• 文献检索
  • 文档翻译
  • 深度研究
  • 学术资讯
  • Suppr Zotero 插件Zotero 插件
  • 邀请有礼
  • 套餐&价格
  • 历史记录
应用&插件
Suppr Zotero 插件Zotero 插件浏览器插件Mac 客户端Windows 客户端微信小程序
定价
高级版会员购买积分包购买API积分包
服务
文献检索文档翻译深度研究API 文档MCP 服务
关于我们
关于 Suppr公司介绍联系我们用户协议隐私条款
关注我们

Suppr 超能文献

核心技术专利:CN118964589B侵权必究
粤ICP备2023148730 号-1Suppr @ 2026

文献检索

告别复杂PubMed语法,用中文像聊天一样搜索,搜遍4000万医学文献。AI智能推荐,让科研检索更轻松。

立即免费搜索

文件翻译

保留排版,准确专业,支持PDF/Word/PPT等文件格式,支持 12+语言互译。

免费翻译文档

深度研究

AI帮你快速写综述,25分钟生成高质量综述,智能提取关键信息,辅助科研写作。

立即免费体验

组学游乐场:一个用于可视化、分析和探索大型组学数据的综合自助服务平台。

Omics Playground: a comprehensive self-service platform for visualization, analytics and exploration of Big Omics Data.

作者信息

Akhmedov Murodzhon, Martinelli Axel, Geiger Roger, Kwee Ivo

机构信息

Institute for Research in Biomedicine, Faculty of Biomedical Sciences, Università della Svizzera Italiana, 6500 Bellinzona, Switzerland.

Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland.

出版信息

NAR Genom Bioinform. 2019 Dec 6;2(1):lqz019. doi: 10.1093/nargab/lqz019. eCollection 2020 Mar.

DOI:10.1093/nargab/lqz019
PMID:33575569
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC7671354/
Abstract

As the cost of sequencing drops rapidly, the amount of 'omics data increases exponentially, making data visualization and interpretation-'tertiary' analysis a bottleneck. Specialized analytical tools requiring technical expertise are available. However, consolidated and multi-faceted tools that are easy to use for life scientists is highly needed and currently lacking. Here we present Omics Playground, a user-friendly and interactive self-service bioinformatics platform for the in-depth analysis, visualization and interpretation of transcriptomics and proteomics data. It provides a large number of different tools in which special attention has been paid to single cell data. With Omics Playground, life scientists can easily perform complex data analysis and visualization without coding, and significantly reduce the time to discovery.

摘要

随着测序成本迅速下降,“组学”数据量呈指数级增长,使得数据可视化和解读(“第三级”分析)成为瓶颈。虽然有需要技术专长的专业分析工具,但目前非常需要且缺乏便于生命科学家使用的整合式多层面工具。在此,我们展示了Omics Playground,这是一个用户友好且交互式的自助生物信息学平台,用于转录组学和蛋白质组学数据的深入分析、可视化和解读。它提供了大量不同工具,其中特别关注了单细胞数据。借助Omics Playground,生命科学家无需编码就能轻松进行复杂的数据分析和可视化,并显著缩短发现时间。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5779/7671354/5eb2759aa1a7/lqz019fig3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5779/7671354/4898a04126dd/lqz019fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5779/7671354/08ec38cc7cca/lqz019fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5779/7671354/5eb2759aa1a7/lqz019fig3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5779/7671354/4898a04126dd/lqz019fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5779/7671354/08ec38cc7cca/lqz019fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5779/7671354/5eb2759aa1a7/lqz019fig3.jpg

