病中血管和淋巴再生的新知识。本期中包含的所有评论均由专家小组撰写,这些专家小组选择讨论其特定领域的最新进展,所有文章均可在线免费获得(https://pathsocjournal。在线图书馆。wiley.com/journal/10969896)。©2023年英国和爱尔兰病理学会。由JohnWiley&Sons出版,Ltd.
    The 2023 Annual Review Issue of The Journal of Pathology, Recent Advances in Pathology, contains 12 invited reviews on topics of current interest in pathology. This year, our subjects include immuno-oncology and computational pathology approaches for diagnostic and research applications in human disease. Reviews on the tissue microenvironment include the effects of apoptotic cell-derived exosomes, how understanding the tumour microenvironment predicts prognosis, and the growing appreciation of the diverse functions of fibroblast subtypes in health and disease. We also include up-to-date reviews of modern aspects of the molecular basis of malignancies, and our final review covers new knowledge of vascular and lymphatic regeneration in cardiac disease. All of the reviews contained in this issue are written by expert groups of authors selected to discuss the recent progress in their particular fields and all articles are freely available online (https://pathsocjournals.onlinelibrary.wiley.com/journal/10969896). © 2023 The Pathological Society of Great Britain and Ireland. Published by John Wiley & Sons, Ltd.
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  • 文章类型: Review
    背景:胰腺腺癌是预后最差的癌症之一。目前基于联合化疗的治疗模式在过去十年中提高了生存率,但是这种疾病在大多数情况下仍然是致命的。需要利用对疾病分子病理学的日益理解的新疗法。尽管该疾病很少出现复发性分子改变,这些代表了开发靶向治疗的机会.然而,少数病例没有这些常见的改变。对胰腺腺癌这一子集的分子景观的描述可以揭示存在于其中的其他分子病变,这些病变可以作为治疗靶标。
    方法:没有KRAS常见改变的胰腺癌亚组,TP53、CDKN2A和SMAD4已经从公开的和公开可用的胰腺癌队列中检查,以确定它们的临床和分子特征。cBioportal平台用于此评估,OncoKB知识库用于确定发现的突变的功能意义。
    结果:大约5%至10%的胰腺腺癌存在,而没有作为疾病特征的常见分子改变。这些病例往往是基因组稳定的,微卫星或染色体不稳定性的患病率较低。在胰腺癌中观察到的分子改变的频率低于四种最普遍的改变。如DNA损伤反应和表观遗传修饰突变,在没有常见改变的子集中仍然观察到,并且可能是致病相关的。
    结论:尽管在一组胰腺腺癌中没有最常见的胰腺癌改变,该子集具有与其他胰腺癌相似的其他频率改变.讨论了现有改变的推定靶向,可以作为靶向治疗开发的基础。
    BACKGROUND: Pancreatic adenocarcinoma is one of the cancers with the worst prognosis. The current treatment paradigm based on combination chemotherapy has improved survival over the last decade, but the disease is still fatal in most cases. New therapies exploiting the increasing understanding of the molecular pathology of the disease are needed. Although the disease presents with few recurrent molecular alterations, these represent opportunities for targeted treatments to be developed. However, a minority of cases are devoid of these common alterations. A description of the molecular landscape of this sub-set of pancreatic adenocarcinoma could uncover other molecular lesions present in them that could serve as therapeutic targets.
    METHODS: The sub-set of pancreatic cancers without the common alterations in KRAS, TP53, CDKN2A and SMAD4 has been examined from published and publicly available pancreatic cancer cohorts for determination of their clinical and molecular characteristics. The cBioportal platform was used for this evaluation and the OncoKB knowledgebase was used for determination of the functional significance of discovered mutations.
    RESULTS: About 5% to 10% of pancreatic adenocarcinomas present without the usual molecular alterations that characterize the disease. These cases tend to be genomically stable and have low prevalence of microsatellite or chromosome instability. Molecular alterations that are observed in pancreatic cancers in lower frequencies than the four most prevalent alterations, such as DNA Damage Response and epigenetic modifier mutations, are still observed in the sub-set without the common alterations and may be pathogenically relevant.
    CONCLUSIONS: Despite the absence of most frequent pancreatic cancer alterations in a sub-set of pancreatic adenocarcinomas, this sub-set possesses other alterations in frequencies similar to the rest of pancreatic cancers. Putative targeting of alterations present is discussed and can serve as the basis for targeted therapies development.
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