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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:

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

Showing 1-25 of 70 citing articles:

STOmicsDB: a comprehensive database for spatial transcriptomics data sharing, analysis and visualization
Zhicheng Xu, Weiwen Wang, Tao Yang, et al.
Nucleic Acids Research (2023) Vol. 52, Iss. D1, pp. D1053-D1061
Open Access | Times Cited: 59
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: 53
SpatialData: an open and universal data framework for spatial omics
Luca Marconato, Giovanni Palla, Kevin A. Yamauchi, et al.
Nature Methods (2024)
Open Access | Times Cited: 53
Spatiotemporal omics for biology and medicine
Longqi Liu, Ao Chen, Yuxiang Li, et al.
Cell (2024) Vol. 187, Iss. 17, pp. 4488-4519
Closed Access | Times Cited: 27
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
The Web-Based Portal SpatialTME Integrates Histological Images with Single-Cell and Spatial Transcriptomics to Explore the Tumor Microenvironment
Jintong Shi, Xia Wei, Zhenzhen Xun, et al.
Cancer Research (2024) Vol. 84, Iss. 8, pp. 1210-1220
Open Access | Times Cited: 19
A single-cell and spatial RNA-seq database for Alzheimer’s disease (ssREAD)
Cankun Wang, Diana Acosta, Megan E. McNutt, et al.
Nature Communications (2024) Vol. 15, Iss. 1
Open Access | Times Cited: 19
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
Spatial transcriptomics: a new frontier in cancer research
Siyuan Huang, Linkun Ouyang, Junjie Tang, et al.
Clinical Cancer Bulletin (2024) Vol. 3, Iss. 1
Open Access | Times Cited: 7
VT3D: a visualization toolbox for 3D transcriptomic data
Lidong Guo, Yao Li, Yanwei Qi, et al.
Journal of genetics and genomics/Journal of Genetics and Genomics (2023) Vol. 50, Iss. 9, pp. 713-719
Open Access | Times Cited: 13
Giotto Suite: a multi-scale and technology-agnostic spatial multi-omics analysis ecosystem
Jiaji George Chen, Joselyn Cristina Chávez-Fuentes, Matthew O’Brien, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2023)
Open Access | Times Cited: 13
Spatial omics techniques and data analysis for cancer immunotherapy applications
Yanlong Zhang, Ren Yuan Lee, Chin Wee Tan, et al.
Current Opinion in Biotechnology (2024) Vol. 87, pp. 103111-103111
Closed Access | Times Cited: 5
SCAR: Single-cell and Spatially-resolved Cancer Resources
Yushan Deng, Peixin Chen, Jiedan Xiao, et al.
Nucleic Acids Research (2023) Vol. 52, Iss. D1, pp. D1407-D1417
Open Access | Times Cited: 12
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
STellaris: a web server for accurate spatial mapping of single cells based on spatial transcriptomics data
Xiangshang Li, Chunfu Xiao, Juntian Qi, et al.
Nucleic Acids Research (2023) Vol. 51, Iss. W1, pp. W560-W568
Open Access | Times Cited: 11
A practical guide to spatial transcriptomics
Lukás Valihrach, Daniel Žucha, Pavel Abaffy, et al.
Molecular Aspects of Medicine (2024) Vol. 97, pp. 101276-101276
Closed Access | Times Cited: 4
A multi-view graph contrastive learning framework for deciphering spatially resolved transcriptomics data
Lei Zhang, Shu Liang, Lin Wan
Briefings in Bioinformatics (2024) Vol. 25, Iss. 4
Open Access | Times Cited: 4
Dimension reduction, cell clustering, and cell–cell communication inference for single-cell transcriptomics with DcjComm
Qian Ding, Wenyi Yang, Guangfu Xue, et al.
Genome biology (2024) Vol. 25, Iss. 1
Open Access | Times Cited: 4
A practical guide to FAIR data management in the age of multi-OMICS and AI
Douaa Mugahid, Joyce Lyon, Charlie Demurjian, et al.
Frontiers in Immunology (2025) Vol. 15
Open Access
SpaGraphCCI: Spatial cell–cell communication inference through GAT‐based co‐convolutional feature integration
Han Zhang, Ting Cui, Xiaoqiang Xu, et al.
IET Systems Biology (2025) Vol. 19, Iss. 1
Open Access
Towards deciphering the bone marrow microenvironment with spatial multi-omics
Raymond K. H. Yip, Edwin D. Hawkins, Bowden Rory, et al.
Seminars in Cell and Developmental Biology (2025) Vol. 167, pp. 10-21
Closed Access
Identification and characterization of cell niches in tissue from spatial omics data at single-cell resolution
Jingyang Qian, Xin Shao, Hudong Bao, et al.
Nature Communications (2025) Vol. 16, Iss. 1
Open Access
STExplore: An Integrated Online Platform for Comprehensive Analysis and Visualization of Spatial Transcriptomics Data
Yongtian Wang, Jintian Luo, Shaoqing Jiao, et al.
Small Methods (2025)
Closed Access
MuCST: restoring and integrating heterogeneous morphology images and spatial transcriptomics data with contrastive learning
Yu Wang, Zaiyi Liu, Xiaoke Ma
Genome Medicine (2025) Vol. 17, Iss. 1
Open Access
Graph neural networks for single-cell omics data: a review of approaches and applications
Shiming Li, Heyang Hua, Shengquan Chen
Briefings in Bioinformatics (2025) Vol. 26, Iss. 2
Open Access
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