Bret Freudenthal

Also affiliated with University of Kansas Medical Center

Earth and Planetary SciencesEnvironmental ScienceBiochemistry, Genetics and Molecular Biology

Pilot corpus only

This score is computed over theSindex pilot corpus and does not cover the full scientific literature. Scores are relative to papers we have ingested — papers, authors, and institutions outside the pilot are not represented. Methodology.

Top 100%percentile

0Author DataRank

Indexed papers

1in pilot corpus

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Why this DataRank?

An author's DataRank is the sum of the DataRanks of all 1 indexed paper attributed to them. A prolific author with many moderate-impact papers can outrank one with a single high-impact paper.

Author scores recompute whenever paper DataRanks are refreshed, so this number lags the underlying paper scores by at most one batch run.

Read the full methodology →

Papers

Driven by 41 papers. Top paper: “AP-endonuclease 1 sculpts DNA through an anchoring tyrosine residue on the DNA intercalating loop”.

AP-endonuclease 1 sculpts DNA through an anchoring tyrosine residue on the DNA intercalating loop

Nucleic Acids Research(2020)10.1093/nar/gkaa496

N/A

1.0DataRank · unranked

30 citations

Amy M. Whitaker, Emily C. Beckwitt, Sunbok Jang, Pratul K. Agarwal, Bennett Van Houten +2 more

Anthrax toxin translocation complex reveals insight into the lethal factor unfolding and refolding mechanism

Scientific Reports(2021)10.1038/s41598-021-91596-3

N/A

0.870DataRank · unranked

23 citations

Mark T. Fisher, Bret Freudenthal, Alexandra J. Machen

A two-residue nascent-strand steric gate controls synthesis of 2′-O-methyl- and 2′-O-(2-methoxyethyl)-RNA

Nature Chemistry(2022)10.1038/s41557-022-01050-8

N/A

0.614DataRank · unranked

59 citations

Alexander I. Taylor, Sebastian Arangundy‐Franklin, Nithya Subramanian, Sew‐Yeu Peak‐Chew, Amy M. Whitaker +5 more

Nucleolytic processing of abasic sites underlies PARP inhibitor hypersensitivity in ALC1-deficient BRCA mutant cancer cells

Nature Communications(2024)10.1038/s41467-024-50673-7

N/A

0.520DataRank · unranked

31 citations

Tyler Weaver, Lindsey N Aubuchon, Ayda Woldegerima, Taylor Just, Kevin Song +4 more

Contributing factors to the oxidation-induced mutational landscape in human cells

Nature Communications(2024)10.1038/s41467-024-55497-z

N/A

0.504DataRank · unranked

18 citations

Kavi P.M. Mehta, Tyler Weaver, Justin A. Ling, Bret Freudenthal, David Cortez +2 more

Molecular insights into the structure and function of the Staphylococcus aureus fatty acid kinase

Journal of Biological Chemistry(2024)10.1016/j.jbc.2024.107920

N/A

0.390DataRank · unranked

8 citations

Zhen Xu, Benjamin Ryan, Zachary DeMars, Miranda J. Ridder, David K. Johnson +9 more

APE1 active site residue Asn174 stabilizes the AP site and is essential for catalysis

Journal of Biological Chemistry(2025)10.1016/j.jbc.2025.110655

N/A

0.241DataRank · unranked

4 citations

Nicole M. Hoitsma, Spencer H. Thompson, Veniamin A. Borin, Pratul K. Agarwal, Bret Freudenthal +1 more

Structure of Blm10:13S proteasome intermediate reveals parallel assembly pathways for the proteasome core particle

10.1101/2024.11.04.621988

N/A

0.241DataRank · unranked

4 citations

Xiang Chen, Stella Y. Lee, Tyler M. Weaver, Bret Freudenthal, Kylie J. Walters +2 more

Biochemical and structural characterization of Fapy•dG replication by Human DNA polymerase β

Nucleic Acids Research(2024)10.1093/nar/gkae277

N/A

0.239DataRank · unranked

3 citations

Peyton N. Oden, Benjamin Ryan, Haozhe Yang, Bret Freudenthal, Marc M. Greenberg +1 more

Human ribomes reveal DNA-embedded ribonucleotides as a new type of epigenetic mark

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.06.27.661996

N/A

0.104DataRank · unranked

1 citations

Taehwan Yang, Tejasvi Channagiri, Penghao Xu, Y Lee, Mo Sun +20 more

Structural basis for APE1 processing DNA damage in the nucleosome

Nature Communications(2022)10.1038/s41467-022-33057-7

N/A

0DataRank · unranked

69 citations

Nicole M. Hoitsma, Jonah J. Spencer, Lokesh Gakhar, Nicholas Schnicker, Bret Freudenthal +1 more