相似文献

1
Omics Playground: a comprehensive self-service platform for visualization, analytics and exploration of Big Omics Data.组学游乐场:一个用于可视化、分析和探索大型组学数据的综合自助服务平台。
NAR Genom Bioinform. 2019 Dec 6;2(1):lqz019. doi: 10.1093/nargab/lqz019. eCollection 2020 Mar.
2
CARMO: a comprehensive annotation platform for functional exploration of rice multi-omics data.CARMO:用于水稻多组学数据功能探索的综合注释平台。
Plant J. 2015 Jul;83(2):359-74. doi: 10.1111/tpj.12894.
3
BIOMEX: an interactive workflow for (single cell) omics data interpretation and visualization.BIOMEX:一个用于(单细胞)组学数据解释和可视化的交互式工作流。
Nucleic Acids Res. 2020 Jul 2;48(W1):W385-W394. doi: 10.1093/nar/gkaa332.
4
OmicSDK-Transcriptomics: A Web Platform for Transcriptomics Data Analysis.OmicSDK-Transcriptomics:一个用于转录组数据分析的网络平台。
Stud Health Technol Inform. 2023 May 18;302:1042-1046. doi: 10.3233/SHTI230343.
5
A User-Friendly Visualization Tool for Multi-Omics Data.用于多组学数据的用户友好型可视化工具。
Proteomics. 2020 Nov;20(21-22):e2000136. doi: 10.1002/pmic.202000136. Epub 2020 Sep 3.
6
OmicsAnalyst: a comprehensive web-based platform for visual analytics of multi-omics data.OmicsAnalyst:一个用于多组学数据可视化分析的综合性网络平台。
Nucleic Acids Res. 2021 Jul 2;49(W1):W476-W482. doi: 10.1093/nar/gkab394.
7
Cloud Computing Enabled Big Multi-Omics Data Analytics.基于云计算的大型多组学数据分析
Bioinform Biol Insights. 2021 Jul 28;15:11779322211035921. doi: 10.1177/11779322211035921. eCollection 2021.
8
MicrobioSee: A Web-Based Visualization Toolkit for Multi-Omics of Microbiology.MicrobioSee:一个用于微生物多组学的基于网络的可视化工具包。
Front Genet. 2022 Apr 8;13:853612. doi: 10.3389/fgene.2022.853612. eCollection 2022.
9
scMoresDB: A comprehensive database of single-cell multi-omics data for human respiratory system.scMoresDB:一个关于人类呼吸系统单细胞多组学数据的综合数据库。
iScience. 2024 Mar 26;27(4):109567. doi: 10.1016/j.isci.2024.109567. eCollection 2024 Apr 19.
10
Connecting omics signatures and revealing biological mechanisms with iLINCS.通过 iLINCS 连接组学特征并揭示生物学机制。
Nat Commun. 2022 Aug 9;13(1):4678. doi: 10.1038/s41467-022-32205-3.

引用本文的文献

1
Effects of Asprosin and Role of TLR4 as a Biomarker in Endometrial Cancer.阿扑脂蛋白A的作用及Toll样受体4作为子宫内膜癌生物标志物的作用
Molecules. 2025 Aug 18;30(16):3410. doi: 10.3390/molecules30163410.
2
Multi-omics profiling reveals PLEKHA6 as a modulator of β-catenin signaling and therapeutic vulnerability in lung adenocarcinoma.多组学分析揭示PLEKHA6是肺腺癌中β-连环蛋白信号传导的调节因子及治疗脆弱性相关因素。
Am J Cancer Res. 2025 Jul 25;15(7):3106-3127. doi: 10.62347/NVVF8441. eCollection 2025.
3
Emerging roles of the cancerous inhibitor of protein phosphatase 2A (CIP2A) in ovarian cancer.

