Analytical Considerations of Large-Scale Aptamer-Based Datasets for Translational Applications.
Analytical Considerations of Large-Scale Aptamer-Based Datasets for Translational Applications.
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DOI：
10.3390/cancers14092227
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发表时间：
2022-04-29
期刊：
影响因子：
5.2
通讯作者：
Krauze, Andra V.
中科院分区：
文献类型：
--
作者：
Jiang, Will;Jones, Jennifer C.;Shankavaram, Uma;Sproull, Mary;Camphausen, Kevin;Krauze, Andra V.
适体代表了一项新兴技术，使研究人员能够快速、高精度地筛选血液和尿液等生物基质中的数千种不同蛋白质。然而，这种高容量筛选技术产生的庞大数据量也对有效分析这些复杂的数据集并将结果转化为临床带来了根本性的挑战。我们解决了适配体带来的新的分析考虑，探索所需的必要统计分析，并创建基线来更全面地分析这些大型数据库。此外，我们探索适体如何与当前的蛋白质组平台共存，以在该领域不断发展的多方面方法中产生更可靠的发现。解锁这些大型数据集背后伪装的潜在信号，最终将使临床医生和研究人员能够更好地了解感兴趣的疾病，并为患者护理提供更可靠的发现。适体技术的发展和进步为解锁蛋白质组学中可用的生物复杂性开辟了新的可能性领域。凭借超高通量和多重分析，以及卓越的特异性和敏感性，适体可以成为疾病特异性研究的强大工具，例如支持临床相关生物标志物的发现和验证。过去和当前蛋白质组技术面临的基本挑战之一是将蛋白质组数据集转化为实践标准的困难。适体能够从单一样品中生成涵盖 7000 多种不同蛋白质的单一面板。然而，作为一项最新技术，它们也提出了独特的挑战，因为基于翻译适体的蛋白质组学领域仍然缺乏分析这些大型数据集的标准化方法，也缺乏针对当前蛋白质组平台和适体之间的差异必须做出的新颖考虑。我们在调查初始数据、部署适当的统计方法来识别差异蛋白表达以及应用数据集来发现多标志物和通路水平发现方面解决了这些分析注意事项。此外，我们通过探索基因组学、转录组学和代谢组学之间基于适体的蛋白质组学以及现有蛋白质组学平台的交叉性，在多组学领域提供适体数据集。了解适体数据集的更广泛应用将大大增强当前为临床生成可转化研究结果的努力。
Aptamers represent an emerging technology that enables researchers to screen biological matrices such as blood and urine for thousands of different proteins at a rapid pace with high precision and accuracy. However, the sheer data volume generated by this high-capacity screening technique also creates a fundamental challenge towards efficiently analyzing these complex datasets and translating findings for the clinic. We address the new analytical considerations brought forth by aptamers, explore the necessary statistical analysis needed, and create a baseline to analyze these large-scale databases more comprehensively. In addition, we explore how aptamers can co-exist with current proteomic platforms to produce more robust findings in an evolving, multi-faceted approach towards the field. Unlocking the underlying signals masquerading behind these large datasets will ultimately empower clinicians and researchers to better understand diseases of interest and to curate more robust findings for patient care. The development and advancement of aptamer technology has opened a new realm of possibilities for unlocking the biocomplexity available within proteomics. With ultra-high-throughput and multiplexing, alongside remarkable specificity and sensitivity, aptamers could represent a powerful tool in disease-specific research, such as supporting the discovery and validation of clinically relevant biomarkers. One of the fundamental challenges underlying past and current proteomic technology has been the difficulty of translating proteomic datasets into standards of practice. Aptamers provide the capacity to generate single panels that span over 7000 different proteins from a singular sample. However, as a recent technology, they also present unique challenges, as the field of translational aptamer-based proteomics still lacks a standardizing methodology for analyzing these large datasets and the novel considerations that must be made in response to the differentiation amongst current proteomic platforms and aptamers. We address these analytical considerations with respect to surveying initial data, deploying proper statistical methodologies to identify differential protein expressions, and applying datasets to discover multimarker and pathway-level findings. Additionally, we present aptamer datasets within the multi-omics landscape by exploring the intersectionality of aptamer-based proteomics amongst genomics, transcriptomics, and metabolomics, alongside pre-existing proteomic platforms. Understanding the broader applications of aptamer datasets will substantially enhance current efforts to generate translatable findings for the clinic.
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DOI：
10.1126/science.1260793
发表时间：
2015-02-06
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Battle A;Khan Z;Wang SH;Mitrano A;Ford MJ;Pritchard JK;Gilad Y
通讯作者：
Gilad Y
RNA-APTAMER-IN-DROPLETS（快速）分泌表型的高通量筛选。
影响因子：
16.6
作者：
Abatemarco J;Sarhan MF;Wagner JM;Lin JL;Liu L;Hassouneh W;Yuan SF;Alper HS;Abate AR
通讯作者：
Abate AR
影响因子：
7.5
作者：
Celik, Haydar;Lindblad, Katherine E.;Hourigan, Christopher S.
通讯作者：
Hourigan, Christopher S.
DOI：
10.1007/978-1-60327-254-4_1
发表时间：
2009-01-01
期刊：
Methods in molecular biology (Clifton, N.J.)
影响因子：
--
作者：
通讯作者：
--
影响因子：
7
作者：
Chambers, Andrew G.;Percy, Andrew J.;Borchers, Christoph H.
通讯作者：
Borchers, Christoph H.