The art of using t-SNE for single-cell transcriptomics
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DOI: 10.1038/s41467-019-13056-x
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- Rong Ma & Eric D. Sun & James Zou, 2023. "A spectral method for assessing and combining multiple data visualizations," Nature Communications, Nature, vol. 14(1), pages 1-14, December.
- Xu Han & Ben Vermaercke & Vincent Bonin, 2022. "Diversity of spatiotemporal coding reveals specialized visual processing streams in the mouse cortex," Nature Communications, Nature, vol. 13(1), pages 1-18, December.
- Kaiwen Wang & Yuqiu Yang & Fangjiang Wu & Bing Song & Xinlei Wang & Tao Wang, 2023. "Comparative analysis of dimension reduction methods for cytometry by time-of-flight data," Nature Communications, Nature, vol. 14(1), pages 1-18, December.
- Jakob Woerner & Yidi Huang & Stephan Hutter & Carmelo Gurnari & Jesús María Hernández Sánchez & Janet Wang & Yimin Huang & Daniel Schnabel & Michael Aaby & Wanying Xu & Vedant Thorat & Dongxu Jiang & , 2022. "Circulating microbial content in myeloid malignancy patients is associated with disease subtypes and patient outcomes," Nature Communications, Nature, vol. 13(1), pages 1-13, December.
- Ziyan Huang & Myung Chung & Kentaro Tao & Akiyuki Watarai & Mu-Yun Wang & Hiroh Ito & Teruhiro Okuyama, 2023. "Ventromedial prefrontal neurons represent self-states shaped by vicarious fear in male mice," Nature Communications, Nature, vol. 14(1), pages 1-16, December.
- Parashar Dhapola & Johan Rodhe & Rasmus Olofzon & Thomas Bonald & Eva Erlandsson & Shamit Soneji & Göran Karlsson, 2022. "Scarf enables a highly memory-efficient analysis of large-scale single-cell genomics data," Nature Communications, Nature, vol. 13(1), pages 1-14, December.
- Benjamin B. Sun & Stephanie J. Loomis & Fabrizio Pizzagalli & Natalia Shatokhina & Jodie N. Painter & Christopher N. Foley & Megan E. Jensen & Donald G. McLaren & Sai Spandana Chintapalli & Alyssa H. , 2022. "Genetic map of regional sulcal morphology in the human brain from UK biobank data," Nature Communications, Nature, vol. 13(1), pages 1-13, December.
- L. Mathur & B. Szalai & N. H. Du & R. Utharala & M. Ballinger & J. J. M. Landry & M. Ryckelynck & V. Benes & J. Saez-Rodriguez & C. A. Merten, 2022. "Combi-seq for multiplexed transcriptome-based profiling of drug combinations using deterministic barcoding in single-cell droplets," Nature Communications, Nature, vol. 13(1), pages 1-15, December.
- Lucy Xia & Christy Lee & Jingyi Jessica Li, 2024. "Statistical method scDEED for detecting dubious 2D single-cell embeddings and optimizing t-SNE and UMAP hyperparameters," Nature Communications, Nature, vol. 15(1), pages 1-21, December.
- Eva C. Freckmann & Emma Sandilands & Erin Cumming & Matthew Neilson & Alvaro Román-Fernández & Konstantina Nikolatou & Marisa Nacke & Tamsin R. M. Lannagan & Ann Hedley & David Strachan & Mark Salji &, 2022. "Traject3d allows label-free identification of distinct co-occurring phenotypes within 3D culture by live imaging," Nature Communications, Nature, vol. 13(1), pages 1-21, December.
- Lijun Cheng & Pratik Karkhanis & Birkan Gokbag & Yueze Liu & Lang Li, 2022. "DGCyTOF: Deep learning with graphic cluster visualization to predict cell types of single cell mass cytometry data," PLOS Computational Biology, Public Library of Science, vol. 18(4), pages 1-22, April.
- Zhiyuan Yuan & Yisi Li & Minglei Shi & Fan Yang & Juntao Gao & Jianhua Yao & Michael Q. Zhang, 2022. "SOTIP is a versatile method for microenvironment modeling with spatial omics data," Nature Communications, Nature, vol. 13(1), pages 1-19, December.
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