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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:

Bento: a toolkit for subcellular analysis of spatial transcriptomics data
Clarence K. Mah, Noorsher Ahmed, Nicole A. Lopez, et al.
Genome biology (2024) Vol. 25, Iss. 1
Open Access | Times Cited: 25

Showing 25 citing articles:

Integrative multi-omics and systems bioinformatics in translational neuroscience: A data mining perspective
Lance M. O’Connor, Blake A. O’Connor, Su Bin Lim, et al.
Journal of Pharmaceutical Analysis (2023) Vol. 13, Iss. 8, pp. 836-850
Open Access | Times Cited: 47
Spatiotemporal modeling of molecular holograms
Xiaojie Qiu, Daniel Y. Zhu, Yifan Lu, et al.
Cell (2024)
Open Access | Times Cited: 13
Resource allocation in mammalian systems
Hratch Baghdassarian, Nathan E. Lewis
Biotechnology Advances (2024) Vol. 71, pp. 108305-108305
Open Access | Times Cited: 5
FISHFactor: a probabilistic factor model for spatial transcriptomics data with subcellular resolution
Florin C. Walter, Oliver Stegle, Britta Velten
Bioinformatics (2023) Vol. 39, Iss. 5
Open Access | Times Cited: 15
RNA trafficking and subcellular localization—a review of mechanisms, experimental and predictive methodologies
Jun Wang, Marc Horlacher, Lixin Cheng, et al.
Briefings in Bioinformatics (2023) Vol. 24, Iss. 5
Open Access | Times Cited: 14
Subcellular spatially resolved gene neighborhood networks in single cells
Fang Zhou, Adam J. Ford, Thomas Hu, et al.
Cell Reports Methods (2023) Vol. 3, Iss. 5, pp. 100476-100476
Open Access | Times Cited: 13
UCS: A Unified Approach to Cell Segmentation for Subcellular Spatial Transcriptomics
Yuheng Chen, Xinyue Xu, Xiaomeng Wan, et al.
Small Methods (2025)
Open Access
CellSP: Module discovery and visualization for subcellular spatial transcriptomics data
Bhavay Aggarwal, Saurabh Sinha
bioRxiv (Cold Spring Harbor Laboratory) (2025)
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
Graph-based 3D spatial gene neighborhood networks of single cells in gels and tissues
Zhou Fang, Kelsey Krusen, Henry D. Priest, et al.
BME Frontiers (2025) Vol. 6
Open Access
Single-cell genomics and spatial transcriptomics in islet transplantation for diabetes treatment: advancing towards personalized therapies
Lisha Mou, Tony Bowei Wang, Yuxian Chen, et al.
Frontiers in Immunology (2025) Vol. 16
Open Access
Simultaneous analysis of single-cell gene expression and morphology provides new insight into how microglia change with age
Douglas E. Henze, Andy P. Tsai, Tony Wyss‐Coray, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2025)
Closed Access
Spaco: A comprehensive tool for coloring spatial data at single-cell resolution
Zehua Jing, Qianhua Zhu, Linxuan Li, et al.
Patterns (2024) Vol. 5, Iss. 3, pp. 100915-100915
Open Access | Times Cited: 3
Points2Regions: Fast, interactive clustering of imaging‐based spatial transcriptomics data
Axel Andersson, Andrea Beháňová, Christophe Avenel, et al.
Cytometry Part A (2024) Vol. 105, Iss. 9, pp. 677-687
Open Access | Times Cited: 3
Intracellular Spatial Transcriptomic Analysis Toolkit (InSTAnT)
Anurendra Kumar, Alex Schrader, Ali Ebrahimpour Boroojeny, et al.
Research Square (Research Square) (2023)
Open Access | Times Cited: 6
Bering:joint cell segmentation and annotation for spatial transcriptomics with transferred graph embeddings
Kang Jin, Zuobai Zhang, Ke Zhang, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2023)
Open Access | Times Cited: 6
Inferring Stochastic Rates from Heterogeneous Snapshots of Particle Positions
Christopher E. Miles, Scott A. McKinley, Fangyuan Ding, et al.
Bulletin of Mathematical Biology (2024) Vol. 86, Iss. 6
Closed Access | Times Cited: 1
Advances in targeting cancer-associated fibroblasts through single-cell spatial transcriptomic sequencing
Pin Lyu, Xiaoming Gu, Fuqi Wang, et al.
Biomarker Research (2024) Vol. 12, Iss. 1
Open Access | Times Cited: 1
ELLA: Modeling Subcellular Spatial Variation of Gene Expression within Cells in High-Resolution Spatial Transcriptomics.
Jade Xiaoqing Wang, Xiang Zhou
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Closed Access | Times Cited: 1
MuSpAn: A Toolbox for Multiscale Spatial Analysis
Joshua A. Bull, Joshua W. Moore, Eoghan J. Mulholland, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access
UCS: a unified approach to cell segmentation for subcellular spatial transcriptomics
Yuheng Chen, Xin Xu, Xiaomeng Wan, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Closed Access
Integrated Biochemical and Computational Methods for Deciphering RNA‐Processing Codes
Chen Du, Weiliang Fan, Yu Zhou
Wiley Interdisciplinary Reviews - RNA (2024) Vol. 15, Iss. 6
Closed Access
Homebuilt Imaging-Based Spatial Transcriptomics: Tertiary Lymphoid Structures as a Case Example
Thomas Defard, Auxence Desrentes, Charles Fouillade, et al.
Methods in molecular biology (2024), pp. 77-105
Closed Access
Statistical analysis supports pervasive RNA subcellular localization and alternative 3’ UTR regulation
Rob Bierman, Jui M. Dave, Daniel M. Greif, et al.
eLife (2023) Vol. 12
Open Access
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