Alaina Shumate

7.5k total citations · 3 hit papers
11 papers, 1.1k citations indexed

About

Alaina Shumate is a scholar working on Molecular Biology, Plant Science and Genetics. According to data from OpenAlex, Alaina Shumate has authored 11 papers receiving a total of 1.1k indexed citations (citations by other indexed papers that have themselves been cited), including 9 papers in Molecular Biology, 4 papers in Plant Science and 2 papers in Genetics. Recurrent topics in Alaina Shumate's work include Genomics and Phylogenetic Studies (7 papers), Chromosomal and Genetic Variations (4 papers) and RNA and protein synthesis mechanisms (4 papers). Alaina Shumate is often cited by papers focused on Genomics and Phylogenetic Studies (7 papers), Chromosomal and Genetic Variations (4 papers) and RNA and protein synthesis mechanisms (4 papers). Alaina Shumate collaborates with scholars based in United States, India and United Kingdom. Alaina Shumate's co-authors include Steven L. Salzberg, Mihaela Pertea, Geo Pertea, Brandon Wong, Ales Varabyou, Florian P. Breitwieser, Anil K. Madugundu, Akhilesh Pandey, Arang Rhie and Daniela Puiu and has published in prestigious journals such as Science, Bioinformatics and Nature Methods.

In The Last Decade

Alaina Shumate

11 papers receiving 1.1k 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.

Liftoff: accurate mapping of gene annotations

2020 410 citations Alaina Shumate, Steven L. Salzberg Bioinformatics profile →
Improved transcriptome assembly using a hybrid of long and short reads with StringTie

2022 224 citations Alaina Shumate, Brandon Wong et al. PLoS Computational Biology profile →
Epigenetic patterns in a complete human genome

2022 146 citations Ariel Gershman, Michael E.G. Sauria et al. Science profile →

Peers — A (Enhanced Table)

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

Name	h						Papers	Cites
Alaina Shumate United States	9	761	414	277	110	48	11	1.1k
Junjie Shi China	11	571 0.8×	653 1.6×	412 1.5×	92 0.8×	44 0.9×	25	1.2k
Colin Diesh United States	9	678 0.9×	304 0.7×	305 1.1×	95 0.9×	69 1.4×	13	1.0k
Arnaud Kerhornou United Kingdom	8	848 1.1×	295 0.7×	398 1.4×	171 1.6×	37 0.8×	9	1.4k
Roham Razaghi United States	7	1.0k 1.3×	437 1.1×	239 0.9×	217 2.0×	78 1.6×	7	1.5k
Derek W. Barnett United States	7	660 0.9×	242 0.6×	280 1.0×	78 0.7×	45 0.9×	7	1.0k
Jon-Matthew Belton United States	7	917 1.2×	426 1.0×	185 0.7×	56 0.5×	42 0.9×	10	1.1k
Marco Mangone United States	13	1.1k 1.5×	282 0.7×	248 0.9×	157 1.4×	18 0.4×	21	1.4k
Karen H. Miga United States	17	1.1k 1.4×	748 1.8×	429 1.5×	100 0.9×	39 0.8×	24	1.4k
Tyler Alioto Spain	15	615 0.8×	263 0.6×	200 0.7×	52 0.5×	60 1.3×	47	1.2k
Daniel Mapleson United Kingdom	9	532 0.7×	390 0.9×	116 0.4×	106 1.0×	67 1.4×	9	897

Countries citing papers authored by Alaina Shumate

Since Specialization

Citations

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

Fields of papers citing papers by Alaina Shumate

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

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

Co-authorship network of co-authors of Alaina Shumate

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

11 of 11 papers shown

1.

Dohlman, Anders B., Robin Mjelle, Henry M. Wood, et al.. (2025). Abstract 6530: A comprehensive genomic analysis elucidates the microbial landscape of cancer. Cancer Research. 85(8_Supplement_1). 6530–6530. 1 indexed citations

2.

Heinz, Jakob, et al.. (2024). Combining DNA and protein alignments to improve genome annotation with LiftOn. Genome Research. 35(2). 311–325. 2 indexed citations

3.

Varabyou, Ales, Markus J. Sommer, Jakob Heinz, et al.. (2023). CHESS 3: an improved, comprehensive catalog of human genes and transcripts based on large-scale expression data, phylogenetic analysis, and protein structure. Genome biology. 24(1). 249–249. 16 indexed citations

4.

Cartney, Ann M. Mc, Kishwar Shafin, Michael Alonge, et al.. (2022). Chasing perfection: validation and polishing strategies for telomere-to-telomere genome assemblies. Nature Methods. 19(6). 687–695. 54 indexed citations

5.

Shumate, Alaina, Brandon Wong, Geo Pertea, & Mihaela Pertea. (2022). Improved transcriptome assembly using a hybrid of long and short reads with StringTie. PLoS Computational Biology. 18(6). e1009730–e1009730. 224 indexed citations breakdown →

6.

Gershman, Ariel, Michael E.G. Sauria, Xavi Guitart, et al.. (2022). Epigenetic patterns in a complete human genome. Science. 376(6588). eabj5089–eabj5089. 146 indexed citations breakdown →

7.

Zimin, Aleksey V., Alaina Shumate, Jakob Heinz, et al.. (2021). A reference-quality, fully annotated genome from a Puerto Rican individual. Genetics. 220(2). 8 indexed citations

8.

Shumate, Alaina & Steven L. Salzberg. (2020). Liftoff: accurate mapping of gene annotations. Bioinformatics. 37(12). 1639–1643. 410 indexed citations breakdown →

9.

Shumate, Alaina, Aleksey V. Zimin, Rachel M. Sherman, et al.. (2020). Assembly and annotation of an Ashkenazi human reference genome. Genome biology. 21(1). 129–129. 31 indexed citations

10.

Alonge, Michael, Alaina Shumate, Daniela Puiu, Aleksey V. Zimin, & Steven L. Salzberg. (2020). Chromosome-Scale Assembly of the Bread Wheat Genome Reveals Thousands of Additional Gene Copies. Genetics. 216(2). 599–608. 24 indexed citations

11.

Pertea, Mihaela, Alaina Shumate, Geo Pertea, et al.. (2018). CHESS: a new human gene catalog curated from thousands of large-scale RNA sequencing experiments reveals extensive transcriptional noise. Genome biology. 19(1). 208–208. 170 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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