Zhiao Shi

17.2k total citations · 4 hit papers
35 papers, 4.9k citations indexed

About

Zhiao Shi is a scholar working on Molecular Biology, Computer Networks and Communications and Information Systems. According to data from OpenAlex, Zhiao Shi has authored 35 papers receiving a total of 4.9k indexed citations (citations by other indexed papers that have themselves been cited), including 22 papers in Molecular Biology, 6 papers in Computer Networks and Communications and 5 papers in Information Systems. Recurrent topics in Zhiao Shi's work include Bioinformatics and Genomic Networks (17 papers), Gene expression and cancer classification (11 papers) and Distributed and Parallel Computing Systems (6 papers). Zhiao Shi is often cited by papers focused on Bioinformatics and Genomic Networks (17 papers), Gene expression and cancer classification (11 papers) and Distributed and Parallel Computing Systems (6 papers). Zhiao Shi collaborates with scholars based in United States, China and France. Zhiao Shi's co-authors include Jing Wang, Bing Zhang, Yuxing Liao, Eric J. Jaehnig, Dexter T. Duncan, Bing Zhang, Suhas Vasaikar, Michael S. Greer, Jing Wang and Jack Dongarra and has published in prestigious journals such as Cell, Nucleic Acids Research and Nature Communications.

In The Last Decade

Zhiao Shi

32 papers receiving 4.8k citations

Hit Papers

WebGestalt 2019: gene set analysis toolkit wit... 2013 2026 2017 2021 2019 2013 2017 2024 500 1000 1.5k
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. WebGestalt 2019: gene set analysis toolkit with revamped UIs and APIs
    2019 2.0k citations Yuxing Liao, Jing Wang et al. Nucleic Acids Research profile →
  2. WEB-based GEne SeT AnaLysis Toolkit (WebGestalt): update 2013
    2013 1.2k citations Jing Wang, Dexter T. Duncan et al. Nucleic Acids Research profile →
  3. WebGestalt 2017: a more comprehensive, powerful, flexible and interactive gene set enrichment analysis toolkit
    2017 804 citations Jing Wang, Suhas Vasaikar et al. Nucleic Acids Research profile →
  4. WebGestalt 2024: faster gene set analysis and new support for metabolomics and multi-omics
    2024 96 citations Yuxing Liao, Zhiao Shi et al. Nucleic Acids Research profile →

Peers

Zhiao Shi
Laurent Gautier Denmark
Jason Montojo Canada
Max Franz Canada
Christian Lopes Canada
Khalid Zuberi Canada
Edward Y. Chen United States
Xiaoli Jiao United States
Pengliang Wang China
Marc Legeay France
Jack Pollard United States
Laurent Gautier Denmark
Zhiao Shi
Citations per year, relative to Zhiao Shi Zhiao Shi (= 1×) peers Laurent Gautier

Countries citing papers authored by Zhiao Shi

Since Specialization
Citations

This map shows the geographic impact of Zhiao Shi'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 Zhiao Shi with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Zhiao Shi more than expected).

Fields of papers citing papers by Zhiao Shi

Since Specialization
Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Zhiao Shi. 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 Zhiao Shi. The network helps show where Zhiao Shi may publish in the future.

