Sam Kovaka

2.9k total citations · 1 hit paper
10 papers, 1.4k citations indexed

About

Sam Kovaka is a scholar working on Molecular Biology, Artificial Intelligence and Biomedical Engineering. According to data from OpenAlex, Sam Kovaka has authored 10 papers receiving a total of 1.4k indexed citations (citations by other indexed papers that have themselves been cited), including 9 papers in Molecular Biology, 2 papers in Artificial Intelligence and 2 papers in Biomedical Engineering. Recurrent topics in Sam Kovaka's work include Genomics and Phylogenetic Studies (7 papers), RNA modifications and cancer (5 papers) and RNA and protein synthesis mechanisms (3 papers). Sam Kovaka is often cited by papers focused on Genomics and Phylogenetic Studies (7 papers), RNA modifications and cancer (5 papers) and RNA and protein synthesis mechanisms (3 papers). Sam Kovaka collaborates with scholars based in United States, China and Netherlands. Sam Kovaka's co-authors include Roham Razaghi, Aleksey V. Zimin, Steven L. Salzberg, Geo Pertea, Mihaela Pertea, Michael C. Schatz, Winston Timp, Yunfan Fan, Bohan Ni and Katharine M. Jenike and has published in prestigious journals such as Nucleic Acids Research, Nature Biotechnology and Bioinformatics.

In The Last Decade

Sam Kovaka

10 papers receiving 1.4k 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.

Transcriptome assembly from long-read RNA-seq alignments with StringTie2

2019 1.1k citations Sam Kovaka, Aleksey V. Zimin et al. Genome biology profile →

Peers — A (Enhanced Table)

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

Name	h						Papers	Cites
Sam Kovaka United States	8	937	404	236	191	104	10	1.4k
Roham Razaghi United States	7	1.0k 1.1×	437 1.1×	217 0.9×	239 1.3×	87 0.8×	7	1.5k
Leszek P. Pryszcz Spain	18	1.1k 1.2×	323 0.8×	182 0.8×	219 1.1×	103 1.0×	36	1.5k
Anna I. Rissman United States	6	962 1.0×	395 1.0×	192 0.8×	161 0.8×	184 1.8×	6	1.6k
Delphine Naquin France	16	896 1.0×	339 0.8×	174 0.7×	244 1.3×	192 1.8×	31	1.4k
Elizabeth Tseng United States	20	1.5k 1.6×	480 1.2×	433 1.8×	251 1.3×	153 1.5×	42	1.9k
Ioanna Kalvari United Kingdom	5	1.2k 1.3×	437 1.1×	234 1.0×	156 0.8×	243 2.3×	8	1.7k
Yuxin Chen China	3	747 0.8×	373 0.9×	113 0.5×	279 1.5×	191 1.8×	5	1.3k
Nitesh Turaga United States	6	1.1k 1.1×	227 0.6×	215 0.9×	195 1.0×	181 1.7×	6	1.7k
Joanna Argasinska United Kingdom	8	1.2k 1.3×	402 1.0×	237 1.0×	157 0.8×	243 2.3×	9	1.6k
Sonia Tarazona Spain	10	1.4k 1.5×	489 1.2×	370 1.6×	328 1.7×	153 1.5×	14	2.4k

Countries citing papers authored by Sam Kovaka

Since Specialization

Citations

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

Fields of papers citing papers by Sam Kovaka

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

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

Co-authorship network of co-authors of Sam Kovaka

This figure shows the co-authorship network connecting the top 25 collaborators of Sam Kovaka. A scholar is included among the top collaborators of Sam Kovaka 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 Sam Kovaka. Sam Kovaka 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:

10 of 10 papers shown

1.

Hwang, Stephen, et al.. (2025). Mem-based pangenome indexing for k-mer queries. Algorithms for Molecular Biology. 20(1). 3–3. 1 indexed citations

2.

Kovaka, Sam, Paul W. Hook, Katharine M. Jenike, et al.. (2025). Uncalled4 improves nanopore DNA and RNA modification detection via fast and accurate signal alignment. Nature Methods. 22(4). 681–691. 13 indexed citations

3.

Kovaka, Sam, et al.. (2024). Sigmoni: classification of nanopore signal with a compressed pangenome index. Bioinformatics. 40(Supplement_1). i287–i296. 6 indexed citations

4.

Kovaka, Sam, Shujun Ou, Katharine M. Jenike, & Michael C. Schatz. (2023). Approaching complete genomes, transcriptomes and epi-omes with accurate long-read sequencing. Nature Methods. 20(1). 12–16. 37 indexed citations

5.

Baslan, Timour, Sam Kovaka, Fritz J. Sedlazeck, et al.. (2021). High resolution copy number inference in cancer using short-molecule nanopore sequencing. Nucleic Acids Research. 49(21). e124–e124. 13 indexed citations

6.

Rossi, Massimiliano, Sam Kovaka, Michael C. Schatz, et al.. (2021). Pan-genomic matching statistics for targeted nanopore sequencing. iScience. 24(6). 102696–102696. 19 indexed citations

7.

Kovaka, Sam, Yunfan Fan, Bohan Ni, Winston Timp, & Michael C. Schatz. (2020). Targeted nanopore sequencing by real-time mapping of raw electrical signal with UNCALLED. Nature Biotechnology. 39(4). 431–441. 156 indexed citations

8.

Kovaka, Sam, Aleksey V. Zimin, Geo Pertea, et al.. (2019). Transcriptome assembly from long-read RNA-seq alignments with StringTie2. Genome biology. 20(1). 278–278. 1057 indexed citations breakdown →

9.

Wang, Zhe, Ke Ma, Yulan Cheng, et al.. (2018). Novel circular RNA circNF1 acts as a molecular sponge, promoting gastric cancer by absorbing miR-16. Endocrine Related Cancer. 26(3). 265–277. 53 indexed citations

10.

Wu, Baojun, Zhangyi Xu, Alexis Carlson, et al.. (2018). Genomics and Development ofLentinus tigrinus: A White-Rot Wood-Decaying Mushroom with Dimorphic Fruiting Bodies. Genome Biology and Evolution. 10(12). 3250–3261. 32 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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