Gary D. Bader

103.5k total citations · 16 hit papers
211 papers, 31.7k citations indexed

About

Gary D. Bader is a scholar working on Molecular Biology, Cancer Research and Oncology. According to data from OpenAlex, Gary D. Bader has authored 211 papers receiving a total of 31.7k indexed citations (citations by other indexed papers that have themselves been cited), including 178 papers in Molecular Biology, 29 papers in Cancer Research and 16 papers in Oncology. Recurrent topics in Gary D. Bader's work include Bioinformatics and Genomic Networks (85 papers), Microbial Metabolic Engineering and Bioproduction (28 papers) and Gene expression and cancer classification (25 papers). Gary D. Bader is often cited by papers focused on Bioinformatics and Genomic Networks (85 papers), Microbial Metabolic Engineering and Bioproduction (28 papers) and Gene expression and cancer classification (25 papers). Gary D. Bader collaborates with scholars based in Canada, United States and United Kingdom. Gary D. Bader's co-authors include Christopher W.V. Hogue, Ruth Isserlin, Max Franz, Christian Lopes, Quaid Morris, Daniele Merico, Jason Montojo, Khalid Zuberi, Jüri Reimand and Sylva L. Donaldson and has published in prestigious journals such as Nature, Science and Cell.

In The Last Decade

Gary D. Bader

208 papers receiving 31.3k citations

Hit Papers

An automated method for finding molecular complexes in la... 2001 2026 2009 2017 2003 2010 2001 2010 2001 1000 2.0k 3.0k 4.0k
What are hit papers?

Hit papers significantly outperform the citation benchmark for their cohort. A paper qualifies if it has ≥500 total citations, achieves ≥1.5× the top-1% citation threshold for papers in the same subfield and year (this is the minimum needed to enter the top 1%, not the average within it), or reaches the top citation threshold in at least one of its specific research topics.

  1. An automated method for finding molecular complexes in large protein interaction networks
    2003 4.4k citations Gary D. Bader, Christopher W.V. Hogue BMC Bioinformatics profile →
  2. The GeneMANIA prediction server: biological network integration for gene prioritization and predicting gene function
    2010 3.3k citations Khalid Zuberi, Max Franz et al. Nucleic Acids Research profile →
  3. Systematic Genetic Analysis with Ordered Arrays of Yeast Deletion Mutants
    2001 1.6k citations Amy H.Y. Tong, Marie Evangelista et al. Science profile →
  4. Enrichment Map: A Network-Based Method for Gene-Set Enrichment Visualization and Interpretation
    2010 1.5k citations Ruth Isserlin, Gary D. Bader et al. profile →
  5. BIND--The Biomolecular Interaction Network Database
    2001 1.2k citations Gary D. Bader Nucleic Acids Research profile →
  6. A travel guide to Cytoscape plugins
    2012 1.1k citations Keiichiro Ono, Alexander R. Pico et al. profile →
  7. Pathway enrichment analysis and visualization of omics data using g:Profiler, GSEA, Cytoscape and EnrichmentMap
    2019 1.1k citations Ruth Isserlin, Véronique Voisin et al. profile →
  8. GeneMANIA update 2018
    2018 848 citations Max Franz, Harold Rodriguez et al. Nucleic Acids Research profile →
  9. BIND: the Biomolecular Interaction Network Database
    2003 830 citations Gary D. Bader Nucleic Acids Research profile →
  10. Pathway Commons, a web resource for biological pathway data
    2010 764 citations Gary D. Bader et al. Nucleic Acids Research profile →
  11. Biological Network Exploration with Cytoscape 3
    2014 763 citations John H. Morris, Gary D. Bader et al. profile →
  12. Cytoscape Web: an interactive web-based network browser
    2010 579 citations Christian Lopes, Max Franz et al. Bioinformatics profile →
  13. A Combined Experimental and Computational Strategy to Define Protein Interaction Networks for Peptide Recognition Modules
    2002 553 citations Amy H.Y. Tong, Gary D. Bader et al. Science profile →
  14. Cytoscape.js: a graph theory library for visualisation and analysis
    2015 480 citations Max Franz, Christian Lopes et al. Bioinformatics profile →
  15. Single-cell transcriptomic profiling of the aging mouse brain
    2019 439 citations Ruth Isserlin, Gary D. Bader et al. profile →
  16. DeCLUTR: Deep Contrastive Learning for Unsupervised Textual Representations
    2021 243 citations John Giorgi, Gary D. Bader et al. profile →