Processing oxidatively damaged bases at DNA strand breaks by APE1

Nucleic Acids Research(2022)10.1093/nar/gkac695

N/A

0DataRank · unranked

22 citations

Wesley J. Stark, Bret Freudenthal, Amy M. Whitaker

Transcriptional regulation via strand displacement DNA repair in G‐quadruplexes

The FASEB Journal(2022)10.1096/fasebj.2022.36.s1.0r292

N/A

0DataRank · unranked

1 citations

Bret Freudenthal, Amy M. Whitaker

Structural basis for APE1 processing DNA damage in the nucleosome

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.03.09.483662

N/A

0DataRank · unranked

2 citations

Nicole M. Hoitsma, Jonah J. Spencer, Lokesh Gakhar, Nicholas Schnicker, Bret Freudenthal +1 more

Visualizing the Coordination of APE1 and DNA Polymerase β During Base Excision Repair

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.05.02.490312

N/A

0DataRank · unranked

0 citations

Todd M. Washington, Bret Freudenthal, Max S. Fairlamb

Mechanistic insight into AP-endonuclease 1 cleavage of abasic sites at stalled replication fork mimics

Nucleic Acids Research(2023)10.1093/nar/gkad481

N/A

0DataRank · unranked

32 citations

Jessica Norris, Thu H. Khoang, Vikas Kaushik, Rahul Chadda, Edwin Antony +3 more

Visualizing the coordination of apurinic/apyrimidinic endonuclease (APE1) and DNA polymerase β during base excision repair

Journal of Biological Chemistry(2023)10.1016/j.jbc.2023.104636

N/A

0DataRank · unranked

15 citations

Maria Spies, M. Todd Washington, Bret Freudenthal, Max S. Fairlamb

Thymine DNA glycosylase combines sliding, hopping, and nucleosome interactions to efficiently search for 5-formylcytosine

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.10.04.560925

N/A

0DataRank · unranked

9 citations

Matthew A. Schaich, Vera Roginskaya, Liam P. Leary, Tyler Weaver, Bret Freudenthal +3 more

Single-molecule analysis of purified proteins and nuclear extracts: insights from 8-oxoguanine glycosylase 1

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.11.01.565178

N/A

0DataRank · unranked

1 citations

Tyler Weaver, Vera Roginskaya, Bret Freudenthal, Bennett Van Houten, Matthew A. Schaich

The VEGF G-quadruplex forming promoter is repaired via long-patch BER

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.06.25.546439

N/A

0DataRank · unranked

0 citations

Haley L. Kravitz, Bret Freudenthal, Amy M. Whitaker, Adil S. Hussen

Mechanisms of telomerase inhibition by oxidized and therapeutic dNTPs

Nature Communications(2020)10.1038/s41467-020-19115-y

N/A

0DataRank · unranked

58 citations

Griffin A. Welfer, Bret Freudenthal, Patricia L. Opresko, Samantha L. Sanford

Thymine DNA glycosylase combines sliding, hopping, and nucleosome interactions to efficiently search for 5-formylcytosine

Nature Communications(2024)10.1038/s41467-024-53497-7

N/A

0DataRank · unranked

12 citations

Matthew A. Schaich, Vera Roginskaya, Liam P. Leary, Tyler Weaver, Bret Freudenthal +3 more

Spinal cord injury-induced neurogenic bowel: A role for host-microbiome interactions in bowel pain and dysfunction

Neurobiology of Pain(2024)10.1016/j.ynpai.2024.100156

N/A

0DataRank · unranked

10 citations

Leena Kader, Olivia C. Eller, Emily Roberts, Bailey Bye, Taylor A. Strope +9 more

Mitochondrial transcription factor A (TFAM) has 5′-deoxyribose phosphate lyase activity in vitro

DNA repair(2024)10.1016/j.dnarep.2024.103666

N/A

0DataRank · unranked

8 citations

Adil S. Hussen, Bret Freudenthal, Zucai Suo, Linlin Zhao, Wenxin Zhao

Molecular basis for the activation of the Fatty Acid Kinase complex of Staphylococcus aureus

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.03.19.585040

N/A

0DataRank · unranked

0 citations

Zhen Xu, Benjamin Ryan, Zachary DeMars, Miranda J. Ridder, David K. Johnson +9 more

The zinc finger of DNA ligase 3α binds to nucleosomes via an arginine anchor

Nature Communications(2025)10.1038/s41467-025-66320-8

N/A

0DataRank · unranked

5 citations

Matthew A. Schaich, Tyler Weaver, Vera Roginskaya, Annahita Sallmyr, Liam P. Leary +4 more