本文引用的文献

1
NetworkAnalyst 3.0: a visual analytics platform for comprehensive gene expression profiling and meta-analysis.NetworkAnalyst 3.0:一个用于全面基因表达谱分析和荟萃分析的可视化分析平台。
Nucleic Acids Res. 2019 Jul 2;47(W1):W234-W241. doi: 10.1093/nar/gkz240.
2
DEBrowser: interactive differential expression analysis and visualization tool for count data.DEBrowser:用于计数数据的交互式差异表达分析和可视化工具。
BMC Genomics. 2019 Jan 5;20(1):6. doi: 10.1186/s12864-018-5362-x.
3
WIlsON: Web-based Interactive Omics VisualizatioN.威尔森:基于网络的交互式组学可视化。
蛋白磷酸酶2A癌性抑制剂(CIP2A)在卵巢癌中的新作用。
Sci Rep. 2025 Jul 1;15(1):22382. doi: 10.1038/s41598-025-05013-0.
4
Decreased proliferation of HepG2 liver cancer cells in vitro and exhibited proteomic changes in vivo in subjects with metabolic syndrome and metabolic dysfunction-associated steatotic liver disease who performed four-week dawn-to-dusk dry fasting.在进行了为期四周从黎明到黄昏的完全禁食的代谢综合征和代谢功能障碍相关脂肪性肝病患者体内,体外培养的HepG2肝癌细胞增殖减少,并表现出蛋白质组学变化。
Clin Proteomics. 2025 Jun 24;22(1):25. doi: 10.1186/s12014-025-09547-3.
5
Revitalizing the Epigenome of Adult Jaw Periosteal Cells: Enhancing Diversity in iPSC-Derived Mesenchymal Stem Cells (iMSCs).重振成年颌骨骨膜细胞的表观基因组:增强诱导多能干细胞衍生的间充质干细胞(iMSC)的多样性
Cells. 2025 Apr 22;14(9):627. doi: 10.3390/cells14090627.
6
AI-powered precision medicine: utilizing genetic risk factor optimization to revolutionize healthcare.人工智能驱动的精准医学:利用遗传风险因素优化彻底改变医疗保健。
NAR Genom Bioinform. 2025 May 5;7(2):lqaf038. doi: 10.1093/nargab/lqaf038. eCollection 2025 Jun.
7
Integration of multi-omics and single-cell transcriptome reveals mitochondrial outer membrane protein-2 (MTX-2) as a prognostic biomarker and characterizes ubiquinone metabolism in lung adenocarcinoma.多组学与单细胞转录组的整合揭示线粒体外膜蛋白2(MTX-2)作为一种预后生物标志物,并对肺腺癌中的泛醌代谢进行了表征。
J Cancer. 2025 Apr 13;16(7):2401-2420. doi: 10.7150/jca.106902. eCollection 2025.
8
DLK1 Distinguishes Subsets of NF1-Associated Malignant Peripheral Nerve Sheath Tumors with Divergent Molecular Signatures.DLK1可区分具有不同分子特征的1型神经纤维瘤病相关恶性外周神经鞘瘤亚型。
Clin Cancer Res. 2025 May 15;31(10):1988-2009. doi: 10.1158/1078-0432.CCR-24-3029.
9
Polo-like kinase inhibitors increase AAV production by halting cell cycle progression.Polo样激酶抑制剂通过阻止细胞周期进程来增加腺相关病毒的产生。
Mol Ther Methods Clin Dev. 2025 Jan 17;33(1):101412. doi: 10.1016/j.omtm.2025.101412. eCollection 2025 Mar 13.
10
Nicotinamide mononucleotide restores impaired metabolism, endothelial cell proliferation and angiogenesis in old sedentary male mice.烟酰胺单核苷酸可恢复老年久坐雄性小鼠受损的新陈代谢、内皮细胞增殖和血管生成。
iScience. 2024 Dec 20;28(1):111656. doi: 10.1016/j.isci.2024.111656. eCollection 2025 Jan 17.
Bioinformatics. 2019 Mar 15;35(6):1055-1057. doi: 10.1093/bioinformatics/bty711.
4
BioJupies: Automated Generation of Interactive Notebooks for RNA-Seq Data Analysis in the Cloud.BioJupies:在云端自动生成用于 RNA-Seq 数据分析的交互式笔记本。
Cell Syst. 2018 Nov 28;7(5):556-561.e3. doi: 10.1016/j.cels.2018.10.007. Epub 2018 Nov 14.
5
The cardenolides strophanthidin, digoxigenin and dihydroouabain act as activators of the human RORγ/RORγT receptors.卡烯内酯毒毛旋花子苷元、洋地黄毒苷和地高辛可作为人 RORγ/RORγT 受体的激活剂。
Toxicol Lett. 2018 Oct 1;295:314-324. doi: 10.1016/j.toxlet.2018.07.002. Epub 2018 Jul 5.
6
Modulation of EZH2 expression in T cells improves efficacy of anti-CTLA-4 therapy.调节 T 细胞中的 EZH2 表达可提高抗 CTLA-4 治疗的疗效。
J Clin Invest. 2018 Aug 31;128(9):3813-3818. doi: 10.1172/JCI99760. Epub 2018 Jul 30.
7
PaintOmics 3: a web resource for the pathway analysis and visualization of multi-omics data.PaintOmics 3:一个用于多组学数据分析和可视化的通路分析的网络资源。
Nucleic Acids Res. 2018 Jul 2;46(W1):W503-W509. doi: 10.1093/nar/gky466.
8
A Next Generation Connectivity Map: L1000 Platform and the First 1,000,000 Profiles.下一代连接图谱:L1000平台及首批100万个图谱
Cell. 2017 Nov 30;171(6):1437-1452.e17. doi: 10.1016/j.cell.2017.10.049.
9
TSIS: an R package to infer alternative splicing isoform switches for time-series data.TSIS:一个用于推断时间序列数据中可变剪接异构体切换的 R 包。
Bioinformatics. 2017 Oct 15;33(20):3308-3310. doi: 10.1093/bioinformatics/btx411.
10
Evaluation and comparison of computational tools for RNA-seq isoform quantification.RNA测序异构体定量计算工具的评估与比较
BMC Genomics. 2017 Aug 7;18(1):583. doi: 10.1186/s12864-017-4002-1.