Tutorial: guidelines for annotating single-cell transcriptomic maps using automated and manual methods.

Autor: Clarke ZA; Department of Molecular Genetics, University of Toronto, Toronto, Ontario, Canada.; The Donnelly Centre, University of Toronto, Toronto, Ontario, Canada., Andrews TS; The Donnelly Centre, University of Toronto, Toronto, Ontario, Canada.; Ajmera Transplant Centre, Toronto General Hospital Research Institute, Toronto, Ontario, Canada.; Department of Immunology, University of Toronto, Toronto, Ontario, Canada., Atif J; Ajmera Transplant Centre, Toronto General Hospital Research Institute, Toronto, Ontario, Canada.; Department of Immunology, University of Toronto, Toronto, Ontario, Canada., Pouyabahar D; Department of Molecular Genetics, University of Toronto, Toronto, Ontario, Canada.; The Donnelly Centre, University of Toronto, Toronto, Ontario, Canada., Innes BT; Department of Molecular Genetics, University of Toronto, Toronto, Ontario, Canada.; The Donnelly Centre, University of Toronto, Toronto, Ontario, Canada., MacParland SA; Ajmera Transplant Centre, Toronto General Hospital Research Institute, Toronto, Ontario, Canada. s.macparland@utoronto.ca.; Department of Immunology, University of Toronto, Toronto, Ontario, Canada. s.macparland@utoronto.ca.; Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, Ontario, Canada. s.macparland@utoronto.ca., Bader GD; Department of Molecular Genetics, University of Toronto, Toronto, Ontario, Canada. gary.bader@utoronto.ca.; The Donnelly Centre, University of Toronto, Toronto, Ontario, Canada. gary.bader@utoronto.ca.; Department of Computer Science, University of Toronto, Toronto, Ontario, Canada. gary.bader@utoronto.ca.; Lunenfeld-Tanenbaum Research Institute, Toronto, Ontario, Canada. gary.bader@utoronto.ca.

Publikováno v: Nature protocols [Nat Protoc] 2021 Jun; Vol. 16 (6), pp. 2749-2764. Date of Electronic Publication: 2021 May 24.

Knowledge-based inductive bias and domain adaptation for cell type annotation.

Autor: Tang, Zhenchao^1,2 (AUTHOR), Chen, Guanxing^1,2 (AUTHOR), Chen, Shouzhi^1,2 (AUTHOR), He, Haohuai^1,3 (AUTHOR), You, Linlin¹ (AUTHOR) youllin@mail.sysu.edu.cn, Chen, Calvin Yu-Chian^2,4,5,6,7 (AUTHOR) cy@pku.edu.cn

Publikováno v: Communications Biology. 11/5/2024, Vol. 7 Issue 1, p1-10. 10p.

Unbiasedly decoding the tumor microenvironment with single-cell multiomics analysis in pancreatic cancer.

Autor: Fu, Yifan^1,2 (AUTHOR), Tao, Jinxin¹ (AUTHOR), Liu, Tao¹ (AUTHOR), Liu, Yueze¹ (AUTHOR), Qiu, Jiangdong¹ (AUTHOR), Su, Dan¹ (AUTHOR), Wang, Ruobing¹ (AUTHOR), Luo, Wenhao¹ (AUTHOR), Cao, Zhe¹ (AUTHOR), Weng, Guihu¹ (AUTHOR), Zhang, Taiping^1,3 (AUTHOR) tpingzhang@yahoo.com, Zhao, Yupei¹ (AUTHOR) zhao8028@263.net

Publikováno v: Molecular Cancer. 7/9/2024, Vol. 23 Issue 1, p1-22. 22p.

MOI is a comprehensive database collecting processed multi-omics data associated with viral infection.

Autor: Guo, Xuefei¹ (AUTHOR) guoxf2025@163.com, Zhao, Yang¹ (AUTHOR), You, Fuping¹ (AUTHOR)

Publikováno v: Scientific Reports. 6/26/2024, Vol. 14 Issue 1, p1-11. 11p.

scMMT: a multi-use deep learning approach for cell annotation, protein prediction and embedding in single-cell RNA-seq data.

Autor: Zhou, Songqi^1,2 (AUTHOR), Li, Yang^1,2,3 (AUTHOR), Wu, Wenyuan^1,2 (AUTHOR) lili@cigit.ac.cn, Li, Li^1,2 (AUTHOR) lili@cigit.ac.cn

Publikováno v: Briefings in Bioinformatics. Mar2024, Vol. 25 Issue 2, p1-12. 12p.