Nucleosome unwrapping and PARP1 allostery drive affinities for chromatin and DNA breaks

Nature Communications(2025)10.1038/s41467-025-67071-2

N/A

0DataRank · unranked

3 citations

Tyler Weaver, Jennifer A Rakowski, Vera Roginskaya, Liam P. Leary, Aafke A. van den Berg +4 more

APE1 active site residue Asn174 stabilizes the AP-site and is essential for catalysis

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.01.14.633034

N/A

0DataRank · unranked

0 citations

Nicole M. Hoitsma, Spencer H. Thompson, Veniamin A. Borin, Pratul K. Agarwal, Bret Freudenthal +1 more

Visualizing DNA polymerase ι catalyze Hoogsteen-directed DNA synthesis

Nature Communications(2025)10.1038/s41467-025-61245-8

N/A

0DataRank · unranked

0 citations

Devin T. Reusch, Melissa Gildenberg, Sarah M. Jordan, Benjamin Ryan, Bret Freudenthal +2 more

Nucleosome unwrapping and PARP1 allostery drive affinities for chromatin and DNA breaks

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.08.29.673134

N/A

0DataRank · unranked

0 citations

Tyler Weaver, Jennifer A Rakowski, Vera Roginskaya, Liam P. Leary, Aafke A. van den Berg +4 more

Structure, dynamics, and processing of 8oxoG:A in the nucleosome

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.09.02.673820

N/A

0DataRank · unranked

0 citations

Justin A. Ling, Julia C. Ferrara, Clot Jacques, Natacha Gillet, Roy González‐Alemán +8 more

Single-molecule analysis of purified proteins and nuclear extracts: Insights from 8-oxoguanine glycosylase 1

DNA repair(2024)10.1016/j.dnarep.2024.103625

N/A

0DataRank · unranked

12 citations

Tyler Weaver, Vera Roginskaya, Bret Freudenthal, Bennett Van Houten, Matthew A. Schaich

Molecular and structural characterization of disease-associated APE1 polymorphisms

DNA repair(2020)10.1016/j.dnarep.2020.102867

N/A

0DataRank · unranked

20 citations

Wesley J. Stark, Tony S. Flynn, Bret Freudenthal, Amy M. Whitaker

Mechanisms of nucleotide selection by telomerase

eLife(2020)10.7554/elife.55438

N/A

0DataRank · unranked

24 citations

Samantha L. Sanford, Griffin A. Welfer, Samuel A. Johnson, Thu H. Khoang, Patricia L. Opresko +2 more

Anthrax Toxin Translocation Complex Reveals insight into the Lethal Factor Unfolding and Refolding Mechanism

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.04.20.049601

N/A

0DataRank · unranked

2 citations

Mark T. Fisher, Bret Freudenthal, Alexandra J. Machen

Requirement for transient metal ions revealed through computational analysis for DNA polymerase going in reverse

UNC Libraries(2020)10.17615/jnwd-0w23

N/A

0DataRank · unranked

0 citations

Lee G. Pedersen, David D. Shock, Bret Freudenthal, Samuel H. Wilson, L. Perera +1 more

Construction of a Three-Color Prism-Based TIRF Microscope to Study the Interactions and Dynamics of Macromolecules

Biology(2021)10.3390/biology10070571

N/A

0DataRank · unranked

15 citations

Amy M. Whitaker, Fletcher E. Bain, Maria Spies, Bret Freudenthal, Max S. Fairlamb

Sequence context effects of replication of Fapy•dG in three mutational hot spot sequences of the p53 gene in human cells

DNA repair(2021)10.1016/j.dnarep.2021.103213

N/A

0DataRank · unranked

15 citations

Haozhe Yang, Spandana Naldiga, Brent V. Powell, Benjamin Ryan, Bret Freudenthal +3 more

Altered APE1 activity on abasic ribonucleotides is mediated by changes in the nucleoside sugar pucker

Computational and Structural Biotechnology Journal(2021)10.1016/j.csbj.2021.05.035

N/A

0DataRank · unranked

9 citations

Timothy H. Click, Pratul K. Agarwal, Bret Freudenthal, Nicole M. Hoitsma

Processing of oxidatively damaged DNA dirty ends by APE1

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.11.28.470279

N/A

0DataRank · unranked

1 citations

Wesley J. Stark, Bret Freudenthal, Amy M. Whitaker

Construction of a 3-color prism-based TIRF microscope to study the interactions and dynamics of macromolecules

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.05.10.443430

N/A

0DataRank · unranked

0 citations

Amy M. Whitaker, Fletcher E. Bain, Maria Spies, Bret Freudenthal, Max S. Fairlamb