Jonas S. Almeida

8.1k total citations · 1 hit paper
139 papers, 5.5k citations indexed

About

Jonas S. Almeida is a scholar working on Molecular Biology, Artificial Intelligence and Information Systems and Management. According to data from OpenAlex, Jonas S. Almeida has authored 139 papers receiving a total of 5.5k indexed citations (citations by other indexed papers that have themselves been cited), including 79 papers in Molecular Biology, 24 papers in Artificial Intelligence and 17 papers in Information Systems and Management. Recurrent topics in Jonas S. Almeida's work include Genomics and Phylogenetic Studies (23 papers), Scientific Computing and Data Management (17 papers) and Gene expression and cancer classification (15 papers). Jonas S. Almeida is often cited by papers focused on Genomics and Phylogenetic Studies (23 papers), Scientific Computing and Data Management (17 papers) and Gene expression and cancer classification (15 papers). Jonas S. Almeida collaborates with scholars based in United States, Portugal and Brazil. Jonas S. Almeida's co-authors include Susana Vinga, Eberhard O. Voit, Maria A.M. Reis, Manuel J.T. Carrondo, João B. Xavier, Wojciech M. Karłowski, Andrzej Zieleziński, John M. Arthur, Lucas J. Stal and Lukas Mueller and has published in prestigious journals such as Journal of Biological Chemistry, Annals of Internal Medicine and Nature Biotechnology.

In The Last Decade

Jonas S. Almeida

135 papers receiving 5.3k citations

Hit Papers

align trajectories

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.

Alignment-free sequence comparison—a review

2003 549 citations Susana Vinga, Jonas S. Almeida Bioinformatics profile →

Peers — A (Enhanced Table)

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

Name	h						Papers	Cites
Jonas S. Almeida United States	39	2.9k	668	420	415	388	139	5.5k
Kang Ning China	46	4.2k 1.4×	416 0.6×	745 1.8×	370 0.9×	398 1.0×	376	7.9k
Ting Chen China	34	2.0k 0.7×	729 1.1×	297 0.7×	93 0.2×	552 1.4×	203	5.3k
Jiangning Song Australia	57	8.0k 2.7×	412 0.6×	305 0.7×	126 0.3×	401 1.0×	329	10.3k
Bjarne Kjær Ersbøll Denmark	24	2.0k 0.7×	242 0.4×	325 0.8×	165 0.4×	361 0.9×	117	4.5k
Cathy Wu United States	46	7.2k 2.5×	1.3k 1.9×	666 1.6×	107 0.3×	749 1.9×	218	9.4k
Xiaowen Liu China	48	3.4k 1.2×	185 0.3×	200 0.5×	426 1.0×	453 1.2×	403	7.6k
Inge Jonassen Norway	45	4.7k 1.6×	396 0.6×	990 2.4×	93 0.2×	994 2.6×	149	7.9k
Kim‐Anh Lê Cao Australia	43	4.8k 1.7×	218 0.3×	431 1.0×	159 0.4×	841 2.2×	124	9.0k
Ting Chen China	43	3.0k 1.0×	290 0.4×	171 0.4×	128 0.3×	334 0.9×	374	7.1k
Toshihisa Takagi Japan	30	3.3k 1.1×	626 0.9×	565 1.3×	187 0.5×	472 1.2×	128	4.5k

Countries citing papers authored by Jonas S. Almeida

Since Specialization

Citations

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

Fields of papers citing papers by Jonas S. Almeida

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Jonas S. Almeida. 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 Jonas S. Almeida. The network helps show where Jonas S. Almeida may publish in the future.

Co-authorship network of co-authors of Jonas S. Almeida

This figure shows the co-authorship network connecting the top 25 collaborators of Jonas S. Almeida. A scholar is included among the top collaborators of Jonas S. Almeida 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 Jonas S. Almeida. Jonas S. Almeida is excluded from the visualization to improve readability, since they are connected to all nodes in the network.

All Works

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20 of 20 papers shown

Adams, Daniel E., Ioannis Roxanis, Amy Berrington de González, et al.. (2025). Leveraging large language models for structured information extraction from pathology reports. Journal of Pathology Informatics. 19. 100521–100521.

