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OpenAlex Citation Counts

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OpenAlex is a bibliographic catalogue of scientific papers, authors and institutions accessible in open access mode, named after the Library of Alexandria. It's citation coverage is excellent and I hope you will find utility in this listing of citing articles!

If you click the article title, you'll navigate to the article, as listed in CrossRef. If you click the Open Access links, you'll navigate to the "best Open Access location". Clicking the citation count will open this listing for that article. Lastly at the bottom of the page, you'll find basic pagination options.

Requested Article:

Unsupervised Spatially Embedded Deep Representation of Spatial Transcriptomics
Huazhu Fu, Hang Xu, Kelvin Kian Long Chong, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2021)
Open Access | Times Cited: 78

Showing 1-25 of 78 citing articles:

Deciphering spatial domains from spatially resolved transcriptomics with an adaptive graph attention auto-encoder
Kangning Dong, Shihua Zhang
Nature Communications (2022) Vol. 13, Iss. 1
Open Access | Times Cited: 336
Spatially informed cell-type deconvolution for spatial transcriptomics
Ying Ma, Xiang Zhou
Nature Biotechnology (2022) Vol. 40, Iss. 9, pp. 1349-1359
Open Access | Times Cited: 277
Spatially informed clustering, integration, and deconvolution of spatial transcriptomics with GraphST
Yahui Long, Kok Siong Ang, Mengwei Li, et al.
Nature Communications (2023) Vol. 14, Iss. 1
Open Access | Times Cited: 229
DeepST: identifying spatial domains in spatial transcriptomics by deep learning
Chang Xu, Xiyun Jin, Songren Wei, et al.
Nucleic Acids Research (2022) Vol. 50, Iss. 22, pp. e131-e131
Open Access | Times Cited: 134
Cell clustering for spatial transcriptomics data with graph neural networks
Jiachen Li, Siheng Chen, Xiaoyong Pan, et al.
Nature Computational Science (2022) Vol. 2, Iss. 6, pp. 399-408
Closed Access | Times Cited: 118
Identifying multicellular spatiotemporal organization of cells with SpaceFlow
Honglei Ren, Benjamin L. Walker, Zixuan Cang, et al.
Nature Communications (2022) Vol. 13, Iss. 1
Open Access | Times Cited: 99
Deciphering tissue structure and function using spatial transcriptomics
Benjamin L. Walker, Zixuan Cang, Honglei Ren, et al.
Communications Biology (2022) Vol. 5, Iss. 1
Open Access | Times Cited: 72
SODB facilitates comprehensive exploration of spatial omics data
Zhiyuan Yuan, Wentao Pan, Xuan Zhao, et al.
Nature Methods (2023) Vol. 20, Iss. 3, pp. 387-399
Closed Access | Times Cited: 70
Integrating spatial transcriptomics data across different conditions, technologies and developmental stages
Xiang Zhou, Kangning Dong, Shihua Zhang
Nature Computational Science (2023) Vol. 3, Iss. 10, pp. 894-906
Open Access | Times Cited: 53
Benchmarking spatial clustering methods with spatially resolved transcriptomics data
Zhiyuan Yuan, Fangyuan Zhao, Senlin Lin, et al.
Nature Methods (2024) Vol. 21, Iss. 4, pp. 712-722
Closed Access | Times Cited: 52
CellCharter reveals spatial cell niches associated with tissue remodeling and cell plasticity
Marco Varrone, Daniele Tavernari, Albert Santamaria‐Martínez, et al.
Nature Genetics (2023) Vol. 56, Iss. 1, pp. 74-84
Open Access | Times Cited: 47
MENDER: fast and scalable tissue structure identification in spatial omics data
Zhiyuan Yuan
Nature Communications (2024) Vol. 15, Iss. 1
Open Access | Times Cited: 21
PROST: quantitative identification of spatially variable genes and domain detection in spatial transcriptomics
Yuchen Liang, Guowei Shi, Runlin Cai, et al.
Nature Communications (2024) Vol. 15, Iss. 1
Open Access | Times Cited: 16
conST: an interpretable multi-modal contrastive learning framework for spatial transcriptomics
Yongshuo Zong, Tingyang Yu, Xuesong Wang, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2022)
Open Access | Times Cited: 63
Spatial-ID: a cell typing method for spatially resolved transcriptomics via transfer learning and spatial embedding
Rongbo Shen, Lin Liu, Zihan Wu, et al.
Nature Communications (2022) Vol. 13, Iss. 1
Open Access | Times Cited: 50
SPIRAL: integrating and aligning spatially resolved transcriptomics data across different experiments, conditions, and technologies
Tiantian Guo, Zhiyuan Yuan, Yan Pan, et al.
Genome biology (2023) Vol. 24, Iss. 1
Open Access | Times Cited: 25
Single-cell omics: experimental workflow, data analyses and applications
Fengying Sun, Haoyan Li, Dongqing Sun, et al.
Science China Life Sciences (2024)
Closed Access | Times Cited: 10
Navigating the landscapes of spatial transcriptomics: How computational methods guide the way
Runze Li, Xu Chen, Xuerui Yang
Wiley Interdisciplinary Reviews - RNA (2024) Vol. 15, Iss. 2
Closed Access | Times Cited: 8
Define and visualize pathological architectures of human tissues from spatially resolved transcriptomics using deep learning
Yuzhou Chang, Fei He, Juexin Wang, et al.
Computational and Structural Biotechnology Journal (2022) Vol. 20, pp. 4600-4617
Open Access | Times Cited: 37
Spateo: multidimensional spatiotemporal modeling of single-cell spatial transcriptomics
Xiaojie Qiu, Daniel Y. Zhu, Jiajun Yao, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2022)
Open Access | Times Cited: 30
SOTIP is a versatile method for microenvironment modeling with spatial omics data
Zhiyuan Yuan, Yisi Li, Minglei Shi, et al.
Nature Communications (2022) Vol. 13, Iss. 1
Open Access | Times Cited: 29
Latent feature extraction with a prior-based self-attention framework for spatial transcriptomics
Zhen Li, Xiaoyang Chen, Xuegong Zhang, et al.
Genome Research (2023) Vol. 33, Iss. 10, pp. 1757-1773
Open Access | Times Cited: 21
Emerging artificial intelligence applications in Spatial Transcriptomics analysis
Yijun Li, Stefan Stanojevic, Lana X. Garmire
Computational and Structural Biotechnology Journal (2022) Vol. 20, pp. 2895-2908
Open Access | Times Cited: 26
Streamlining spatial omics data analysis with Pysodb
Senlin Lin, Fangyuan Zhao, Zihan Wu, et al.
Nature Protocols (2023) Vol. 19, Iss. 3, pp. 831-895
Closed Access | Times Cited: 12
Unveiling patterns in spatial transcriptomics data: a novel approach utilizing graph attention autoencoder and multiscale deep subspace clustering network
Liqian Zhou, Xinhuai Peng, Min Chen, et al.
GigaScience (2025) Vol. 14
Open Access
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