IOBR: Multi-Omics Immuno-Oncology Biological Research to Decode Tumor Microenvironment and Signatures.
IOBR: Multi-Omics Immuno-Oncology Biological Research to Decode Tumor Microenvironment and Signatures.
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IOBR：解码肿瘤微环境和特征的多组学免疫肿瘤学生物学研究。
DOI：
10.3389/fimmu.2021.687975
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发表时间：
2021
影响因子：
7.3
通讯作者：
Liao W
中科院分区：
文献类型：
--
作者：
Zeng D;Ye Z;Shen R;Yu G;Wu J;Xiong Y;Zhou R;Qiu W;Huang N;Sun L;Li X;Bin J;Liao Y;Shi M;Liao W
下一代测序（NGS）技术的最新进展引发了公共可用的多组学数据集的快速积累。整合组学在探索用于临床翻译的稳健特征方面的应用越来越受到重视，这归因于免疫检查点阻断在不同恶性肿瘤中的临床成功。然而，仍然需要有效的工具来全面解释多组学数据，以增加肿瘤发生和免疫敏感性的内在机制的粒度。因此，我们开发了一种有效的免疫肿瘤生物学研究（IOBR）的计算工具，提供了一个全面的调查报告或用户建立的签名，TME去卷积，并基于多组学数据的签名建设的估计。值得注意的是，IOBR提供了这些特征及其与临床表型、长链非编码RNA（lncRNA）分析、基因组特征和不同癌症环境中单细胞RNA测序（scRNA-seq）数据生成的特征的相关性的批量分析。此外，IOBR集成了多种现有的微环境去卷积方法和特征构建工具，以方便比较和选择。总的来说，IOBR是一个用户友好的工具，用于利用多组学数据来促进免疫肿瘤学探索，揭示肿瘤-免疫相互作用并加速精确免疫治疗。
Recent advances in next-generation sequencing (NGS) technologies have triggered the rapid accumulation of publicly available multi-omics datasets. The application of integrated omics to explore robust signatures for clinical translation is increasingly emphasized, and this is attributed to the clinical success of immune checkpoint blockades in diverse malignancies. However, effective tools for comprehensively interpreting multi-omics data are still warranted to provide increased granularity into the intrinsic mechanism of oncogenesis and immunotherapeutic sensitivity. Therefore, we developed a computational tool for effective Immuno-Oncology Biological Research (IOBR), providing a comprehensive investigation of the estimation of reported or user-built signatures, TME deconvolution, and signature construction based on multi-omics data. Notably, IOBR offers batch analyses of these signatures and their correlations with clinical phenotypes, long non-coding RNA (lncRNA) profiling, genomic characteristics, and signatures generated from single-cell RNA sequencing (scRNA-seq) data in different cancer settings. Additionally, IOBR integrates multiple existing microenvironmental deconvolution methodologies and signature construction tools for convenient comparison and selection. Collectively, IOBR is a user-friendly tool for leveraging multi-omics data to facilitate immuno-oncology exploration and to unveil tumor-immune interactions and accelerating precision immunotherapy.
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影响因子：
12.3
作者：
Li B;Liu JS;Liu XS
通讯作者：
Liu XS
影响因子：
7.7
作者：
Racle J;de Jonge K;Baumgaertner P;Speiser DE;Gfeller D
通讯作者：
Gfeller D
影响因子：
9.5
作者：
Zhang，Zicheng;Bao，Siqi;Sun，Jie
通讯作者：
Sun，Jie
DOI：
10.1126/science.aar3593
发表时间：
2018-10-12
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Cristescu R;Mogg R;Ayers M;Albright A;Murphy E;Yearley J;Sher X;Liu XQ;Lu H;Nebozhyn M;Zhang C;Lunceford JK;Joe A;Cheng J;Webber AL;Ibrahim N;Plimack ER;Ott PA;Seiwert TY;Ribas A;McClanahan TK;Tomassini JE;Loboda A;Kaufman D
通讯作者：
Kaufman D
影响因子：
16.6
作者：
Yoshihara, Kosuke;Shahmoradgoli, Maria;Martinez, Emmanuel;Vegesna, Rahulsimham;Kim, Hoon;Torres-Garcia, Wandaliz;Trevino, Victor;Shen, Hui;Laird, Peter W.;Levine, Douglas A.;Carter, Scott L.;Getz, Gad;Stemke-Hale, Katherine;Mills, Gordon B.;Verhaak, Roel G. W.
通讯作者：
Verhaak, Roel G. W.