Saint‐Maurice, Pedro F., Joshua R. Freeman, D. Russ, et al.. (2023). Associations between actigraphy-measured sleep duration, continuity, and timing with mortality in the UK Biobank. SLEEP. 47(3). 11 indexed citations

Gupta, Rajarsi, Le Hou, Shahira Abousamra, et al.. (2020). Utilizing Automated Breast Cancer Detection to Identify Spatial Distributions of Tumor-Infiltrating Lymphocytes in Invasive Breast Cancer. American Journal Of Pathology. 190(7). 1491–1504. 73 indexed citations

Saltz, Joel, Ashish Sharma, Jonas S. Almeida, et al.. (2017). A Containerized Software System for Generation, Management, and Exploration of Features from Whole Slide Tissue Images. Cancer Research. 77(21). e79–e82. 33 indexed citations

Dean, Dennis A., Stian Soiland‐Reyes, Michael R. Crusoe, et al.. (2017). BioCompute Project (#BioComputeObjects). OSF Preprints (OSF Preprints). 1 indexed citations

Agosto‐Arroyo, Emmanuel, Tatyana Isayeva, Shi Wei, Jonas S. Almeida, & Shuko Harada. (2017). Differential Gene Expression in Ductal Carcinoma in Situ of the Breast Based on ERBB2 Status. Cancer Control. 24(1). 102–110. 5 indexed citations

Neely, Benjamin A., Jason A. Ferrante, J. M. Chaves, et al.. (2015). Proteomic Analysis of Plasma from California Sea Lions (Zalophus californianus) Reveals Apolipoprotein E as a Candidate Biomarker of Chronic Domoic Acid Toxicosis. PLoS ONE. 10(4). e0123295–e0123295. 12 indexed citations

Almeida, Jonas S., et al.. (2012). Fractal MapReduce decomposition of sequence alignment. Algorithms for Molecular Biology. 7(1). 12–12. 18 indexed citations

Geli, Patricia, et al.. (2006). Modeling Pneumococcal Resistance to Penicillin in Southern Sweden Using Artificial Neural Networks. Microbial Drug Resistance. 12(3). 149–157. 7 indexed citations

10.

Almeida, Jonas S. & Susana Vinga. (2006). Computing distribution of scale independent motifs in biological sequences. Algorithms for Molecular Biology. 1(1). 18–18. 13 indexed citations

11.

Voit, Eberhard O., Jonas S. Almeida, Simeone Marino, et al.. (2006). Regulation of glycolysis in Lactococcus lactis: an unfinished systems biological case study. PubMed. 153(4). 286–286. 49 indexed citations

12.

Mato, R., Ilda Santos‐Sanches, C. Simas, et al.. (2005). Natural History of Drug-Resistant Clones of Streptococcuspneumoniae Colonizing Healthy Children in Portugal. Microbial Drug Resistance. 11(4). 309–322. 22 indexed citations

13.

Mikhitarian, Kaidi, William E. Gillanders, Jonas S. Almeida, et al.. (2005). An Innovative Microarray Strategy Identities Informative Molecular Markers for the Detection of Micrometastatic Breast Cancer. Clinical Cancer Research. 11(10). 3697–3704. 24 indexed citations

14.

Frazão, Nelson, António Brito‐Avô, C. Simas, et al.. (2005). Effect of the Seven-Valent Conjugate Pneumococcal Vaccine on Carriage and Drug Resistance of Streptococcus pneumoniae in Healthy Children Attending Day-Care Centers in Lisbon. The Pediatric Infectious Disease Journal. 24(3). 243–252. 83 indexed citations

15.

Vinga, Susana & Jonas S. Almeida. (2003). Alignment-free sequence comparison—a review. Bioinformatics. 19(4). 513–523. 549 indexed citations breakdown →

16.

Almeida, Jonas S., et al.. (2003). XML4MAT: Inter-conversion between MatlabTMstructured variables and the markup language MbML. SSRN Electronic Journal.

17.

Cowart, L. Ashley, et al.. (2003). Roles for Sphingolipid Biosynthesis in Mediation of Specific Programs of the Heat Stress Response Determined through Gene Expression Profiling. Journal of Biological Chemistry. 278(32). 30328–30338. 42 indexed citations

18.

Blehert, David S., Robert Palmer, João B. Xavier, Jonas S. Almeida, & Paul E. Kolenbrander. (2003). Autoinducer 2 Production byStreptococcusgordoniiDL1 and the Biofilm Phenotype of aluxSMutant Are Influenced by Nutritional Conditions. Journal of Bacteriology. 185(16). 4851–4860. 97 indexed citations

19.

Xavier, João B., Annette Schnell, Stefan Wuertz, et al.. (2001). Objective threshold selection procedure (OTS) for segmentation of scanning laser confocal microscope images. Journal of Microbiological Methods. 47(2). 169–180. 42 indexed citations

20.

Xavier, João B., et al.. (2000). Description of biofilm formation by determination of developmental axis. Water Science & Technology. 41(4-5). 121–127. 7 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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