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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:

RNA Sequencing Data: Hitchhiker's Guide to Expression Analysis
Koen Van den Berge, Katharina Hembach, Charlotte Soneson, et al.
Annual Review of Biomedical Data Science (2019) Vol. 2, Iss. 1, pp. 139-173
Open Access | Times Cited: 123

Showing 1-25 of 123 citing articles:

edgeR 4.0: powerful differential analysis of sequencing data with expanded functionality and improved support for small counts and larger datasets
Yunshun Chen, Lizhong Chen, Aaron T. L. Lun, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 73
Modern venomics—Current insights, novel methods, and future perspectives in biological and applied animal venom research
Björn M. von Reumont, Gregor Anderluh, Agostinho Antunes, et al.
GigaScience (2022) Vol. 11
Open Access | Times Cited: 71
edgeR v4: powerful differential analysis of sequencing data with expanded functionality and improved support for small counts and larger datasets
Yunshun Chen, Lizhong Chen, Aaron T. L. Lun, et al.
Nucleic Acids Research (2025) Vol. 53, Iss. 2
Open Access | Times Cited: 19
A simple guide to de novo transcriptome assembly and annotation
Venket Raghavan, Louis Kraft, Fantin Mesny, et al.
Briefings in Bioinformatics (2021) Vol. 23, Iss. 2
Open Access | Times Cited: 101
Computational Methods for Single-Cell RNA Sequencing
Brian Hie, Joshua M. Peters, Sarah K. Nyquist, et al.
Annual Review of Biomedical Data Science (2020) Vol. 3, Iss. 1, pp. 339-364
Open Access | Times Cited: 92
A guide to systems-level immunomics
Lorenzo Bonaguro, Jonas Schulte-Schrepping, Thomas Ulas, et al.
Nature Immunology (2022) Vol. 23, Iss. 10, pp. 1412-1423
Open Access | Times Cited: 53
The hitchhikers’ guide to RNA sequencing and functional analysis
Jiung-Wen Chen, Lisa Shrestha, George Green, et al.
Briefings in Bioinformatics (2023) Vol. 24, Iss. 1
Closed Access | Times Cited: 24
RNA-Seq Data Analysis for Differential Gene Expression Using HISAT2–StringTie–Ballgown Pipeline
Vivek Thakur
Methods in molecular biology (2024), pp. 101-113
Closed Access | Times Cited: 10
Bioinformatics perspectives on transcriptomics: A comprehensive review of bulk and single‐cell RNA sequencing analyses
Jorge A. Tzec‐Interián, Daianna González‐Padilla, Elsa Góngora‐Castillo
Quantitative Biology (2025) Vol. 13, Iss. 2
Open Access | Times Cited: 1
Handling multi-mapped reads in RNA-seq
Gabrielle Deschamps-Francoeur, Joël Simoneau, Michelle S. Scott
Computational and Structural Biotechnology Journal (2020) Vol. 18, pp. 1569-1576
Open Access | Times Cited: 70
Twelve quick steps for genome assembly and annotation in the classroom
Hyungtaek Jung, Tomer Ventura, J. Sook Chung, et al.
PLoS Computational Biology (2020) Vol. 16, Iss. 11, pp. e1008325-e1008325
Open Access | Times Cited: 56
bakR: uncovering differential RNA synthesis and degradation kinetics transcriptome-wide with Bayesian hierarchical modeling
Isaac W. Vock, Matthew D. Simon
RNA (2023) Vol. 29, Iss. 7, pp. 958-976
Open Access | Times Cited: 22
Statistical Power Analysis for Designing Bulk, Single-Cell, and Spatial Transcriptomics Experiments: Review, Tutorial, and Perspectives
Hyeongseon Jeon, Juan Xie, Yeseul Jeon, et al.
Biomolecules (2023) Vol. 13, Iss. 2, pp. 221-221
Open Access | Times Cited: 18
Escherichia coli induced ferroptosis in red blood cells of grass carp (Ctenopharyngodon idella)
Minxuan Yang, Zhijie Lu, Fenglin Li, et al.
Fish & Shellfish Immunology (2020) Vol. 112, pp. 159-167
Closed Access | Times Cited: 50
RNA-seq Data Analysis for Differential Expression
Navdeep Gill, Braham Dhillon
Methods in molecular biology (2021), pp. 45-54
Closed Access | Times Cited: 41
Strain-specific transcriptional responses overshadow salinity effects in a marine diatom sampled along the Baltic Sea salinity cline
Eveline Pinseel, Teofil Nakov, Koen Van den Berge, et al.
The ISME Journal (2022) Vol. 16, Iss. 7, pp. 1776-1787
Open Access | Times Cited: 27
Single-cell omics analysis with genome-scale metabolic modeling
Yu Chen, Johan Gustafsson, Jingyu Yang, et al.
Current Opinion in Biotechnology (2024) Vol. 86, pp. 103078-103078
Open Access | Times Cited: 6
Faster and more accurate assessment of differential transcript expression with Gibbs sampling and edgeR v4
Pedro L. Baldoni, Lizhong Chen, Gordon K. Smyth
NAR Genomics and Bioinformatics (2024) Vol. 6, Iss. 4
Open Access | Times Cited: 5
ideal: an R/Bioconductor package for interactive differential expression analysis
Fédérico Marini, Jan Linke, Harald Binder
BMC Bioinformatics (2020) Vol. 21, Iss. 1
Open Access | Times Cited: 39
OneStopRNAseq: A Web Application for Comprehensive and Efficient Analyses of RNA-Seq Data
Rui Li, Kai Hu, Haibo Liu, et al.
Genes (2020) Vol. 11, Iss. 10, pp. 1165-1165
Open Access | Times Cited: 38
Synthesizing Systems Biology Knowledge from Omics Using Genome‐Scale Models
Sanjeev Dahal, James T. Yurkovich, Hao Xu, et al.
PROTEOMICS (2020) Vol. 20, Iss. 17-18
Open Access | Times Cited: 37
Hypothesis-driven quantitative fluorescence microscopy – the importance of reverse-thinking in experimental design
Eric Wait, Michael Reiche, Teng‐Leong Chew
Journal of Cell Science (2020) Vol. 133, Iss. 21
Open Access | Times Cited: 34
GeneTonic: an R/Bioconductor package for streamlining the interpretation of RNA-seq data
Fédérico Marini, Annekathrin Ludt, Jan Linke, et al.
BMC Bioinformatics (2021) Vol. 22, Iss. 1
Open Access | Times Cited: 32
Design, execution, and interpretation of plant RNA-seq analyses
Racheal N. Upton, Fernando Henrique Correr, Jared Lile, et al.
Frontiers in Plant Science (2023) Vol. 14
Open Access | Times Cited: 13
Comparison of differentially expressed genes in longissimus dorsi muscle of Diannan small ears, Wujin and landrace pigs using RNA-seq
Qiuyan Li, Meilin Hao, Junhong Zhu, et al.
Frontiers in Veterinary Science (2024) Vol. 10
Open Access | Times Cited: 4
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