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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:

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

Showing 1-25 of 61 citing articles:

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
Inferring gene regulatory networks from single-cell multiome data using atlas-scale external data
Qiuyue Yuan, Zhana Duren
Nature Biotechnology (2024)
Open Access | Times Cited: 28
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
scPRINT: pre-training on 50 million cells allows robust gene network predictions
Jérémie Kalfon, Jules Samaran, Gabriel Peyré, et al.
Nature Communications (2025) Vol. 16, Iss. 1
Open Access | Times Cited: 1
MICA: a multi-omics method to predict gene regulatory networks in early human embryos
Gregorio Alanis‐Lobato, Thomas E. Bartlett, Qiulin Huang, et al.
Life Science Alliance (2023) Vol. 7, Iss. 1, pp. e202302415-e202302415
Open Access | Times Cited: 16
The role of GATA2 in adult hematopoiesis and cell fate determination
Iris J. A. Peters, Emma de Pater, Wei Zhang
Frontiers in Cell and Developmental Biology (2023) Vol. 11
Open Access | Times Cited: 12
Advances in modeling cellular state dynamics: integrating omics data and predictive techniques
Sungwon Jung
Animal Cells and Systems (2025) Vol. 29, Iss. 1, pp. 72-83
Open Access
Reconstruction of gene regulatory networks from single cell transcriptomic data
Mikhail A. Rybakov, N. A. Omelyanchuk, Elena V. Zemlyanskaya
Vavilov Journal of Genetics and Breeding (2025) Vol. 28, Iss. 8, pp. 974-981
Open Access
Spatially resolved integrative analysis of transcriptomic and metabolomic changes in tissue injury studies
Eleanor C Williams, Lovisa Franzén, Martina Olsson Lindvall, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2025)
Open Access
Inferring fungal cis-regulatory networks from genome sequences
Alan M Moses, Jason Stajich, Audrey P. Gasch, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2025)
Open Access
Deep learning-based cell-specific gene regulatory networks inferred from single-cell multiome data
Junlin Xu, Changcheng Lu, Shuting Jin, et al.
Nucleic Acids Research (2025) Vol. 53, Iss. 5
Open Access
MulNet: a scalable framework for reconstructing intra- and intercellular signaling networks from bulk and single-cell RNA-seq data
Mingfei Han, Xiaoqing Chen, Xiao Li, et al.
Briefings in Bioinformatics (2025) Vol. 26, Iss. 2
Open Access
Selective phase separation of transcription factors is driven by orthogonal molecular grammar
Mark D. Driver, Patrick R. Onck
Nature Communications (2025) Vol. 16, Iss. 1
Open Access
Single-cell transcriptomics reveals liver developmental trajectory during lineage reprogramming of human induced hepatocyte-like cells
Nan Jiang, Guangya Li, Sen Luo, et al.
Cellular and Molecular Life Sciences (2025) Vol. 82, Iss. 1
Open Access
scMultiSim: simulation of single-cell multi-omics and spatial data guided by gene regulatory networks and cell–cell interactions
Hechen Li, Ziqi Zhang, Michael Squires, et al.
Nature Methods (2025)
Open Access
scMINER: a mutual information-based framework for clustering and hidden driver inference from single-cell transcriptomics data
Qingfei Pan, Liang Ding, Siarhei Hladyshau, et al.
Nature Communications (2025) Vol. 16, Iss. 1
Open Access
LSTM-GRN: A Deep Learning Model for the Prediction of Gene Regulatory Networks from Single-Cell Data
Khalid Raza
Communications in computer and information science (2025), pp. 30-40
Closed Access
MultiGNN: A Graph Neural Network Framework for Inferring Gene Regulatory Networks from Single-Cell Multi-Omics Data
Chao Cheng, Hao Chen, Jianxin Wang, et al.
Computation (2025) Vol. 13, Iss. 5, pp. 124-124
Open Access
scMultiSim: simulation of multi-modality single cell data guided by cell-cell interactions and gene regulatory networks
Hechen Li, Ziqi Zhang, Michael Squires, et al.
Research Square (Research Square) (2023)
Open Access | Times Cited: 9
DeepFGRN: inference of gene regulatory network with regulation type based on directed graph embedding
Zhen Gao, Yansen Su, Junfeng Xia, et al.
Briefings in Bioinformatics (2024) Vol. 25, Iss. 3
Open Access | Times Cited: 3
Decoding the principle of cell-fate determination for its reverse control
Jong‐Hoon Lee, Namhee Kim, Kwang‐Hyun Cho
npj Systems Biology and Applications (2024) Vol. 10, Iss. 1
Open Access | Times Cited: 3
TDC-2: Multimodal Foundation for Therapeutic Science
Alejandro Velez-Arce, Xiang Lin, Michelle M. Li, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 3
Importance of transcript variants in transcriptome analyses
Kevin D. Vo, Ryan Mohamadi, Yashica Sharma, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Closed Access | Times Cited: 3
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
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