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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:

GeneCompass: Deciphering Universal Gene Regulatory Mechanisms with Knowledge-Informed Cross-Species Foundation Model
Xiaodong Yang, Guole Liu, Guihai Feng, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2023)
Open Access | Times Cited: 21

Showing 21 citing articles:

Profiling cell identity and tissue architecture with single-cell and spatial transcriptomics
Gunsagar S. Gulati, Jeremy Philip D’Silva, Yunhe Liu, et al.
Nature Reviews Molecular Cell Biology (2024) Vol. 26, Iss. 1, pp. 11-31
Closed Access | Times Cited: 27
A Comprehensive Review on Synergy of Multi-Modal Data and AI Technologies in Medical Diagnosis
Xi Xu, Jianqiang Li, Zhichao Zhu, et al.
Bioengineering (2024) Vol. 11, Iss. 3, pp. 219-219
Open Access | Times Cited: 26
Transformers in single-cell omics: a review and new perspectives
Artur Szałata, Karin Hrovatin, Sören Becker, et al.
Nature Methods (2024) Vol. 21, Iss. 8, pp. 1430-1443
Closed Access | Times Cited: 21
Assessing the limits of zero-shot foundation models in single-cell biology
Katarzyna Kedzierska, Lorin Crawford, Ava P. Amini, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2023)
Open Access | Times Cited: 29
Evaluating the Utilities of Foundation Models in Single-cell Data Analysis
Tianyu Liu, Kexing Li, Yuge Wang, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2023)
Open Access | Times Cited: 17
Current opinions on large cellular models
Minsheng Hao, Lei Wei, Fan Yang, et al.
Quantitative Biology (2024) Vol. 12, Iss. 4, pp. 433-443
Open Access | Times Cited: 5
Parameter-Efficient Fine-Tuning Enhances Adaptation of Single Cell Large Language Model for Cell Type Identification
Fei He, Ruixin Fei, Mingyue Gao, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 4
Advances and applications in single-cell and spatial genomics
Jingjing Wang, Fang Ye, Haoxi Chai, et al.
Science China Life Sciences (2024)
Closed Access | Times Cited: 4
The piRNA protein Asz1 is essential for germ cell and gonad development in zebrafish and exhibits differential necessities in distinct types of germ granules
Adam Ahmad, Yoel Bogoch, Gal Shvaizer, et al.
PLoS Genetics (2025) Vol. 21, Iss. 1, pp. e1010868-e1010868
Open Access
GeneBag: training a cell foundation model for broad-spectrum cancer diagnosis and prognosis with bulk RNA-seq data
Kun Tang, Yuhu Liang, Dan Li, et al.
Research Square (Research Square) (2025)
Open Access
How do Large Language Models understand Genes and Cells
Chen Fang, Yidong Wang, Yunze Song, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 2
Cell-Graph Compass: Modeling Single Cells with Graph Structure Foundation Model
Chen Fang, Zhilong Hu, Shaole Chang, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 1
CellFM: a large-scale foundation model pre-trained on transcriptomics of 100 million human cells
Yuansong Zeng, Jiancong Xie, Zhuoyi Wei, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access
GeneBag: training a cell foundation model for broad-spectrum cancer diagnosis and prognosis with bulk RNA-seq data
Yuhu Liang, Dan Li, Aguix Guohua Xu, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Closed Access
How do Large Language Models understand Genes and Cells
Chen Fang, Yidong Wang, Yunze Song, et al.
ACM Transactions on Intelligent Systems and Technology (2024)
Open Access
AttentionPert: Accurately Modeling Multiplexed Genetic Perturbations with Multi-scale Effects
Ding Bai, Caleb N. Ellington, Shentong Mo, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access
scEMB: Learning context representation of genes based on large-scale single-cell transcriptomics
Kang‐Lin Hsieh, Chu Yan, Xiaoyang Li, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access
scCompass: An integrated cross-species scRNA-seq database for AI-ready
Pengfei Wang, Wenhao Liu, Jiajia Wang, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access
BioLLM: A Standardized Framework for Integrating and Benchmarking Single-Cell Foundation Models
Ping Qiu, Qian Qian Chen, Hua Qin, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access
Scaling Dense Representations for Single Cell with Transcriptome-Scale Context
Nicholas Ho, Caleb N. Ellington, Jing Hou, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access
Cross-modal Generation of Hit-like Molecules via Foundation Model Encoding of Gene Expression Signatures
Jiabei Cheng, Xiaoyong Pan, Yi Fang, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2023)
Open Access | Times Cited: 1
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