A Novel Tissue Atlas and Online Tool for the Interrogation of Small RNA Expression in Human Tissues and Biofluids.
A Novel Tissue Atlas and Online Tool for the Interrogation of Small RNA Expression in Human Tissues and Biofluids.
复制标题
DOI：
10.3389/fcell.2022.804164
复制
发表时间：
2022
影响因子：
5.5
通讯作者：
Van Keuren-Jensen K
中科院分区：
文献类型：
--
作者：
Alsop E;Meechoovet B;Kitchen R;Sweeney T;Beach TG;Serrano GE;Hutchins E;Ghiran I;Reiman R;Syring M;Hsieh M;Courtright-Lim A;Valkov N;Whitsett TG;Rakela J;Pockros P;Rozowsky J;Gallego J;Huentelman MJ;Shah R;Nakaji P;Kalani MYS;Laurent L;Das S;Van Keuren-Jensen K
利用生物体液中循环的分子信息的一个有希望的目标是发现临床上有用的生物标志物。细胞外 RNA (exRNA) 是最多样化的分子货物之一，可以通过测序轻松进行分析，并且其表达会根据受试者状态而快速变化。尽管 exRNA 货物多种多样，但大多数生物流体评估都集中在小 RNA 测序和分析，特别是 microRNA (miRNA)。表征循环分子信息的另一个目标是将表达与特定起源组织相关的损伤相关联。候选生物标志物通常被描述为具有特异性、在特定组织中富集或与疾病过程相关。同样，miRNA 数据经常被报道为特定的、针对组织的富集，但没有经过严格的测试来支持这一说法。在这里，我们提供了来自 30 种不同组织和三种不同血细胞类型的小 RNA 的组织图谱。我们分析了组织中小 RNA 序列的富集情况，并评估了它们在生物体液（血浆、脑脊液、尿液和唾液）中的表达。我们利用已发表的代表生理状态（静息与急性运动）和病理状态（早期与晚期肝纤维化以及中风的不同亚型）的数据集来确定差异组织富集的小RNA。我们还开发了一个在线工具，提供有关不同生物体液和组织中发现的 exRNA 序列的信息。这些数据可用于更好地了解不同组织中各种类型的小RNA序列及其释放到生物体液中的可能性，这将有助于生物标志物研究的验证或设计。
One promising goal for utilizing the molecular information circulating in biofluids is the discovery of clinically useful biomarkers. Extracellular RNAs (exRNAs) are one of the most diverse classes of molecular cargo, easily assayed by sequencing and with expressions that rapidly change in response to subject status. Despite diverse exRNA cargo, most evaluations from biofluids have focused on small RNA sequencing and analysis, specifically on microRNAs (miRNAs). Another goal of characterizing circulating molecular information, is to correlate expression to injuries associated with specific tissues of origin. Biomarker candidates are often described as being specific, enriched in a particular tissue or associated with a disease process. Likewise, miRNA data is often reported to be specific, enriched for a tissue, without rigorous testing to support the claim. Here we provide a tissue atlas of small RNAs from 30 different tissues and three different blood cell types. We analyzed the tissues for enrichment of small RNA sequences and assessed their expression in biofluids: plasma, cerebrospinal fluid, urine, and saliva. We employed published data sets representing physiological (resting vs. acute exercise) and pathologic states (early- vs. late-stage liver fibrosis, and differential subtypes of stroke) to determine differential tissue-enriched small RNAs. We also developed an online tool that provides information about exRNA sequences found in different biofluids and tissues. The data can be used to better understand the various types of small RNA sequences in different tissues as well as their potential release into biofluids, which should help in the validation or design of biomarker studies.
登录
查看更多内容
影响因子：
14.9
作者：
Ebhardt HA;Tsang HH;Dai DC;Liu Y;Bostan B;Fahlman RP
通讯作者：
Fahlman RP
影响因子：
3.7
作者：
Enderle D;Spiel A;Coticchia CM;Berghoff E;Mueller R;Schlumpberger M;Sprenger-Haussels M;Shaffer JM;Lader E;Skog J;Noerholm M
通讯作者：
Noerholm M
DOI：
10.1093/bioinformatics/btr149
发表时间：
2011-05-15
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Ellwanger DC;Büttner FA;Mewes HW;Stümpflen V
通讯作者：
Stümpflen V
影响因子：
4.6
作者：
Everaert, Celine;Helsmoortel, Hetty;Vandesompele, Jo
通讯作者：
Vandesompele, Jo
影响因子：
14.9
作者：
Griffiths-Jones, S
通讯作者：
Griffiths-Jones, S