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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:

Accurate isoform discovery with IsoQuant using long reads
Andrey D. Prjibelski, Alla Mikheenko, Anoushka Joglekar, et al.
Nature Biotechnology (2023) Vol. 41, Iss. 7, pp. 915-918
Open Access | Times Cited: 88

Showing 1-25 of 88 citing articles:

Context-aware transcript quantification from long-read RNA-seq data with Bambu
Ying Chen, Andre Sim, Yuk Kei Wan, et al.
Nature Methods (2023) Vol. 20, Iss. 8, pp. 1187-1195
Open Access | Times Cited: 74
Systematic assessment of long-read RNA-seq methods for transcript identification and quantification
Francisco J. Pardo-Palacios, Dingjie Wang, Fairlie Reese, et al.
Nature Methods (2024) Vol. 21, Iss. 7, pp. 1349-1363
Open Access | Times Cited: 72
SQANTI3: curation of long-read transcriptomes for accurate identification of known and novel isoforms
Francisco J. Pardo-Palacios, Ángeles Arzalluz-Luque, Liudmyla Kondratova, et al.
Nature Methods (2024) Vol. 21, Iss. 5, pp. 793-797
Open Access | Times Cited: 50
Computational biology and artificial intelligence in mRNA vaccine design for cancer immunotherapy
Saber İmani, Xiaoyan Li, Keyi Chen, et al.
Frontiers in Cellular and Infection Microbiology (2025) Vol. 14
Open Access | Times Cited: 4
Single-cell multi-omics defines the cell-type-specific impact of splicing aberrations in human hematopoietic clonal outgrowths
Mariela Cortés-López, Paulina Chamely, Allegra G. Hawkins, et al.
Cell stem cell (2023) Vol. 30, Iss. 9, pp. 1262-1281.e8
Open Access | Times Cited: 32
Systematic assessment of long-read RNA-seq methods for transcript identification and quantification
Francisco J. Pardo-Palacios, Dingjie Wang, Fairlie Reese, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2023)
Open Access | Times Cited: 25
Nano-DMS-MaP allows isoform-specific RNA structure determination
Patrick Bohn, Anne-Sophie Gribling-Burrer, Uddhav B. Ambi, et al.
Nature Methods (2023) Vol. 20, Iss. 6, pp. 849-859
Open Access | Times Cited: 24
Opportunities and tradeoffs in single-cell transcriptomic technologies
Matilde Immacolata Conte, Azahara Fuentes‐Trillo, Cecilia Domínguez Conde
Trends in Genetics (2023) Vol. 40, Iss. 1, pp. 83-93
Open Access | Times Cited: 23
IsoTools: a flexible workflow for long-read transcriptome sequencing analysis
Matthias Lienhard, Twan van den Beucken, Bernd Timmermann, et al.
Bioinformatics (2023) Vol. 39, Iss. 6
Open Access | Times Cited: 22
Comprehensive assessment of mRNA isoform detection methods for long-read sequencing data
Yaqi Su, Zhejian Yu, Siqian Jin, et al.
Nature Communications (2024) Vol. 15, Iss. 1
Open Access | Times Cited: 11
A systematic benchmark of Nanopore long-read RNA sequencing for transcript-level analysis in human cell lines
Ying Chen, N. Davidson, Yuk Kei Wan, et al.
Nature Methods (2025)
Open Access | Times Cited: 1
Single-cell and long-read sequencing to enhance modelling of splicing and cell-fate determination
Siyuan Wu, Ulf Schmitz
Computational and Structural Biotechnology Journal (2023) Vol. 21, pp. 2373-2380
Open Access | Times Cited: 20
Identifying and quantifying isoforms from accurate full-length transcriptome sequencing reads with Mandalorion
Roger Volden, Kayla D. Schimke, Ashley Byrne, et al.
Genome biology (2023) Vol. 24, Iss. 1
Open Access | Times Cited: 19
Genome annotation: From human genetics to biodiversity genomics
Roderic Guigó
Cell Genomics (2023) Vol. 3, Iss. 8, pp. 100375-100375
Open Access | Times Cited: 17
Full-length isoform concatenation sequencing to resolve cancer transcriptome complexity
Saranga Wijeratne, Maria Elena Hernandez Gonzalez, Kelli Roach, et al.
BMC Genomics (2024) Vol. 25, Iss. 1
Open Access | Times Cited: 6
Single-cell and spatial transcriptomics: Bridging current technologies with long-read sequencing
Chengwei Ulrika Yuan, Fu Xiang Quah, Martin Hemberg
Molecular Aspects of Medicine (2024) Vol. 96, pp. 101255-101255
Closed Access | Times Cited: 6
From words to complete phrases: insight into single-cell isoforms using short and long reads
Anoushka Joglekar, Careen Foord, Julien Jarroux, et al.
Transcription (2023) Vol. 14, Iss. 3-5, pp. 92-104
Open Access | Times Cited: 15
Influenza A virus NS1 effector domain is required for PA-X-mediated host shutoff in infected cells
Juliette Bougon, Eileigh Kadijk, Lucie Gallot-Lavallee, et al.
Journal of Virology (2024) Vol. 98, Iss. 5
Open Access | Times Cited: 5
Accurate long-read transcript discovery and quantification at single-cell, pseudo-bulk and bulk resolution with Isosceles
Michał Kabza, Alexander J. Ritter, Ashley Byrne, et al.
Nature Communications (2024) Vol. 15, Iss. 1
Open Access | Times Cited: 5
IsoTools 2.0: software for comprehensive analysis of long-read transcriptome sequencing data
Yalan Bi, Tom Lukas Lankenau, Matthias Lienhard, et al.
Journal of Molecular Biology (2025), pp. 169049-169049
Open Access
Discovery of Novel Protein-Coding and Long Non-coding Transcripts in Distinct Regions of the Human Brain
Kristina Santucci, Yuning Cheng, Si-Mei Xu, et al.
Journal of Molecular Neuroscience (2025) Vol. 75, Iss. 1
Open Access
Plate-based long-read single cell gene- and isoform transcriptome profiling using scLIS-seq
Koen Deserranno, Elise Callens, Danique Berrevoet, et al.
Research Square (Research Square) (2025)
Closed Access
Transcriptomics in the era of long-read sequencing
Carolina Monzó, Tianyuan Liu, Ana Conesa
Nature Reviews Genetics (2025)
Closed Access
Isoform-level discovery, quantification and fusion analysis from single-cell and spatial long-read RNA-seq data with Bambu-Clump
Andre Sim, Min Hao Ling, Ying Chen, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2025)
Open Access
Temporal transcriptional profiling of host cells infected by a veterinary alphaherpesvirus using nanopore sequencing
Dóra Tombácz, Zoltán Maróti, Péter Oláh, et al.
Scientific Reports (2025) Vol. 15, Iss. 1
Open Access
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