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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:

AlphaPept: a modern and open framework for MS-based proteomics
Maximilian T. Strauss, Isabell Bludau, Wen‐Feng Zeng, et al.
Nature Communications (2024) Vol. 15, Iss. 1
Open Access | Times Cited: 34

Showing 1-25 of 34 citing articles:

Trapped Ion Mobility Spectrometry and Parallel Accumulation–Serial Fragmentation in Proteomics
Florian Meier, Melvin A. Park, Matthias Mann
Molecular & Cellular Proteomics (2021) Vol. 20, pp. 100138-100138
Open Access | Times Cited: 142
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: 105
Benchmarking commonly used software suites and analysis workflows for DIA proteomics and phosphoproteomics
Ronghui Lou, Ye Cao, Shanshan Li, et al.
Nature Communications (2023) Vol. 14, Iss. 1
Open Access | Times Cited: 72
Comprehensive Overview of Bottom-Up Proteomics Using Mass Spectrometry
Yuming Jiang, Rex Devasahayam Arokia Balaya, Dina Schuster, et al.
ACS Measurement Science Au (2024) Vol. 4, Iss. 4, pp. 338-417
Open Access | Times Cited: 25
Mass-spectrometry-based proteomics: from single cells to clinical applications
Tiannan Guo, Judith A. Steen, Matthias Mann
Nature (2025) Vol. 638, Iss. 8052, pp. 901-911
Closed Access | Times Cited: 3
The hidden bacterial microproteome
Igor Fesenko, Harutyun Sahakyan, Rajat Dhyani, et al.
Molecular Cell (2025)
Open Access | Times Cited: 2
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
Accurate Label-Free Quantification by directLFQ to Compare Unlimited Numbers of Proteomes
Constantin Ammar, Julia P. Schessner, Sander Willems, et al.
Molecular & Cellular Proteomics (2023) Vol. 22, Iss. 7, pp. 100581-100581
Open Access | Times Cited: 24
Assessment of false discovery rate control in tandem mass spectrometry analysis using entrapment
Bo Wen, Jack Freestone, Michael Riffle, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 12
Rescoring Peptide Spectrum Matches: Boosting Proteomics Performance by Integrating Peptide Property Predictors into Peptide Identification
Mostafa Kalhor, Joel Lapin, Mario Picciani, et al.
Molecular & Cellular Proteomics (2024) Vol. 23, Iss. 7, pp. 100798-100798
Open Access | Times Cited: 8
An accessible workflow for high-sensitivity proteomics using parallel accumulation–serial fragmentation (PASEF)
Patricia Skowronek, Georg Wallmann, Maria Wahle, et al.
Nature Protocols (2025)
Closed Access | Times Cited: 1
Transparent Exploration of Machine Learning for Biomarker Discovery from Proteomics and Omics Data
Furkan M. Torun, Sebastian Virreira Winter, Sophia Doll, et al.
Journal of Proteome Research (2022) Vol. 22, Iss. 2, pp. 359-367
Open Access | Times Cited: 33
AlphaDIA enables End-to-End Transfer Learning for Feature-Free Proteomics
Georg Wallmann, Patricia Skowronek, Vincenth Brennsteiner, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 7
AlphaTims: Indexing Trapped Ion Mobility Spectrometry–TOF Data for Fast and Easy Accession and Visualization
Sander Willems, Eugenia Voytik, Patricia Skowronek, et al.
Molecular & Cellular Proteomics (2021) Vol. 20, pp. 100149-100149
Open Access | Times Cited: 37
Modern Approaches to Protein Constructions: A Comprehensive Review of Computational Tools and Databases for De Novo Protein Design and Engineering
Md. Mojnu Mia, Habiba Sultana, Md. Al Amin, et al.
Engineering Reports (2025) Vol. 7, Iss. 2
Open Access
Recent Advances in Mass Spectrometry-Based Bottom-Up Proteomics
Cameron S. Movassaghi, Jie Sun, Yuming Jiang, et al.
Analytical Chemistry (2025)
Closed Access
Tree-based quantification infers proteoform regulation in bottom-up proteomics data
Constantin Ammar, Marvin Thielert, Caroline A M Weiss, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2025)
Open Access
Rustims: An Open-Source Framework for Rapid Development and Processing of timsTOF Data-Dependent Acquisition Data
David Teschner, David Gomez‐Zepeda, Mateusz Krzysztof Łącki, et al.
Journal of Proteome Research (2025)
Open Access
AlphaPeptStats: an open-source Python package for automated and scalable statistical analysis of mass spectrometry-based proteomics
Elena Krismer, Isabell Bludau, Maximilian T. Strauss, et al.
Bioinformatics (2023) Vol. 39, Iss. 8
Open Access | Times Cited: 10
Advances in the Clinical Application of High-throughput Proteomics
Miao Cui, Fei Deng, Mary L. Disis, et al.
Exploratory Research and Hypothesis in Medicine (2024) Vol. 000, Iss. 000, pp. 000-000
Open Access | Times Cited: 3
Spatial characterization and stratification of colorectal adenomas by Deep Visual Proteomics
Sonja Kabatnik, Frederik Post, Lylia Drici, et al.
iScience (2024) Vol. 27, Iss. 9, pp. 110620-110620
Open Access | Times Cited: 3
AlphaMap: an open-source Python package for the visual annotation of proteomics data with sequence-specific knowledge
Eugenia Voytik, Isabell Bludau, Sander Willems, et al.
Bioinformatics (2021) Vol. 38, Iss. 3, pp. 849-852
Open Access | Times Cited: 18
Python workflow for the selection and identification of marker peptides—proof-of-principle study with heated milk
Gesine Kuhnen, Lisa‐Carina Class, Svenja Badekow, et al.
Analytical and Bioanalytical Chemistry (2024) Vol. 416, Iss. 14, pp. 3349-3360
Open Access | Times Cited: 2
Genetic marker: a genome mapping tool to decode genetic diversity of livestock animals
Darshan C. Panchariya, Priyanka Dutta, Ananya Ananya, et al.
Frontiers in Genetics (2024) Vol. 15
Open Access | Times Cited: 2
The 2024 Report on the Human Proteome from the HUPO Human Proteome Project
Gilbert S. Omenn, Sandra Orchard, Lydie Lane, et al.
Journal of Proteome Research (2024) Vol. 23, Iss. 12, pp. 5296-5311
Closed Access | Times Cited: 2
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