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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:

DeepLC can predict retention times for peptides that carry as-yet unseen modifications
Robbin Bouwmeester, Ralf Gabriels, Niels Hulstaert, et al.
Nature Methods (2021) Vol. 18, Iss. 11, pp. 1363-1369
Open Access | Times Cited: 167

Showing 1-25 of 167 citing articles:

Most non-canonical proteins uniquely populate the proteome or immunopeptidome
Maria Virginia Ruiz Cuevas, Marie‐Pierre Hardy, Jaroslav Hollý, et al.
Cell Reports (2021) Vol. 34, Iss. 10, pp. 108815-108815
Open Access | Times Cited: 161
The RNA landscape of the human placenta in health and disease
Sungsam Gong, Francesca Gaccioli, Justyna Dopierala, et al.
Nature Communications (2021) Vol. 12, Iss. 1
Open Access | Times Cited: 106
AlphaPeptDeep: a modular deep learning framework to predict peptide properties for proteomics
Wen‐Feng Zeng, Xie‐Xuan Zhou, Sander Willems, et al.
Nature Communications (2022) Vol. 13, Iss. 1
Open Access | Times Cited: 101
MSBooster: improving peptide identification rates using deep learning-based features
Kevin Yang, Fengchao Yu, Guo Ci Teo, et al.
Nature Communications (2023) Vol. 14, Iss. 1
Open Access | Times Cited: 95
MS2Rescore: Data-Driven Rescoring Dramatically Boosts Immunopeptide Identification Rates
Arthur Declercq, Robbin Bouwmeester, Aurélie Hirschler, et al.
Molecular & Cellular Proteomics (2022) Vol. 21, Iss. 8, pp. 100266-100266
Open Access | Times Cited: 80
Artificial Intelligence in Molecular Medicine
Bruna Gomes, Euan A. Ashley
New England Journal of Medicine (2023) Vol. 388, Iss. 26, pp. 2456-2465
Closed Access | Times Cited: 75
Noncanonical splicing junctions between exons and transposable elements represent a source of immunogenic recurrent neo-antigens in patients with lung cancer
Antonela Merlotti, Benjamin Sadacca, Yago A. Arribas, et al.
Science Immunology (2023) Vol. 8, Iss. 80
Open Access | Times Cited: 67
Toward an Integrated Machine Learning Model of a Proteomics Experiment
Benjamin A. Neely, Viktoria Dorfer, Lennart Martens, et al.
Journal of Proteome Research (2023) Vol. 22, Iss. 3, pp. 681-696
Open Access | Times Cited: 47
What Can Ribo-Seq, Immunopeptidomics, and Proteomics Tell Us About the Noncanonical Proteome?
John R. Prensner, Jennifer G. Abelin, Leron W. Kok, et al.
Molecular & Cellular Proteomics (2023) Vol. 22, Iss. 9, pp. 100631-100631
Open Access | Times Cited: 45
Sage: An Open-Source Tool for Fast Proteomics Searching and Quantification at Scale
Michael R. Lazear
Journal of Proteome Research (2023) Vol. 22, Iss. 11, pp. 3652-3659
Closed Access | Times Cited: 45
Acquisition and Analysis of DIA-Based Proteomic Data: A Comprehensive Survey in 2023
Ronghui Lou, Wenqing Shui
Molecular & Cellular Proteomics (2024) Vol. 23, Iss. 2, pp. 100712-100712
Open Access | Times Cited: 37
Instrumentation at the Leading Edge of Proteomics
Trenton M. Peters-Clarke, Joshua J. Coon, Nicholas M. Riley
Analytical Chemistry (2024) Vol. 96, Iss. 20, pp. 7976-8010
Closed Access | Times Cited: 20
Thunder-DDA-PASEF enables high-coverage immunopeptidomics and is boosted by MS2Rescore with MS2PIP timsTOF fragmentation prediction model
David Gomez‐Zepeda, Danielle Arnold-Schild, Julian Beyrle, et al.
Nature Communications (2024) Vol. 15, Iss. 1
Open Access | Times Cited: 17
HIF regulates multiple translated endogenous retroviruses: Implications for cancer immunotherapy
Qinqin Jiang, David A. Braun, Karl R. Clauser, et al.
Cell (2025)
Open Access | Times Cited: 2
Deep Learning in Proteomics
Bo Wen, Wen‐Feng Zeng, Yuxing Liao, et al.
PROTEOMICS (2020) Vol. 20, Iss. 21-22
Open Access | Times Cited: 128
Atypical acute myeloid leukemia-specific transcripts generate shared and immunogenic MHC class-I-associated epitopes
Grégory Ehx, Jean‐David Larouche, Chantal Durette, et al.
Immunity (2021) Vol. 54, Iss. 4, pp. 737-752.e10
Open Access | Times Cited: 82
Deep learning neural network tools for proteomics
Jesse G. Meyer
Cell Reports Methods (2021) Vol. 1, Iss. 2, pp. 100003-100003
Open Access | Times Cited: 76
Prediction of peptide mass spectral libraries with machine learning
Jürgen Cox
Nature Biotechnology (2022) Vol. 41, Iss. 1, pp. 33-43
Closed Access | Times Cited: 68
Accurate de novo peptide sequencing using fully convolutional neural networks
Kaiyuan Liu, Yuzhen Ye, Sujun Li, et al.
Nature Communications (2023) Vol. 14, Iss. 1
Open Access | Times Cited: 39
A comprehensive LFQ benchmark dataset on modern day acquisition strategies in proteomics
Bart Van Puyvelde, Simon Daled, Sander Willems, et al.
Scientific Data (2022) Vol. 9, Iss. 1
Open Access | Times Cited: 38
Workflow enabling deepscale immunopeptidome, proteome, ubiquitylome, phosphoproteome, and acetylome analyses of sample-limited tissues
Jennifer G. Abelin, Erik J. Bergstrom, Keith Rivera, et al.
Nature Communications (2023) Vol. 14, Iss. 1
Open Access | Times Cited: 37
Oktoberfest: Open‐source spectral library generation and rescoring pipeline based on Prosit
Mario Picciani, Wassim Gabriel, Victor Giurcoiu, et al.
PROTEOMICS (2023) Vol. 24, Iss. 8
Open Access | Times Cited: 35
OpenProt 2.0 builds a path to the functional characterization of alternative proteins
Sébastien Leblanc, Feriel Yala, Nicolas Provencher, et al.
Nucleic Acids Research (2023) Vol. 52, Iss. D1, pp. D522-D528
Open Access | Times Cited: 24
MS2Rescore 3.0 Is a Modular, Flexible, and User-Friendly Platform to Boost Peptide Identifications, as Showcased with MS Amanda 3.0
Louise Marie Buur, Arthur Declercq, Marina Strobl, et al.
Journal of Proteome Research (2024) Vol. 23, Iss. 8, pp. 3200-3207
Open Access | Times Cited: 14
Prediction of glycopeptide fragment mass spectra by deep learning
Yi Yang, Qun Fang
Nature Communications (2024) Vol. 15, Iss. 1
Open Access | Times Cited: 11
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