CiteFuse enables multi-modal analysis of CITE-seq data.

作者: Hani Jieun Kim , Yingxin Lin , Thomas A Geddes , Jean Yee Hwa Yang , Pengyi Yang

DOI: 10.1093/BIOINFORMATICS/BTAA282

关键词:

摘要: … -modal analysis using CiteFuse observed from the simulation study translates into real-world data analysis, we … We show that clustering using CiteFuse on multi-modal data and directly …

参考文章(32)
Tamás Nepusz, Gábor Csárdi, The igraph software package for complex network research InterJournal Complex Systems. ,vol. 1695, ,(2006)
Eli R Zunder, Rachel Finck, Gregory K Behbehani, El-ad D Amir, Smita Krishnaswamy, Veronica D Gonzalez, Cynthia G Lorang, Zach Bjornson, Matthew H Spitzer, Bernd Bodenmiller, Wendy J Fantl, Dana Pe'er, Garry P Nolan, Palladium-based mass tag cell barcoding with a doublet-filtering scheme and single-cell deconvolution algorithm Nature Protocols. ,vol. 10, pp. 316- 333 ,(2015) , 10.1038/NPROT.2015.020
Bo Wang, Aziz M Mezlini, Feyyaz Demir, Marc Fiume, Zhuowen Tu, Michael Brudno, Benjamin Haibe-Kains, Anna Goldenberg, Similarity network fusion for aggregating data types on a genomic scale Nature Methods. ,vol. 11, pp. 333- 337 ,(2014) , 10.1038/NMETH.2810
Florian Buettner, Kedar N Natarajan, F Paolo Casale, Valentina Proserpio, Antonio Scialdone, Fabian J Theis, Sarah A Teichmann, John C Marioni, Oliver Stegle, Computational analysis of cell-to-cell heterogeneity in single-cell RNA-sequencing data reveals hidden subpopulations of cells Nature Biotechnology. ,vol. 33, pp. 155- 160 ,(2015) , 10.1038/NBT.3102
Rahul Satija, Jeffrey A Farrell, David Gennert, Alexander F Schier, Aviv Regev, Spatial reconstruction of single-cell gene expression data Nature Biotechnology. ,vol. 33, pp. 495- 502 ,(2015) , 10.1038/NBT.3192
Iain C Macaulay, Wilfried Haerty, Parveen Kumar, Yang I Li, Tim Xiaoming Hu, Mabel J Teng, Mubeen Goolam, Nathalie Saurat, Paul Coupland, Lesley M Shirley, Miriam Smith, Niels Van der Aa, Ruby Banerjee, Peter D Ellis, Michael A Quail, Harold P Swerdlow, Magdalena Zernicka-Goetz, Frederick J Livesey, Chris P Ponting, Thierry Voet, G&T-seq: parallel sequencing of single-cell genomes and transcriptomes Nature Methods. ,vol. 12, pp. 519- 522 ,(2015) , 10.1038/NMETH.3370
W. N. Haining, Jill Angelosanto, Kathleen Brosnahan, Kenneth Ross, Cynthia Hahn, Kate Russell, Linda Drury, Stephanie Norton, Lee Nadler, Kimberly Stegmaier, High-throughput gene expression profiling of memory differentiation in primary human T cells BMC Immunology. ,vol. 9, pp. 44- 44 ,(2008) , 10.1186/1471-2172-9-44
Yoav Benjamini, Yosef Hochberg, Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing Journal of the Royal Statistical Society: Series B (Methodological). ,vol. 57, pp. 289- 300 ,(1995) , 10.1111/J.2517-6161.1995.TB02031.X
Marcus Gry, Rebecca Rimini, Sara Strömberg, Anna Asplund, Fredrik Pontén, Mathias Uhlén, Peter Nilsson, Correlations between RNA and protein expression profiles in 23 human cell lines. BMC Genomics. ,vol. 10, pp. 365- 365 ,(2009) , 10.1186/1471-2164-10-365
Aaron T.L. Lun, Davis J. McCarthy, John C. Marioni, A step-by-step workflow for low-level analysis of single-cell RNA-seq data with Bioconductor. F1000Research. ,vol. 5, pp. 2122- 2122 ,(2016) , 10.12688/F1000RESEARCH.9501.2