Jared T. Simpson

59.5k total citations · 5 hit papers
32 papers, 7.3k citations indexed

About

Jared T. Simpson is a scholar working on Molecular Biology, Plant Science and Infectious Diseases. According to data from OpenAlex, Jared T. Simpson has authored 32 papers receiving a total of 7.3k indexed citations (citations by other indexed papers that have themselves been cited), including 24 papers in Molecular Biology, 6 papers in Plant Science and 5 papers in Infectious Diseases. Recurrent topics in Jared T. Simpson's work include Genomics and Phylogenetic Studies (14 papers), RNA and protein synthesis mechanisms (10 papers) and RNA modifications and cancer (8 papers). Jared T. Simpson is often cited by papers focused on Genomics and Phylogenetic Studies (14 papers), RNA and protein synthesis mechanisms (10 papers) and RNA modifications and cancer (8 papers). Jared T. Simpson collaborates with scholars based in Canada, United Kingdom and United States. Jared T. Simpson's co-authors include Nicholas J. Loman, Shaun D. Jackman, Steven J.M. Jones, Kim Wong, İnanç Birol, Jacqueline E. Schein, Richard Durbin, Joshua Quick, Christopher Quince and Alan W. Walker and has published in prestigious journals such as SHILAP Revista de lepidopterología, Nature Biotechnology and Bioinformatics.

In The Last Decade

Jared T. Simpson

31 papers receiving 7.2k citations

Hit Papers

5 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.

ABySS: A parallel assembler for short read sequence data

2009 2.6k citations Jared T. Simpson, Kim Wong et al. Genome Research profile →
Shotgun metagenomics, from sampling to analysis

2017 1.1k citations Jared T. Simpson, Nicholas J. Loman et al. profile →
A complete bacterial genome assembled de novo using only nanopore sequencing data

2015 822 citations Nicholas J. Loman, Joshua Quick et al. Nature Methods profile →
Detecting DNA cytosine methylation using nanopore sequencing

2017 655 citations Jared T. Simpson, Rachael E. Workman et al. Nature Methods profile →
Efficient de novo assembly of large genomes using compressed data structures

2011 487 citations Jared T. Simpson, Richard Durbin Genome Research profile →

Peers — A (Enhanced Table)

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

Name	h						Papers	Cites
Jared T. Simpson Canada	20	5.3k	1.7k	1.4k	1.1k	635	32	7.3k
Brian P. Walenz United States	21	5.8k 1.1×	3.2k 1.9×	1.5k 1.1×	1.6k 1.4×	435 0.7×	30	8.9k
Chen-Shan Chin United States	25	5.3k 1.0×	2.2k 1.3×	1.3k 1.0×	1.2k 1.1×	661 1.0×	34	8.2k
Daniel R. Zerbino United Kingdom	19	6.5k 1.2×	2.7k 1.6×	1.9k 1.4×	1.6k 1.4×	547 0.9×	29	10.2k
Sitao Wu United States	23	6.7k 1.3×	1.6k 0.9×	2.1k 1.5×	1.0k 0.9×	484 0.8×	47	10.4k
Kathleen Marchal Belgium	43	5.6k 1.0×	2.1k 1.3×	697 0.5×	1.5k 1.3×	1.1k 1.7×	215	8.4k
Martin Shumway United States	11	4.9k 0.9×	1.8k 1.1×	1.3k 0.9×	1.3k 1.1×	495 0.8×	12	7.7k
Todd J. Treangen United States	28	4.9k 0.9×	1.4k 0.8×	1.7k 1.2×	1.1k 0.9×	725 1.1×	92	7.7k
Jason Miller United States	19	5.5k 1.0×	2.7k 1.6×	1.3k 0.9×	1.8k 1.6×	435 0.7×	56	9.0k
Scott Schwartz United States	25	5.0k 0.9×	2.2k 1.3×	1.1k 0.8×	1.8k 1.6×	342 0.5×	36	8.4k
Thomas Abeel United States	27	4.9k 0.9×	2.1k 1.3×	1.4k 1.0×	967 0.9×	703 1.1×	78	8.3k

Countries citing papers authored by Jared T. Simpson

Since Specialization

Citations

This map shows the geographic impact of Jared T. Simpson'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 Jared T. Simpson with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Jared T. Simpson more than expected).

Fields of papers citing papers by Jared T. Simpson

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Jared T. Simpson. 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 Jared T. Simpson. The network helps show where Jared T. Simpson may publish in the future.

Co-authorship network of co-authors of Jared T. Simpson

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

All Works

Sort: Min cites: Since: Top N: Style:

20 of 20 papers shown

Erdos, Michael R., Isac Lee, Jared T. Simpson, et al.. (2025). Detecting Protein-DNA binding in single molecules using antibody guided methylation. Epigenetics & Chromatin. 18(1). 39–39.

