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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:

Gene regulatory network inference resources: A practical overview
Daniele Mercatelli, Laura Scalambra, Luca Triboli, et al.
Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms (2019) Vol. 1863, Iss. 6, pp. 194430-194430
Closed Access | Times Cited: 134

Showing 1-25 of 134 citing articles:

Histone Deacetylases (HDACs): Evolution, Specificity, Role in Transcriptional Complexes, and Pharmacological Actionability
Giorgio Milazzo, Daniele Mercatelli, Giulia Di Muzio, et al.
Genes (2020) Vol. 11, Iss. 5, pp. 556-556
Open Access | Times Cited: 272
Master Regulator Analysis of the SARS-CoV-2/Human Interactome
Pietro Hiram Guzzi, Daniele Mercatelli, Carmine Ceraolo, et al.
Journal of Clinical Medicine (2020) Vol. 9, Iss. 4, pp. 982-982
Open Access | Times Cited: 198
Gene regulatory network inference in the era of single-cell multi-omics
Pau Badia-i-Mompel, Lorna Wessels, Sophia Müller‐Dott, et al.
Nature Reviews Genetics (2023) Vol. 24, Iss. 11, pp. 739-754
Closed Access | Times Cited: 189
RSAT 2022: regulatory sequence analysis tools
Walter Santana-Garcia, Jaime A. Castro-Mondragón, Mónica Padilla-Gálvez, et al.
Nucleic Acids Research (2022) Vol. 50, Iss. W1, pp. W670-W676
Open Access | Times Cited: 96
A comprehensive overview and critical evaluation of gene regulatory network inference technologies
Mengyuan Zhao, Wenying He, Jijun Tang, et al.
Briefings in Bioinformatics (2021) Vol. 22, Iss. 5
Closed Access | Times Cited: 91
Gene regulatory network reconstruction: harnessing the power of single-cell multi-omic data
Daniel Kim, Andy Tran, Hani Jieun Kim, et al.
npj Systems Biology and Applications (2023) Vol. 9, Iss. 1
Open Access | Times Cited: 37
Interpretable AI for inference of causal molecular relationships from omics data
Payam Dibaeinia, Abhishek Ojha, Saurabh Sinha
Science Advances (2025) Vol. 11, Iss. 7
Open Access | Times Cited: 1
corto: a lightweight R package for gene network inference and master regulator analysis
Daniele Mercatelli, Gonzalo López, Federico M. Giorgi
Bioinformatics (2020) Vol. 36, Iss. 12, pp. 3916-3917
Open Access | Times Cited: 67
Interpretation of network-based integration from multi-omics longitudinal data
Antoine Bodein, Marie‐Pier Scott‐Boyer, Olivier Périn, et al.
Nucleic Acids Research (2021) Vol. 50, Iss. 5, pp. e27-e27
Open Access | Times Cited: 47
NSRGRN: a network structure refinement method for gene regulatory network inference
Wei Liu, Yu Yang, Xu Lu, et al.
Briefings in Bioinformatics (2023) Vol. 24, Iss. 3
Closed Access | Times Cited: 18
scGREAT: Transformer-based deep-language model for gene regulatory network inference from single-cell transcriptomics
Yuchen Wang, Xingjian Chen, Zetian Zheng, et al.
iScience (2024) Vol. 27, Iss. 4, pp. 109352-109352
Open Access | Times Cited: 7
An optimal Bayesian intervention policy in response to unknown dynamic cell stimuli
S. H. R. Hosseini, Mahdi Imani
Information Sciences (2024) Vol. 666, pp. 120440-120440
Closed Access | Times Cited: 7
Exploring the Molecular Terrain: A Survey of Analytical Methods for Biological Network Analysis
Trong-The Nguyen, Thi-Kien Dao, Duc-Tinh Pham, et al.
Symmetry (2024) Vol. 16, Iss. 4, pp. 462-462
Open Access | Times Cited: 7
Advancing microbiota therapeutics: the role of synthetic biology in engineering microbial communities for precision medicine
Asiya Nazir, Fathima Hasnain Nadeem Hussain, Afsheen Raza
Frontiers in Bioengineering and Biotechnology (2024) Vol. 12
Open Access | Times Cited: 7
Single‐Cell Integration Analysis of Heterotopic Ossification and Fibrocartilage Developmental Lineage: Endoplasmic Reticulum Stress Effector Xbp1 Transcriptionally Regulates the Notch Signaling Pathway to Mediate Fibrocartilage Differentiation
Yisheng Chen, Yaying Sun, Yuzhen Xu, et al.
Oxidative Medicine and Cellular Longevity (2021) Vol. 2021, Iss. 1
Open Access | Times Cited: 33
Network modeling predicts personalized gene expression and drug responses in valve myofibroblasts cultured with patient sera
Jesse D. Rogers, Brian A. Aguado, Kelsey Watts, et al.
Proceedings of the National Academy of Sciences (2022) Vol. 119, Iss. 8
Open Access | Times Cited: 24
From time-series transcriptomics to gene regulatory networks: A review on inference methods
Malvina Marku, Véra Pancaldi
PLoS Computational Biology (2023) Vol. 19, Iss. 8, pp. e1011254-e1011254
Open Access | Times Cited: 16
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: 14
PMF-GRN: a variational inference approach to single-cell gene regulatory network inference using probabilistic matrix factorization
Claudia Skok Gibbs, Omar Mahmood, Richard Bonneau, et al.
Genome biology (2024) Vol. 25, Iss. 1
Open Access | Times Cited: 6
The use of machine learning to discover regulatory networks controlling biological systems
Rossin Erbe, Jessica Gore, Kelly Gemmill, et al.
Molecular Cell (2022) Vol. 82, Iss. 2, pp. 260-273
Open Access | Times Cited: 22
NSCGRN: a network structure control method for gene regulatory network inference
Wei Liu, Xingen Sun, Li Yang, et al.
Briefings in Bioinformatics (2022) Vol. 23, Iss. 5
Closed Access | Times Cited: 20
Phenotypic heterogeneity in human genetic diseases: ultrasensitivity-mediated threshold effects as a unifying molecular mechanism
Y. Henry Sun, Yueh-Lin Wu, Ben‐Yang Liao
Journal of Biomedical Science (2023) Vol. 30, Iss. 1
Open Access | Times Cited: 12
Master Regulator Analysis of the SARS-CoV-2/Human interactome
Pietro Hiram Guzzi, Daniele Mercatelli, Carmine Ceraolo, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2020)
Open Access | Times Cited: 29
BioBERT based text mining for incorporating prior knowledge in the inference of genetic network models
Jaskaran Gill, Madhu Chetty, Suryani Lim, et al.
Computers in Biology and Medicine (2025) Vol. 186, pp. 109623-109623
Open Access
Inference of a three-gene network underpinning epidermal stem cell development in Caenorhabditis elegans
Alicja Brożek, Arianna Ceccarelli, Andreas Christ Sølvsten Jørgensen, et al.
iScience (2025) Vol. 28, Iss. 2, pp. 111826-111826
Open Access
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