Peers — A (Enhanced Table)

Peers by citation overlap · career bar shows stage (early→late) cites · hero ref

Name h Career Trend Papers Cites
Gary D. Bader Canada 69 22.9k 4.4k 2.7k 2.6k 2.5k 211 31.7k
Milan Simonovic Switzerland 9 21.7k 0.9× 5.2k 1.2× 3.0k 1.1× 2.2k 0.8× 3.5k 1.4× 10 33.7k
Nadezhda T. Doncheva Denmark 18 17.1k 0.7× 4.5k 1.0× 2.4k 0.9× 1.9k 0.7× 3.2k 1.3× 33 28.4k
Stefan Wyder Switzerland 18 15.6k 0.7× 4.2k 1.0× 2.3k 0.9× 1.5k 0.6× 2.8k 1.1× 26 25.5k
Nada Amin United States 13 21.8k 1.0× 5.5k 1.3× 2.9k 1.1× 2.0k 0.8× 3.2k 1.3× 31 35.2k
Owen Ozier United States 16 22.7k 1.0× 5.6k 1.3× 2.9k 1.1× 2.0k 0.8× 3.2k 1.3× 41 36.5k
Daniel Ramage United States 20 21.9k 1.0× 5.6k 1.3× 2.8k 1.1× 1.9k 0.7× 3.2k 1.3× 28 42.3k
Alexander Röth Germany 31 15.5k 0.7× 3.4k 0.8× 2.3k 0.9× 1.4k 0.5× 2.3k 0.9× 80 24.7k
Jian Zhang China 84 17.6k 0.8× 2.1k 0.5× 2.1k 0.8× 2.8k 1.1× 2.6k 1.0× 1.1k 31.2k
Benno Schwikowski France 23 24.6k 1.1× 5.6k 1.3× 3.1k 1.2× 2.3k 0.9× 3.5k 1.4× 53 38.3k
Allan Peter Davis United States 32 25.8k 1.1× 3.7k 0.9× 4.4k 1.6× 3.0k 1.1× 2.7k 1.1× 55 36.5k

Countries citing papers authored by Gary D. Bader

Since Specialization
Citations

This map shows the geographic impact of Gary D. Bader's research. It shows the number of citations coming from papers published by authors working in each country. You can also color the map by specialization and compare the number of citations received by Gary D. Bader with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Gary D. Bader more than expected).

Fields of papers citing papers by Gary D. Bader

Since Specialization
Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Gary D. Bader. Nodes represent research fields, and links connect fields that are likely to share authors. Colored nodes show fields that tend to cite the papers produced by Gary D. Bader. The network helps show where Gary D. Bader may publish in the future.

Co-authorship network of co-authors of Gary D. Bader

This figure shows the co-authorship network connecting the top 25 collaborators of Gary D. Bader. A scholar is included among the top collaborators of Gary D. Bader based on the total number of citations received by their joint publications. Widths of edges represent the number of papers authors have co-authored together. Node borders signify the number of papers an author published with Gary D. Bader. Gary D. Bader is excluded from the visualization to improve readability, since they are connected to all nodes in the network.