Co-authorship network of co-authors of Zhiao Shi

This figure shows the co-authorship network connecting the top 25 collaborators of Zhiao Shi. A scholar is included among the top collaborators of Zhiao Shi 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 Zhiao Shi. Zhiao Shi 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.
Wu, Kesheng, Zhiao Shi, Shuaiqiang Wang, et al.. (2025). Mitigating Hallucinations in Large Vision-Language Models via Entity-Centric Multimodal Preference Optimization. 19456–19472. 1 indexed citations
2.
Wen, Bo, Chenwei Wang, Kai Li, et al.. (2025). DeepMVP: deep learning models trained on high-quality data accurately predict PTM sites and variant-induced alterations. Nature Methods. 22(9). 1857–1867. 2 indexed citations
3.
Jaehnig, Eric J., Yuxing Liao, Zhiao Shi, et al.. (2025). Deciphering the dark cancer phosphoproteome using machine-learned co-regulation of phosphosites. Nature Communications. 16(1). 2766–2766. 2 indexed citations
4.
Shi, Zhiao, et al.. (2024). Mapping the functional network of human cancer through machine learning and pan-cancer proteogenomics. Nature Cancer. 6(1). 205–222. 4 indexed citations
5.
Savage, Sara R., Xinpei Yi, Jonathan T. Lei, et al.. (2024). Pan-cancer proteogenomics expands the landscape of therapeutic targets. Cell. 187(16). 4389–4407.e15. 33 indexed citations
6.
Savage, Sara R., Yaoyun Zhang, Eric J. Jaehnig, et al.. (2023). IDPpub: Illuminating the Dark Phosphoproteome Through PubMed Mining. Molecular & Cellular Proteomics. 23(1). 100682–100682. 3 indexed citations
7.
Savage, Sara R., Yuxing Liao, Yongchao Dou, et al.. (2023). Abstract 6575: LinkedOmicsKB: A web portal to explore pan-cancer molecular and phenotype associations. Cancer Research. 83(7_Supplement). 6575–6575. 1 indexed citations
8.
Liao, Yuxing, Sara R. Savage, Yongchao Dou, et al.. (2023). A proteogenomics data-driven knowledge base of human cancer. Cell Systems. 14(9). 777–787.e5. 27 indexed citations
9.
Yoo, Seungyeul, Zhiao Shi, Bo Wen, et al.. (2021). A community effort to identify and correct mislabeled samples in proteogenomic studies. Patterns. 2(5). 100245–100245. 5 indexed citations
10.
Shi, Zhiao, Bo Wen, Qiang Gao, & Bing Zhang. (2021). Feature Selection Methods for Protein Biomarker Discovery from Proteomics or Multiomics Data. Molecular & Cellular Proteomics. 20. 100083–100083. 21 indexed citations
11.
Wang, Jing, Suhas Vasaikar, Zhiao Shi, Michael S. Greer, & Bing Zhang. (2017). WebGestalt 2017: a more comprehensive, powerful, flexible and interactive gene set enrichment analysis toolkit. Nucleic Acids Research. 45(W1). W130–W137. 804 indexed citations breakdown →
12.
Tripathi, Manish K., Natasha G. Deane, Jing Zhu, et al.. (2014). Nuclear Factor of Activated T-cell Activity Is Associated with Metastatic Capacity in Colon Cancer. Cancer Research. 74(23). 6947–6957. 98 indexed citations
13.
Wang, Jing, Dexter T. Duncan, Zhiao Shi, & Bing Zhang. (2013). WEB-based GEne SeT AnaLysis Toolkit (WebGestalt): update 2013. Nucleic Acids Research. 41(W1). W77–W83. 1195 indexed citations breakdown →
14.
Zhu, Jing, Jing Wang, Zhiao Shi, et al.. (2013). Deciphering Genomic Alterations in Colorectal Cancer through Transcriptional Subtype-Based Network Analysis. PLoS ONE. 8(11). e79282–e79282. 16 indexed citations
15.
Jourquin, Jérôme, Dexter T. Duncan, Zhiao Shi, & Bing Zhang. (2012). GLAD4U: deriving and prioritizing gene lists from PubMed literature. BMC Genomics. 13(S8). S20–S20. 94 indexed citations
16.
Zhang, Bing, Zhiao Shi, Dexter T. Duncan, et al.. (2011). Relating protein adduction to gene expression changes: a systems approach. Molecular BioSystems. 7(7). 2118–2127. 24 indexed citations
17.
Shi, Zhiao & Bing Zhang. (2011). Fast network centrality analysis using GPUs. BMC Bioinformatics. 12(1). 149–149. 69 indexed citations
18.
19.
Shi, Zhiao & Jack Dongarra. (2006). Scheduling workflow applications on processors with different capabilities. Future Generation Computer Systems. 22(6). 665–675. 67 indexed citations
20.
Shi, Zhiao & Larry E. Erickson. (2001). Mathematical model development and simulation of in situ stabilization in lead-contaminated soils. Journal of Hazardous Materials. 87(1-3). 99–116. 16 indexed citations

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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