Current best practices in single-cell RNA-seq analysis: a tutorial.
作者： Malte D Luecken , Fabian J Theis
关键词:
摘要: … In recent years, single-cell RNA sequencing (scRNA-seq) has … , a barrier of entry for novices in single-cell data analysis is the … In this paper, we present a tutorial for scRNA-seq analysis …
sci-hub.se 参考文章(139)
Adam L. Haber, Moshe Biton, Noga Rogel, Rebecca H. Herbst, Karthik Shekhar, Christopher Smillie, Grace Burgin, Toni M. Delorey, Michael R. Howitt, Yarden Katz, Itay Tirosh, Semir Beyaz, Danielle Dionne, Mei Zhang, Raktima Raychowdhury, Wendy S. Garrett, Orit Rozenblatt-Rosen, Hai Ning Shi, Omer Yilmaz, Ramnik J. Xavier, Aviv Regev, A single-cell survey of the small intestinal epithelium Nature. ,vol. 551, pp. 333- 339 ,(2017) , 10.1038/NATURE24489
Florian Buettner, Naruemon Pratanwanich, Davis J. McCarthy, John C. Marioni, Oliver Stegle, f-scLVM: scalable and versatile factor analysis for single-cell RNA-seq. Genome Biology. ,vol. 18, pp. 212- 212 ,(2017) , 10.1186/S13059-017-1334-8
Gregory B. Gloor, Jean M. Macklaim, Vera Pawlowsky-Glahn, Juan J. Egozcue, Microbiome Datasets Are Compositional: And This Is Not Optional. Frontiers in Microbiology. ,vol. 8, pp. 2224- 2224 ,(2017) , 10.3389/FMICB.2017.02224
Hyun Min Kang, Meena Subramaniam, Sasha Targ, Michelle Nguyen, Lenka Maliskova, Elizabeth McCarthy, Eunice Wan, Simon Wong, Lauren Byrnes, Cristina M Lanata, Rachel E Gate, Sara Mostafavi, Alexander Marson, Noah Zaitlen, Lindsey A Criswell, Chun Jimmie Ye, Multiplexed droplet single-cell RNA-sequencing using natural genetic variation Nature Biotechnology. ,vol. 36, pp. 89- 94 ,(2018) , 10.1038/NBT.4042
Kevin R. Moon, Jay S. Stanley, Daniel Burkhardt, David van Dijk, Guy Wolf, Smita Krishnaswamy, Manifold learning-based methods for analyzing single-cell RNA-sequencing data Current Opinion in Systems Biology. ,vol. 7, pp. 36- 46 ,(2018) , 10.1016/J.COISB.2017.12.008
Davide Risso, Fanny Perraudeau, Svetlana Gribkova, Sandrine Dudoit, Jean-Philippe Vert, A general and flexible method for signal extraction from single-cell RNA-seq data Nature Communications. ,vol. 9, pp. 284- ,(2018) , 10.1038/S41467-017-02554-5
Koen Van den Berge, Fanny Perraudeau, Charlotte Soneson, Michael I. Love, Davide Risso, Jean-Philippe Vert, Mark D. Robinson, Sandrine Dudoit, Lieven Clement, Observation weights unlock bulk RNA-seq tools for zero inflation and single-cell applications. Genome Biology. ,vol. 19, pp. 24- 24 ,(2018) , 10.1186/S13059-018-1406-4
Ayelet Alpert, Lindsay S Moore, Tania Dubovik, Shai S Shen-Orr, Alignment of single-cell trajectories to compare cellular expression dynamics. Nature Methods. ,vol. 15, pp. 267- 270 ,(2018) , 10.1038/NMETH.4628
Sarah Webb, Deep learning for biology Nature. ,vol. 554, pp. 555- 557 ,(2018) , 10.1038/D41586-018-02174-Z
Shun H Yip, Pak Chung Sham, Junwen Wang, Evaluation of tools for highly variable gene discovery from single-cell RNA-seq data. Briefings in Bioinformatics. ,vol. 20, pp. 1583- 1589 ,(2019) , 10.1093/BIB/BBY011