Evaluating spatially variable gene detection methods for spatial transcriptomics data

被引：0
|
作者：
Carissa Chen
Hani Jieun Kim
Pengyi Yang
机构：
[1] Children’s Medical Research Institute,Computational Systems Biology Group, Faculty of Medicine and Health
[2] The University of Sydney,School of Mathematics and Statistics
[3] The University of Sydney,Charles Perkins Centre
[4] The University of Sydney,undefined
来源：
Genome Biology | / 25卷
关键词：
D O I：
暂无
中图分类号：
学科分类号：
摘要：
引用
收藏
相关论文
共 50 条
  • [1] Evaluating spatially variable gene detection methods for spatial transcriptomics data
    Chen, Carissa
    Kim, Hani Jieun
    Yang, Pengyi
    [J]. GENOME BIOLOGY, 2024, 25 (01)
  • [2] Recent advances in spatially variable gene detection in spatial transcriptomics
    Adhikari, Sikta Das
    Yang, Jiaxin
    Wang, Jianrong
    Cui, Yuehua
    [J]. COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL, 2024, 23 : 883 - 891
  • [3] Disparities in spatially variable gene calling highlight the need for benchmarking spatial transcriptomics methods
    Natalie Charitakis
    Agus Salim
    Adam T. Piers
    Kevin I. Watt
    Enzo R. Porrello
    David A. Elliott
    Mirana Ramialison
    [J]. Genome Biology, 24
  • [4] Disparities in spatially variable gene calling highlight the need for benchmarking spatial transcriptomics methods
    Charitakis, Natalie
    Salim, Agus
    Piers, Adam T.
    Watt, Kevin I.
    Porrello, Enzo R.
    Elliott, David A.
    Ramialison, Mirana
    [J]. GENOME BIOLOGY, 2023, 24 (01)
  • [5] Benchmarking spatial clustering methods with spatially resolved transcriptomics data
    Zhiyuan Yuan
    Fangyuan Zhao
    Senlin Lin
    Yu Zhao
    Jianhua Yao
    Yan Cui
    Xiao-Yong Zhang
    Yi Zhao
    [J]. Nature Methods, 2024, 21 : 712 - 722
  • [6] Benchmarking spatial clustering methods with spatially resolved transcriptomics data
    Yuan, Zhiyuan
    Zhao, Fangyuan
    Lin, Senlin
    Zhao, Yu
    Yao, Jianhua
    Cui, Yan
    Zhang, Xiao-Yong
    Zhao, Yi
    [J]. NATURE METHODS, 2024, 21 (04) : 712 - 722
  • [7] PROST: quantitative identification of spatially variable genes and domain detection in spatial transcriptomics
    Yuchen Liang
    Guowei Shi
    Runlin Cai
    Yuchen Yuan
    Ziying Xie
    Long Yu
    Yingjian Huang
    Qian Shi
    Lizhe Wang
    Jun Li
    Zhonghui Tang
    [J]. Nature Communications, 15
  • [8] PROST: quantitative identification of spatially variable genes and domain detection in spatial transcriptomics
    Liang, Yuchen
    Shi, Guowei
    Cai, Runlin
    Yuan, Yuchen
    Xie, Ziying
    Yu, Long
    Huang, Yingjian
    Shi, Qian
    Wang, Lizhe
    Li, Jun
    Tang, Zhonghui
    [J]. NATURE COMMUNICATIONS, 2024, 15 (01)
  • [9] A Bayesian modified Ising model for identifying spatially variable genes from spatial transcriptomics data
    Jiang, Xi
    Xiao, Guanghua
    Li, Qiwei
    [J]. STATISTICS IN MEDICINE, 2022, 41 (23) : 4647 - 4665
  • [10] Computational elucidation of spatial gene expression variation from spatially resolved transcriptomics data
    Li, Ke
    Yan, Congcong
    Li, Chenghao
    Chen, Lu
    Zhao, Jingting
    Zhang, Zicheng
    Bao, Siqi
    Sun, Jie
    Zhou, Meng
    [J]. MOLECULAR THERAPY-NUCLEIC ACIDS, 2022, 27 : 404 - 411
12345