All Works

20 of 20 papers shown
1.
Andrews, Tallulah, et al.. (2025). Interpretable single-cell factor decomposition using sciRED. Nature Communications. 16(1). 1878–1878. 1 indexed citations
2.
Ono, Keiichiro, Dylan Fong, Christopher Churas, et al.. (2025). Cytoscape Web: bringing network biology to the browser. Nucleic Acids Research. 53(W1). W203–W212. 5 indexed citations
3.
Edgar, Rachel D., Damra Camat, Sai Chung, et al.. (2025). Single-cell atlas of human pediatric liver reveals age-related hepatic gene signatures. Hepatology Communications. 9(11).
4.
Toma, Augustin, et al.. (2024). WangLab at MEDIQA-M3G 2024: Multimodal Medical Answer Generation using Large Language Models. 624–634. 1 indexed citations
5.
Franz, Max, Christian Lopes, Dylan Fong, et al.. (2023). Cytoscape.js 2023 update: a graph theory library for visualization and analysis. Bioinformatics. 39(1). 86 indexed citations
6.
Giorgi, John, Gary D. Bader, & Bo Wang. (2022). A sequence-to-sequence approach for document-level relation extraction. 10–25. 30 indexed citations
7.
Touré, Vasundra, Dagmar Waltemath, Anatoly Sorokin, et al.. (2021). SBGN Bricks Ontology as a tool to describe recurring concepts in molecular networks. Briefings in Bioinformatics. 22(5). 7 indexed citations
8.
Hussain, Ali, Véronique Voisin, Stephanie Poon, et al.. (2020). Distinct fibroblast functional states drive clinical outcomes in ovarian cancer and are regulated by TCF21. The Journal of Experimental Medicine. 217(8). 64 indexed citations
9.
Selvadurai, Hayden, Kinjal Desai, Xiaoyang Lan, et al.. (2020). Medulloblastoma Arises from the Persistence of a Rare and Transient Sox2+ Granule Neuron Precursor. Cell Reports. 31(2). 107511–107511. 41 indexed citations
10.
Giorgi, John & Gary D. Bader. (2019). Towards reliable named entity recognition in the biomedical domain. Bioinformatics. 36(1). 280–286. 51 indexed citations
11.
Franz, Max, Harold Rodriguez, Christian Lopes, et al.. (2018). GeneMANIA update 2018. Nucleic Acids Research. 46(W1). W60–W64. 848 indexed citations breakdown →
12.
Giorgi, John & Gary D. Bader. (2018). Transfer learning for biomedical named entity recognition with neural networks. Bioinformatics. 34(23). 4087–4094. 106 indexed citations
13.
El-Hachem, Nehmé, Deena M.A. Gendoo, Laleh Soltan Ghoraie, et al.. (2017). Integrative Cancer Pharmacogenomics to Infer Large-Scale Drug Taxonomy. Cancer Research. 77(11). 3057–3069. 28 indexed citations
14.
Liu, Jeff C., YoungJun Ju, Giovanna Pellecchia, et al.. (2017). microRNA-143/145 loss induces Ras signaling to promote aggressive Pten-deficient basal-like breast cancer. JCI Insight. 2(15). 20 indexed citations
15.
Rentas, Stefan, Gabriel A. Pratt, Véronique Voisin, et al.. (2016). Musashi-2 attenuates AHR signalling to expand human haematopoietic stem cells. Nature. 532(7600). 508–511. 88 indexed citations
16.
Liu, Jeff C., Véronique Voisin, Gary D. Bader, et al.. (2012). Seventeen-gene signature from enriched Her2/Neu mammary tumor-initiating cells predicts clinical outcome for human HER2 + :ERα − breast cancer. Proceedings of the National Academy of Sciences. 109(15). 5832–5837. 65 indexed citations
17.
Hui, Shirley & Gary D. Bader. (2010). Proteome scanning to predict PDZ domain interactions using support vector machines. BMC Bioinformatics. 11(1). 507–507. 32 indexed citations
18.
Tan, Chris Soon Heng, Adrian Pasculescu, Wendell A. Lim, et al.. (2009). Positive Selection of Tyrosine Loss in Metazoan Evolution. Science. 325(5948). 1686–1688. 78 indexed citations
19.
Bader, Gary D. & Christopher W.V. Hogue. (2003). An automated method for finding molecular complexes in large protein interaction networks. BMC Bioinformatics. 4(1). 2–2. 4351 indexed citations breakdown →
20.
Tong, Amy H.Y., Marie Evangelista, Ainslie B. Parsons, et al.. (2001). Systematic Genetic Analysis with Ordered Arrays of Yeast Deletion Mutants. Science. 294(5550). 2364–2368. 1620 indexed citations breakdown →

Rankless uses publication and citation data sourced from OpenAlex, an open and comprehensive bibliographic database. While OpenAlex provides broad and valuable coverage of the global research landscape, it—like all bibliographic datasets—has inherent limitations. These include incomplete records, variations in author disambiguation, differences in journal indexing, and delays in data updates. As a result, some metrics and network relationships displayed in Rankless may not fully capture the entirety of a scholar's output or impact.

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