Sjaarda, Calvin, Lynette Lau, Jared T. Simpson, et al.. (2023). Prevalence of Low-Frequency, Antiviral Resistance Variants in SARS-CoV-2 Isolates in Ontario, Canada, 2020-2023. JAMA Network Open. 6(7). e2324963–e2324963. 5 indexed citations

Kain, Dylan, Sandra Isabel, Richard de Borja, et al.. (2023). Coronavirus disease 2019 (COVID-19) outbreak on an in-patient medical unit associated with unrecognized exposures in common areas—Epidemiological and whole-genome sequencing investigation. Infection Control and Hospital Epidemiology. 44(11). 1829–1833. 1 indexed citations

Isabel, Sandra, Marc R. Isabel, Richard de Borja, et al.. (2022). Emergence of a mutation in the nucleocapsid gene of SARS-CoV-2 interferes with PCR detection in Canada. Scientific Reports. 12(1). 10867–10867. 10 indexed citations

Simpson, Jared T., David G. Muñoz, Sunit Das, et al.. (2022). A Novel Approach to Detect IDH Point Mutations in Gliomas Using Nanopore Sequencing. Journal of Molecular Diagnostics. 25(3). 133–142. 9 indexed citations

Casalino, Selina, Chloe Mighton, Hanna Faghfoury, et al.. (2022). Genome Reporting for Healthy Populations—Pipeline for Genomic Screening from the GENCOV COVID‐19 Study. Current Protocols. 2(10). e534–e534. 2 indexed citations

Guthrie, Jennifer L., Sarah Teatero, Sandra Zittermann, et al.. (2021). Detection of the novel SARS-CoV-2 European lineage B.1.177 in Ontario, Canada. SHILAP Revista de lepidopterología. 1(1-2). 100010–100010. 8 indexed citations

Lee, Isac, Roham Razaghi, Timothy Gilpatrick, et al.. (2020). Simultaneous profiling of chromatin accessibility and methylation on human cell lines with nanopore sequencing. Nature Methods. 17(12). 1191–1199. 122 indexed citations

Anreiter, Ina, et al.. (2020). New Twists in Detecting mRNA Modification Dynamics. Trends in biotechnology. 39(1). 72–89. 99 indexed citations

10.

Müller, Carolin A., Michael A. Boemo, Benedikt M. Kessler, et al.. (2019). Capturing the dynamics of genome replication on individual ultra-long nanopore sequence reads. Nature Methods. 16(5). 429–436. 83 indexed citations

11.

Simpson, Jared T., Rachael E. Workman, Philip C. Zuzarte, et al.. (2017). Detecting DNA cytosine methylation using nanopore sequencing. Nature Methods. 14(4). 407–410. 655 indexed citations breakdown →

12.

David, Matei, et al.. (2016). Nanocall: an open source basecaller for Oxford Nanopore sequencing data. Bioinformatics. 33(1). 49–55. 86 indexed citations

13.

Liu, Zhicheng, Matthew Cotten, Jared T. Simpson, et al.. (2016). Using reference-free compressed data structures to analyze sequencing reads from thousands of human genomes. Genome Research. 27(2). 300–309. 10 indexed citations

14.

Chikhi, Rayan, Antoine Limasset, Shaun D. Jackman, Jared T. Simpson, & Paul Medvedev. (2015). On the Representation of De Bruijn Graphs. Journal of Computational Biology. 22(5). 336–352. 36 indexed citations

15.

Loman, Nicholas J., Joshua Quick, & Jared T. Simpson. (2015). A complete bacterial genome assembled de novo using only nanopore sequencing data. Nature Methods. 12(8). 733–735. 822 indexed citations breakdown →

16.

Bergström, Anders, Jared T. Simpson, F. Salinas, et al.. (2014). A High-Definition View of Functional Genetic Variation from Natural Yeast Genomes. Molecular Biology and Evolution. 31(4). 872–888. 216 indexed citations

17.

Simpson, Jared T. & Richard Durbin. (2011). Efficient de novo assembly of large genomes using compressed data structures. Genome Research. 22(3). 549–556. 487 indexed citations breakdown →

18.

Warringer, Jonas, Francisco A. Cubillos, Amin Zia, et al.. (2011). Trait Variation in Yeast Is Defined by Population History. PLoS Genetics. 7(6). e1002111–e1002111. 259 indexed citations

19.

Parts, Leopold, Francisco A. Cubillos, Jonas Warringer, et al.. (2011). Revealing the genetic structure of a trait by sequencing a population under selection. Genome Research. 21(7). 1131–1138. 190 indexed citations

20.

Simpson, Jared T., Kim Wong, Shaun D. Jackman, et al.. (2009). ABySS: A parallel assembler for short read sequence data. Genome Research. 19(6). 1117–1123. 2603 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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