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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:

maxATAC: Genome-scale transcription-factor binding prediction from ATAC-seq with deep neural networks
Tareian Cazares, Faiz W. Rizvi, Balaji Iyer, et al.
PLoS Computational Biology (2023) Vol. 19, Iss. 1, pp. e1010863-e1010863
Open Access | Times Cited: 27

Showing 1-25 of 27 citing articles:

Machine-guided design of cell-type-targeting cis-regulatory elements
Sager J. Gosai, Rodrigo Castro, Natalia Fuentes, et al.
Nature (2024) Vol. 634, Iss. 8036, pp. 1211-1220
Open Access | Times Cited: 26
Epigenetic dysregulation in Alzheimer’s disease peripheral immunity
Abhirami Ramakrishnan, Natalie Piehl, Brooke Simonton, et al.
Neuron (2024) Vol. 112, Iss. 8, pp. 1235-1248.e5
Closed Access | Times Cited: 12
A generalizable framework to comprehensively predict epigenome, chromatin organization, and transcriptome
Zhenhao Zhang, Fan Feng, Yiyang Qiu, et al.
Nucleic Acids Research (2023) Vol. 51, Iss. 12, pp. 5931-5947
Open Access | Times Cited: 16
Machine-guided design of synthetic cell type-specificcis-regulatory elements
Sager J. Gosai, Rodrigo Castro, Natalia Fuentes, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2023)
Open Access | Times Cited: 13
Recent advances in exploring transcriptional regulatory landscape of crops
Qiang Huo, Rentao Song, Zeyang Ma
Frontiers in Plant Science (2024) Vol. 15
Open Access | Times Cited: 4
Towards a better understanding of TF-DNA binding prediction from genomic features
Zixuan Wang, Meiqin Gong, Yuhang Liu, et al.
Computers in Biology and Medicine (2022) Vol. 149, pp. 105993-105993
Closed Access | Times Cited: 17
Genetic coupling of enhancer activity and connectivity in gene expression control
Helen Ray-Jones, Changmin Sung, Lai Ting Chan, et al.
Nature Communications (2025) Vol. 16, Iss. 1
Open Access
A Brief Survey of Deep Learning-based Models for CircRNA-Protein Binding Sites Prediction
Zhen Shen, Lin Yuan, Wenzheng Bao, et al.
Neurocomputing (2025), pp. 129637-129637
Open Access
Evaluation of deep learning approaches for high-resolution chromatin accessibility prediction from genomic sequence
Aayush Grover, Till Muser, Laura Kasak, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2025)
Open Access
Machine learning based prediction by PlantCdMiner and experimental validation of cadmium-responsive genes in plants
Chaoqun Xu, Ling Sun, Lu-Dan Zhang, et al.
Journal of Hazardous Materials (2025), pp. 138582-138582
Closed Access
A single-cell multimodal view on gene regulatory network inference from transcriptomics and chromatin accessibility data
Jens Uwe Loers, Vanessa Vermeirssen
Briefings in Bioinformatics (2024) Vol. 25, Iss. 5
Open Access | Times Cited: 3
Cortical interneuron specification and diversification in the era of big data
Nicoletta Kessaris, Myrto Denaxa
Current Opinion in Neurobiology (2023) Vol. 80, pp. 102703-102703
Open Access | Times Cited: 7
Accessible chromatin maps of inflammatory bowel disease intestine nominate cell-type mediators of genetic disease risk
Joseph A. Wayman, Zi Yang, Elizabeth Angerman, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 2
Comprehensive transcription factor perturbations recapitulate fibroblast transcriptional states
Kaden M. Southard, Rico Chandra Ardy, Anran Tang, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 2
An atlas of gene regulatory networks for memory CD4+T cells in youth and old age
Joseph A. Wayman, Alyssa L. Thomas, Anthony T. Bejjani, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2023)
Open Access | Times Cited: 4
CREaTor: zero-shot cis-regulatory pattern modeling with attention mechanisms
Yongge Li, Fusong Ju, Zhiyuan Chen, et al.
Genome biology (2023) Vol. 24, Iss. 1
Open Access | Times Cited: 4
REUNION: transcription factor binding prediction and regulatory association inference from single-cell multi-omics data
Yang Yang, Dana Pe’er
Bioinformatics (2024) Vol. 40, Iss. Supplement_1, pp. i567-i575
Open Access | Times Cited: 1
Shared and distinct molecular effects of regulatory genetic variants provide insight into mechanisms of distal enhancer-promoter communication
Helen Ray-Jones, Zeji Song, Lai Ting Chan, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2023)
Open Access | Times Cited: 3
Mapping the gene space at single-cell resolution with gene signal pattern analysis
Aarthi Venkat, Sam Leone, Scott E. Youlten, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2023)
Open Access | Times Cited: 1
Advances in computational and experimental approaches for deciphering transcriptional regulatory networks
Camille Moeckel, Ioannis Mouratidis, Nikol Chantzi, et al.
BioEssays (2024) Vol. 46, Iss. 7
Open Access
Cholestasis alters polarization and suppressor function of hepatic regulatory T cells.
Ramesh Kudira, Zi F Yang, Immaculeta Osuji, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access
Predmoter—cross-species prediction of plant promoter and enhancer regions
Felicitas Kindel, Sebastian Triesch, Urte Schlüter, et al.
Bioinformatics Advances (2024) Vol. 4, Iss. 1
Open Access
Genetic landscape of atopic dermatitis
Lavinia Paternoster
Current Opinion in Allergy and Clinical Immunology (2024) Vol. 24, Iss. 5, pp. 409-415
Closed Access
Transfer learning and DNA language models enhance transcription factor binding predictions
Ekin Deniz Aksu, Martin Vingron
(2024)
Open Access
Deaminase-mediated chromatin accessibility profiling with single-allele resolution
Tian Yu, Zhijian Li, Ellie Gibbs, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Closed Access
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