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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:

SpectralTAD: an R package for defining a hierarchy of topologically associated domains using spectral clustering
Kellen G. Cresswell, John C. Stansfield, Mikhail G. Dozmorov
BMC Bioinformatics (2020) Vol. 21, Iss. 1
Open Access | Times Cited: 40

Showing 1-25 of 40 citing articles:

Chromatin dysregulation associated with NSD1 mutation in head and neck squamous cell carcinoma
Nargess Farhangdoost, Cynthia Horth, Bo Hu, et al.
Cell Reports (2021) Vol. 34, Iss. 8, pp. 108769-108769
Open Access | Times Cited: 59
SATB2 organizes the 3D genome architecture of cognition in cortical neurons
Nico Wahl, Sergio Espeso‐Gil, Paola Chietera, et al.
Molecular Cell (2024) Vol. 84, Iss. 4, pp. 621-639.e9
Open Access | Times Cited: 9
TADCompare: An R Package for Differential and Temporal Analysis of Topologically Associated Domains
Kellen G. Cresswell, Mikhail G. Dozmorov
Frontiers in Genetics (2020) Vol. 11
Open Access | Times Cited: 55
A comparison of topologically associating domain callers over mammals at high resolution
Emre Sefer
BMC Bioinformatics (2022) Vol. 23, Iss. 1
Open Access | Times Cited: 20
A comparison of topologically associating domain callers based on Hi-C data
Kun Liu, Hong‐Dong Li, Yaohang Li, et al.
IEEE/ACM Transactions on Computational Biology and Bioinformatics (2023) Vol. 20, Iss. 1, pp. 15-29
Open Access | Times Cited: 12
Machine and Deep Learning Methods for Predicting 3D Genome Organization
Brydon P. G. Wall, My Nguyen, J. Chuck Harrell, et al.
Methods in molecular biology (2024), pp. 357-400
Open Access | Times Cited: 4
DeTOKI identifies and characterizes the dynamics of chromatin TAD-like domains in a single cell
Xiao Li, Guangjie Zeng, Angsheng Li, et al.
Genome biology (2021) Vol. 22, Iss. 1
Open Access | Times Cited: 27
DeDoc2 Identifies and Characterizes the Hierarchy and Dynamics of Chromatin TAD‐Like Domains in the Single Cells
Angsheng Li, Guangjie Zeng, Haoyu Wang, et al.
Advanced Science (2023) Vol. 10, Iss. 20
Open Access | Times Cited: 10
The shape of chromatin: insights from computational recognition of geometric patterns in Hi-C data
Andrea Raffo, Jonas Paulsen
Briefings in Bioinformatics (2023) Vol. 24, Iss. 5
Open Access | Times Cited: 10
Super-enhancer hijacking drives ectopic expression of hedgehog pathway ligands in meningiomas
Mark W. Youngblood, E. Zeynep Erson‐Omay, Chang Li, et al.
Nature Communications (2023) Vol. 14, Iss. 1
Open Access | Times Cited: 10
Hypoxia-induced phase separation of ZHX2 alters chromatin looping to drive cancer metastasis
Chuan Gao, Ang Gao, Yulong Jiang, et al.
Molecular Cell (2025)
Closed Access
A comprehensive benchmarking with interpretation and operational guidance for the hierarchy of topologically associating domains
Jingxuan Xu, Xiang Xu, Dandan Huang, et al.
Nature Communications (2024) Vol. 15, Iss. 1
Open Access | Times Cited: 3
Altered chromatin conformation and transcriptional regulation in watermelon following genome doubling
Marleny García-Lozano, Purushothaman Natarajan, Amnon Levi, et al.
The Plant Journal (2021) Vol. 106, Iss. 3, pp. 588-600
Open Access | Times Cited: 19
Nucleome programming is required for the foundation of totipotency in mammalian germline development
Masahiro Nagano, Bo Hu, Shihori Yokobayashi, et al.
The EMBO Journal (2022) Vol. 41, Iss. 13
Open Access | Times Cited: 14
Active maintenance of CD8+ T cell naivety through regulation of global genome architecture
Brendan E. Russ, Adele Barugahare, Pushkar Dakle, et al.
Cell Reports (2023) Vol. 42, Iss. 10, pp. 113301-113301
Open Access | Times Cited: 8
Application of Hi-C and other omics data analysis in human cancer and cell differentiation research
Haiyan Gong, Yi Yang, Sichen Zhang, et al.
Computational and Structural Biotechnology Journal (2021) Vol. 19, pp. 2070-2083
Open Access | Times Cited: 17
Identifying TAD-like domains on single-cell Hi-C data by graph embedding and changepoint detection
Erhu Liu, Hongqiang Lyu, Yuan Liu, et al.
Bioinformatics (2024) Vol. 40, Iss. 3
Open Access | Times Cited: 2
The hierarchical folding dynamics of topologically associating domains are closely related to transcriptional abnormalities in cancers
Guifang Du, Hao Li, Yang Ding, et al.
Computational and Structural Biotechnology Journal (2021) Vol. 19, pp. 1684-1693
Open Access | Times Cited: 15
CASPIAN: A method to identify chromatin topological associated domains based on spatial density cluster
Haiyan Gong, Yi Yang, Xiaotong Zhang, et al.
Computational and Structural Biotechnology Journal (2022) Vol. 20, pp. 4816-4824
Open Access | Times Cited: 10
Regulatory Architecture of the RCA Gene Cluster Captures an Intragenic TAD Boundary, CTCF-Mediated Chromatin Looping and a Long-Range Intergenic Enhancer
Jessica Cheng, Joshua S. Clayton, Rafael D. Acemel, et al.
Frontiers in Immunology (2022) Vol. 13
Open Access | Times Cited: 9
TADBD: A Sensitive and Fast Method for Detection of Typologically Associated Domain Boundaries
Hongqiang Lyu, Lin Li, Zhifang Wu, et al.
BioTechniques (2020) Vol. 69, Iss. 1, pp. 18-25
Open Access | Times Cited: 12
Hnrnpk is essential for embryonic limb bud development as a transcription activator and a collaborator of insulator protein Ctcf
Yuyu Chen, Taifeng Zhou, Zhiheng Liao, et al.
Cell Death and Differentiation (2023) Vol. 30, Iss. 10, pp. 2293-2308
Open Access | Times Cited: 4
Prediction of the 3D cancer genome from whole-genome sequencing using InfoHiC
Yeonghun Lee, Sung‐Hye Park, Hyunju Lee
Molecular Systems Biology (2024) Vol. 20, Iss. 11, pp. 1156-1172
Open Access | Times Cited: 1
preciseTAD: a transfer learning framework for 3D domain boundary prediction at base-pair resolution
Spiro Stilianoudakis, Maggie A. Marshall, Mikhail G. Dozmorov
Bioinformatics (2021) Vol. 38, Iss. 3, pp. 621-630
Open Access | Times Cited: 9
Single base-pair resolution analysis of DNA binding motif with MoMotif reveals an oncogenic function of CTCF zinc-finger 1 mutation
Benjamin Lebeau, Kaiqiong Zhao, Maïka Jangal, et al.
Nucleic Acids Research (2022) Vol. 50, Iss. 15, pp. 8441-8458
Open Access | Times Cited: 6
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