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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:

Multi-study inference of regulatory networks for more accurate models of gene regulation
Dayanne M. Castro, Nicholas R. de Veaux, Emily R. Miraldi, et al.
PLoS Computational Biology (2019) Vol. 15, Iss. 1, pp. e1006591-e1006591
Open Access | Times Cited: 65

Showing 1-25 of 65 citing articles:

Gene regulatory network reconstruction using single-cell RNA sequencing of barcoded genotypes in diverse environments
Christopher A. Jackson, Dayanne M. Castro, Giuseppe-Antonio Saldi, et al.
eLife (2020) Vol. 9
Open Access | Times Cited: 150
Network inference with Granger causality ensembles on single-cell transcriptomics
Atul Deshpande, Li‐Fang Chu, Ron Stewart, et al.
Cell Reports (2022) Vol. 38, Iss. 6, pp. 110333-110333
Open Access | Times Cited: 92
Inference of cell type-specific gene regulatory networks on cell lineages from single cell omic datasets
Shilu Zhang, Saptarshi Pyne, Stefan Pietrzak, et al.
Nature Communications (2023) Vol. 14, Iss. 1
Open Access | Times Cited: 61
Leveraging chromatin accessibility for transcriptional regulatory network inference in T Helper 17 Cells
Emily R. Miraldi, Maria Pokrovskii, Aaron Watters, et al.
Genome Research (2019) Vol. 29, Iss. 3, pp. 449-463
Open Access | Times Cited: 108
Genetic and epigenetic coordination of cortical interneuron development
Kathryn Allaway, Mariano I. Gabitto, Orly L. Wapinski, et al.
Nature (2021) Vol. 597, Iss. 7878, pp. 693-697
Open Access | Times Cited: 99
High-performance single-cell gene regulatory network inference at scale: the Inferelator 3.0
Claudia Skok Gibbs, Christopher A. Jackson, Giuseppe-Antonio Saldi, et al.
Bioinformatics (2022) Vol. 38, Iss. 9, pp. 2519-2528
Open Access | Times Cited: 50
Identifying strengths and weaknesses of methods for computational network inference from single-cell RNA-seq data
Sunnie Grace McCalla, Alireza Fotuhi Siahpirani, Jiaxin Li, et al.
G3 Genes Genomes Genetics (2023) Vol. 13, Iss. 3
Open Access | Times Cited: 34
Network modeling of single-cell omics data: challenges, opportunities, and progresses
Montgomery Blencowe, Douglas Arneson, Jessica Ding, et al.
Emerging Topics in Life Sciences (2019) Vol. 3, Iss. 4, pp. 379-398
Open Access | Times Cited: 58
Single cell gene regulatory networks in plants: Opportunities for enhancing climate change stress resilience
Rajiv Kumar Tripathi, Olivia Wilkins
Plant Cell & Environment (2021) Vol. 44, Iss. 7, pp. 2006-2017
Open Access | Times Cited: 52
Coordinated control of neuronal differentiation and wiring by sustained transcription factors
Mehmet Neset Özel, Claudia Skok Gibbs, Isabel Holguera, et al.
Science (2022) Vol. 378, Iss. 6626
Open Access | Times Cited: 28
Network-based approaches for modeling disease regulation and progression
Gihanna Galindez, Sepideh Sadegh, Jan Baumbach, et al.
Computational and Structural Biotechnology Journal (2022) Vol. 21, pp. 780-795
Open Access | Times Cited: 23
Deep neural network prediction of genome-wide transcriptome signatures – beyond the Black-box
Rasmus Magnusson, Jesper Tegnér, Mika Gustafsson
npj Systems Biology and Applications (2022) Vol. 8, Iss. 1
Open Access | Times Cited: 21
Improving gene regulatory network inference and assessment: The importance of using network structure
Juan M. Escorcia-Rodríguez, Estefani Gaytan-Nuñez, Ericka M. Hernandez-Benitez, et al.
Frontiers in Genetics (2023) Vol. 14
Open Access | Times Cited: 13
Network Inference with Granger Causality Ensembles on Single-Cell Transcriptomic Data
Atul Deshpande, Li‐Fang Chu, Ron Stewart, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2019)
Open Access | Times Cited: 32
Dual threshold optimization and network inference reveal convergent evidence from TF binding locations and TF perturbation responses
Yiming Kang, Nikhil Patel, Christian A. Shively, et al.
Genome Research (2020) Vol. 30, Iss. 3, pp. 459-471
Open Access | Times Cited: 29
Multi-task learning for the simultaneous reconstruction of the human and mouse gene regulatory networks
Paolo Mignone, Gianvito Pio, Sašo Džeroski, et al.
Scientific Reports (2020) Vol. 10, Iss. 1
Open Access | Times Cited: 27
Integrating multiple references for single-cell assignment
Bin Duan, Shaoqi Chen, Xiaohan Chen, et al.
Nucleic Acids Research (2021) Vol. 49, Iss. 14, pp. e80-e80
Open Access | Times Cited: 21
Open problems in mathematical biology
Sean T. Vittadello, Michael P. H. Stumpf
Mathematical Biosciences (2022) Vol. 354, pp. 108926-108926
Open Access | Times Cited: 16
Structure-primed embedding on the transcription factor manifold enables transparent model architectures for gene regulatory network and latent activity inference
Andreas Tjärnberg, Maggie Beheler-Amass, Christopher A. Jackson, et al.
Genome biology (2024) Vol. 25, Iss. 1
Open Access | Times Cited: 3
Flexible modeling of regulatory networks improves transcription factor activity estimation
Chen Chen, Megha Padi
npj Systems Biology and Applications (2024) Vol. 10, Iss. 1
Open Access | Times Cited: 3
SCGRNs: Novel supervised inference of single-cell gene regulatory networks of complex diseases
Turki Turki, Y‐h. Taguchi
Computers in Biology and Medicine (2020) Vol. 118, pp. 103656-103656
Closed Access | Times Cited: 22
Modeling regulatory networks using machine learning for systems metabolic engineering
Mun Su Kwon, Byung Tae Lee, Sang Yup Lee, et al.
Current Opinion in Biotechnology (2020) Vol. 65, pp. 163-170
Closed Access | Times Cited: 21
Inferring Gene Regulatory Networks From Single-Cell Transcriptomic Data Using Bidirectional RNN
Yanglan Gan, Xin Hu, Guobing Zou, et al.
Frontiers in Oncology (2022) Vol. 12
Open Access | Times Cited: 12
DeepGRNCS: deep learning-based framework for jointly inferring gene regulatory networks across cell subpopulations
Yahui Lei, Xiaotai Huang, Xingli Guo, et al.
Briefings in Bioinformatics (2024) Vol. 25, Iss. 4
Open Access | Times Cited: 2
A 1p/19q Codeletion-Associated Immune Signature for Predicting Lower Grade Glioma Prognosis
Jie Xu, Fang Liu, Yuntao Li, et al.
Cellular and Molecular Neurobiology (2020) Vol. 42, Iss. 3, pp. 709-722
Open Access | Times Cited: 18
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