Sean Whalen

3.8k total citations
31 papers, 948 citations indexed

About

Sean Whalen is a scholar working on Molecular Biology, Artificial Intelligence and Computer Networks and Communications. According to data from OpenAlex, Sean Whalen has authored 31 papers receiving a total of 948 indexed citations (citations by other indexed papers that have themselves been cited), including 13 papers in Molecular Biology, 9 papers in Artificial Intelligence and 4 papers in Computer Networks and Communications. Recurrent topics in Sean Whalen's work include Genomics and Chromatin Dynamics (8 papers), RNA Research and Splicing (5 papers) and Bioinformatics and Genomic Networks (4 papers). Sean Whalen is often cited by papers focused on Genomics and Chromatin Dynamics (8 papers), RNA Research and Splicing (5 papers) and Bioinformatics and Genomic Networks (4 papers). Sean Whalen collaborates with scholars based in United States and Germany. Sean Whalen's co-authors include Katherine S. Pollard, Rebecca Truty, William Stafford Noble, Jacob Schreiber, Matt Bishop, Sean Peisert, Carrie Gates, Alark Joshi, Matthew W. State and John L.R. Rubenstein and has published in prestigious journals such as Cell, Journal of Biological Chemistry and Circulation.

In The Last Decade

Sean Whalen

29 papers receiving 925 citations

Peers — A (Enhanced Table)

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

Name	h						Papers	Cites
Sean Whalen United States	15	606	168	95	74	72	31	948
Miloš Nikolić Germany	15	571 0.9×	187 1.1×	40 0.4×	101 1.4×	88 1.2×	38	880
Homin K. Lee United States	7	665 1.1×	95 0.6×	105 1.1×	53 0.7×	54 0.8×	16	950
Chun-Hsi Huang United States	13	428 0.7×	95 0.6×	116 1.2×	69 0.9×	37 0.5×	61	686
Asif Javed United States	13	215 0.4×	207 1.2×	78 0.8×	30 0.4×	31 0.4×	43	733
Son Nguyen Vietnam	12	482 0.8×	190 1.1×	70 0.7×	78 1.1×	252 3.5×	33	980
Abhishek Mitra United States	11	539 0.9×	89 0.5×	106 1.1×	131 1.8×	64 0.9×	20	825
Rui Kuang United States	24	987 1.6×	77 0.5×	249 2.6×	21 0.3×	51 0.7×	74	1.6k
Da Kuang United States	12	398 0.7×	119 0.7×	277 2.9×	19 0.3×	27 0.4×	25	1.0k
Mohamed Abouelhoda Saudi Arabia	20	822 1.4×	388 2.3×	335 3.5×	99 1.3×	98 1.4×	72	1.6k
George S. Davidson United States	20	780 1.3×	121 0.7×	101 1.1×	58 0.8×	92 1.3×	49	1.6k

Countries citing papers authored by Sean Whalen

Since Specialization

Citations

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

Fields of papers citing papers by Sean Whalen

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

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

Co-authorship network of co-authors of Sean Whalen

This figure shows the co-authorship network connecting the top 25 collaborators of Sean Whalen. A scholar is included among the top collaborators of Sean Whalen 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 Sean Whalen. Sean Whalen 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

Ranade, Sanjeev S., Feiya Li, Sean Whalen, et al.. (2024). Abstract 4140108: A CRISPR-Activation CROP-seq Screen Identifies HMGN1 as a Dosage-Sensitive Regulator of Heart Defects in Down Syndrome. Circulation. 150(Suppl_1).

Shah, Parisha P., Kathleen C. Keough, Richard J. Abdill, et al.. (2023). An atlas of lamina-associated chromatin across twelve human cell types reveals an intermediate chromatin subtype. Genome biology. 24(1). 16–16. 39 indexed citations

Markenscoff-Papadimitriou, Eirene, Sean Whalen, James D. Price, et al.. (2021). Autism risk gene POGZ promotes chromatin accessibility and expression of clustered synaptic genes. Cell Reports. 37(10). 110089–110089. 40 indexed citations

Whalen, Sean, Jacob Schreiber, William Stafford Noble, & Katherine S. Pollard. (2021). Navigating the pitfalls of applying machine learning in genomics. Nature Reviews Genetics. 23(3). 169–181. 137 indexed citations

Gordon, M. Grace, Fumitaka Inoue, Beth Martin, et al.. (2020). lentiMPRA and MPRAflow for high-throughput functional characterization of gene regulatory elements. Nature Protocols. 15(8). 2387–2412. 70 indexed citations

Markenscoff-Papadimitriou, Eirene, Sean Whalen, Pawel F. Przytycki, et al.. (2020). A Chromatin Accessibility Atlas of the Developing Human Telencephalon. Cell. 182(3). 754–769.e18. 49 indexed citations

Keough, Kathleen C., Svetlana Lyalina, Michael Olvera, et al.. (2019). AlleleAnalyzer: a tool for personalized and allele-specific sgRNA design. Genome biology. 20(1). 167–167. 19 indexed citations

Whalen, Sean & Katherine S. Pollard. (2019). Most chromatin interactions are not in linkage disequilibrium. Genome Research. 29(3). 334–343. 23 indexed citations

Moquin, Stephanie, Sean Thomas, Sean Whalen, et al.. (2017). The Epstein-Barr Virus Episome Maneuvers between Nuclear Chromatin Compartments during Reactivation. Journal of Virology. 92(3). 46 indexed citations

10.

Whalen, Sean, et al.. (2017). Unboxing cluster heatmaps. BMC Bioinformatics. 18(S2). 63–63. 27 indexed citations

11.

Whalen, Sean, Rebecca Truty, & Katherine S. Pollard. (2016). Enhancer–promoter interactions are encoded by complex genomic signatures on looping chromatin. Nature Genetics. 48(5). 488–496. 284 indexed citations

12.

Whalen, Sean, et al.. (2015). Predicting protein function and other biomedical characteristics with heterogeneous ensembles. Methods. 93. 92–102. 14 indexed citations

13.

Pandey, Gaurav, et al.. (2014). Enhancing the Functional Content of Eukaryotic Protein Interaction Networks. PLoS ONE. 9(10). e109130–e109130. 4 indexed citations

14.

Whalen, Sean, Matt Bishop, & James P. Crutchfield. (2012). Hidden Markov Models for Automated Protocol Learning.

15.

Crutchfield, James P. & Sean Whalen. (2012). Structural Drift: The Population Dynamics of Sequential Learning. PLoS Computational Biology. 8(6). e1002510–e1002510. 4 indexed citations

16.

Whalen, Sean, et al.. (2012). Visualizing distributed memory computations with hive plots. 56–63. 12 indexed citations

17.

Whalen, Sean, et al.. (2012). Network-theoretic classification of parallel computation patterns. The International Journal of High Performance Computing Applications. 26(2). 159–169. 8 indexed citations

18.

Whalen, Sean, et al.. (2008). Tree Approach to Vulnerability Classification. 8 indexed citations

19.

Bishop, Matt, et al.. (2008). We have met the enemy and he is us. 1–12. 57 indexed citations

20.

Whalen, Sean, et al.. (1999). Transcriptional Activation following Cerebral Ischemia in Mice of a Promoter-deleted Nitric Oxide Synthase-2 Gene. Journal of Biological Chemistry. 274(13). 8844–8849. 12 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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