Validation of Immune Cell Modules in Multicellular Transcriptomic Data.
Validation of Immune Cell Modules in Multicellular Transcriptomic Data.
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DOI：
10.1371/journal.pone.0169271
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发表时间：
2017
期刊：
影响因子：
3.7
通讯作者：
Noursadeghi M
中科院分区：
文献类型：
--
作者：
Pollara G;Murray MJ;Heather JM;Byng-Maddick R;Guppy N;Ellis M;Turner CT;Chain BM;Noursadeghi M
已经描述了许多基因标记或模块来评估多细胞组织样本转录组中的免疫细胞组成。然而，特定细胞类型的模块基因含量的显著差异与它们性能的异质性有关。为了对最能反映其所声称的关联的模块进行排名，我们生成了模块歧视指数（MDI）评分，该评分评估了每个模块在目标细胞类型中相对于其他细胞的表达。我们证明，MDI分数预测的模块最能反映独立验证的细胞组成差异，并与人类血液和组织样本中细胞数量和模块表达之间的协方差相关。我们的分析表明，MDI分数提供了一个有序的汇总统计，可以可靠地对转录数据中细胞类型丰度反褶积的基因表达模块的准确性进行排名。
Numerous gene signatures, or modules have been described to evaluate the immune cell composition in transcriptomes of multicellular tissue samples. However, significant diversity in module gene content for specific cell types is associated with heterogeneity in their performance. In order to rank modules that best reflect their purported association, we have generated the modular discrimination index (MDI) score that assesses expression of each module in the target cell type relative to other cells. We demonstrate that MDI scores predict modules that best reflect independently validated differences in cellular composition, and correlate with the covariance between cell numbers and module expression in human blood and tissue samples. Our analyses demonstrate that MDI scores provide an ordinal summary statistic that reliably ranks the accuracy of gene expression modules for deconvolution of cell type abundance in transcriptional data.
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影响因子：
--
作者：
Wood O;Woo J;Seumois G;Savelyeva N;McCann KJ;Singh D;Jones T;Peel L;Breen MS;Ward M;Garrido Martin E;Sanchez-Elsner T;Thomas G;Vijayanand P;Woelk CH;King E;Ottensmeier C;SPARC Consortium
通讯作者：
SPARC Consortium
影响因子：
64.8
作者：
通讯作者：
--
影响因子：
8
作者：
Roe JK;Thomas N;Gil E;Best K;Tsaliki E;Morris-Jones S;Stafford S;Simpson N;Witt KD;Chain B;Miller RF;Martineau A;Noursadeghi M
通讯作者：
Noursadeghi M
影响因子：
6.5
作者：
Johnson-Huang, Leanne M.;Suarez-Farinas, Mayte;Pierson, Katherine C.;Fuentes-Duculan, Judilyn;Cueto, Irma;Lentini, Tim;Sullivan-Whalen, Mary;Gilleaudeau, Patricia;Krueger, James G.;Haider, Asifa S.;Lowes, Michelle A.
通讯作者：
Lowes, Michelle A.
影响因子：
32.4
作者：
Xue, Jia;Schmidt, Susanne V.;Sander, Jil;Draffehn, Astrid;Krebs, Wolfgang;Quester, Inga;De Nardo, Dominic;Gohel, Trupti D.;Emde, Martina;Schmidleithner, Lisa;Ganesan, Hariharasudan;Nino-Castro, Andrea;Mallmann, Michael R.;Labzin, Larisa;Theis, Heidi;Kraut, Michael;Beyer, Marc;Latz, Eicke;Freeman, Tom C.;Ulas, Thomas;Schultze, Joachim L.
通讯作者：
Schultze, Joachim L.