CancerSEA: a cancer single-cell state atlas.
CancerSEA: a cancer single-cell state atlas.
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CancerSEA：癌症单细胞状态图谱
DOI：
10.1093/nar/gky939
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发表时间：
2019-01-08
影响因子：
14.9
通讯作者：
Li X
中科院分区：
文献类型：
--
作者：
Yuan H;Yan M;Zhang G;Liu W;Deng C;Liao G;Xu L;Luo T;Yan H;Long Z;Shi A;Zhao T;Xiao Y;Li X
摘要 癌细胞的高度功能异质性给癌症研究带来了重大挑战。单细胞测序技术为以单细胞分辨率破译癌细胞的多种功能状态提供了前所未有的机会，并且癌症scRNA-seq数据集已经大量积累。这强调迫切需要建立专用资源来解码癌症单细胞的功能状态。在这里，我们开发了CancerSEA（http://biocc.hrbmu.edu.cn/CancerSEA/或http://202.97.205.69/CancerSEA/），这是第一个旨在在单细胞水平全面探索癌细胞不同功能状态的专用数据库。 CancerSEA描绘了癌症单细胞功能状态图谱，涉及来自25种癌症类型的41900个癌症单细胞的14种功能状态（包括干细胞、侵袭、转移、增殖、EMT、血管生成、细胞凋亡、细胞周期、分化、DNA损伤、DNA修复、缺氧、炎症和静止）。它允许查询哪些功能状态与不同癌症中感兴趣的基因（或基因列表）相关。 CancerSEA 还提供所有癌症、特定癌症以及个体癌症单细胞数据集中的功能状态相关 PCG/lncRNA 库。总之，CancerSEA提供了一个用户友好的界面，用于全面搜索、浏览、可视化和下载数万个癌症单细胞的功能状态活动图谱和相应的PCGs/lncRNAs表达图谱。
Abstract High functional heterogeneity of cancer cells poses a major challenge for cancer research. Single-cell sequencing technology provides an unprecedented opportunity to decipher diverse functional states of cancer cells at single-cell resolution, and cancer scRNA-seq datasets have been largely accumulated. This emphasizes the urgent need to build a dedicated resource to decode the functional states of cancer single cells. Here, we developed CancerSEA (http://biocc.hrbmu.edu.cn/CancerSEA/ or http://202.97.205.69/CancerSEA/), the first dedicated database that aims to comprehensively explore distinct functional states of cancer cells at the single-cell level. CancerSEA portrays a cancer single-cell functional state atlas, involving 14 functional states (including stemness, invasion, metastasis, proliferation, EMT, angiogenesis, apoptosis, cell cycle, differentiation, DNA damage, DNA repair, hypoxia, inflammation and quiescence) of 41 900 cancer single cells from 25 cancer types. It allows querying which functional states are associated with the gene (or gene list) of interest in different cancers. CancerSEA also provides functional state-associated PCG/lncRNA repertoires across all cancers, in specific cancers, and in individual cancer single-cell datasets. In summary, CancerSEA provides a user-friendly interface for comprehensively searching, browsing, visualizing and downloading functional state activity profiles of tens of thousands of cancer single cells and the corresponding PCGs/lncRNAs expression profiles.
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DOI：
10.1126/science.aad0501
发表时间：
2016-04-08
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Tirosh I;Izar B;Prakadan SM;Wadsworth MH 2nd;Treacy D;Trombetta JJ;Rotem A;Rodman C;Lian C;Murphy G;Fallahi-Sichani M;Dutton-Regester K;Lin JR;Cohen O;Shah P;Lu D;Genshaft AS;Hughes TK;Ziegler CG;Kazer SW;Gaillard A;Kolb KE;Villani AC;Johannessen CM;Andreev AY;Van Allen EM;Bertagnolli M;Sorger PK;Sullivan RJ;Flaherty KT;Frederick DT;Jané-Valbuena J;Yoon CH;Rozenblatt-Rosen O;Shalek AK;Regev A;Garraway LA
通讯作者：
Garraway LA
影响因子：
14.9
作者：
Pinto JP;Machado RSR;Magno R;Oliveira DV;Machado S;Andrade RP;Bragança J;Duarte I;Futschik ME
通讯作者：
Futschik ME
影响因子：
82.9
作者：
Eppert, Kolja;Takenaka, Katsuto;Dick, John E.
通讯作者：
Dick, John E.
DOI：
10.1126/science.1164382
发表时间：
2008-09-26
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Parsons DW;Jones S;Zhang X;Lin JC;Leary RJ;Angenendt P;Mankoo P;Carter H;Siu IM;Gallia GL;Olivi A;McLendon R;Rasheed BA;Keir S;Nikolskaya T;Nikolsky Y;Busam DA;Tekleab H;Diaz LA Jr;Hartigan J;Smith DR;Strausberg RL;Marie SK;Shinjo SM;Yan H;Riggins GJ;Bigner DD;Karchin R;Papadopoulos N;Parmigiani G;Vogelstein B;Velculescu VE;Kinzler KW
通讯作者：
Kinzler KW
影响因子：
3.8
作者：
Nagata M;Noman AA;Suzuki K;Kurita H;Ohnishi M;Ohyama T;Kitamura N;Kobayashi T;Uematsu K;Takahashi K;Kodama N;Kawase T;Hoshina H;Ikeda N;Shingaki S;Takagi R
通讯作者：
Takagi R