Bonnie Berger

34.2k total citations · 10 hit papers
268 papers, 14.9k citations indexed

About

Bonnie Berger is a scholar working on Molecular Biology, Artificial Intelligence and Genetics. According to data from OpenAlex, Bonnie Berger has authored 268 papers receiving a total of 14.9k indexed citations (citations by other indexed papers that have themselves been cited), including 175 papers in Molecular Biology, 45 papers in Artificial Intelligence and 37 papers in Genetics. Recurrent topics in Bonnie Berger's work include Genomics and Phylogenetic Studies (50 papers), RNA and protein synthesis mechanisms (49 papers) and Protein Structure and Dynamics (45 papers). Bonnie Berger is often cited by papers focused on Genomics and Phylogenetic Studies (50 papers), RNA and protein synthesis mechanisms (49 papers) and Protein Structure and Dynamics (45 papers). Bonnie Berger collaborates with scholars based in United States, Canada and Germany. Bonnie Berger's co-authors include Peter S. Kim, Rohit Singh, Tristan Bepler, Brian Hie, Bryan D. Bryson, Jinbo Xu, Hyunghoon Cho, Po‐Ru Loh, Lenore Cowen and Jian Peng and has published in prestigious journals such as Nature, Science and Cell.

In The Last Decade

Bonnie Berger

257 papers receiving 14.6k 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.

Efficient Bayesian mixed-model analysis increases association power in large cohorts

2015 766 citations Po‐Ru Loh, Bonnie Berger et al. profile →
MultiCoil: A program for predicting two‐and three‐stranded coiled coils

1997 637 citations Peter S. Kim, Bonnie Berger et al. profile →
Predicting coiled coils by use of pairwise residue correlations.

1995 551 citations Bonnie Berger, Peter S. Kim et al. Proceedings of the National Academy of Sciences profile →
Efficient integration of heterogeneous single-cell transcriptomes using Scanorama

2019 464 citations Brian Hie, Bryan D. Bryson et al. Nature Biotechnology profile →
Allergic inflammatory memory in human respiratory epithelial progenitor cells

2018 359 citations Sarah K. Nyquist, Bonnie Berger et al. profile →
CryoDRGN: reconstruction of heterogeneous cryo-EM structures using neural networks

2021 317 citations Ellen D. Zhong, Bonnie Berger et al. profile →
Topaz-Denoise: general deep denoising models for cryoEM and cryoET

2020 280 citations Bonnie Berger et al. Nature Communications profile →
Inferring Admixture Histories of Human Populations Using Linkage Disequilibrium

2013 272 citations Po‐Ru Loh, Mark Lipson et al. profile →
Learning the protein language: Evolution, structure, and function

2021 263 citations Bonnie Berger et al. profile →
Contrastive learning in protein language space predicts interactions between drugs and protein targets

2023 94 citations Rohit Singh, Samuel Sledzieski et al. Proceedings of the National Academy of Sciences profile →

Peers

Countries citing papers authored by Bonnie Berger

Since Specialization

Citations

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

Fields of papers citing papers by Bonnie Berger

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

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

Co-authorship network of co-authors of Bonnie Berger

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

#	Work	Indexed citations
1	Learning the language of protein-protein interactions 2026 ·Nature Communications ·(unknown), (unknown), Samuel Sledzieski, Bonnie Berger	0
2	Democratizing protein language models with parameter-efficient fine-tuning 2024 ·Proceedings of the National Academy of Sciences ·Samuel Sledzieski, Meghana Kshirsagar, Minkyung Baek, Rahul Dodhia, Juan Lavista Ferres, Bonnie Berger	25
3	split-intein Gal4 provides intersectional genetic labeling that is repressible by Gal80 2023 ·Proceedings of the National Academy of Sciences ·Ben Ewen‐Campen, Haojiang Luan, Jun Xu, Rohit Singh, (unknown), (unknown), Bonnie Berger, Benjamin H. White, Norbert Perrimon	11
4	Cellular and transcriptional diversity over the course of human lactation 2022 ·Proceedings of the National Academy of Sciences ·Sarah K. Nyquist, (unknown), (unknown), (unknown), Yarden Golan, Riley S. Drake, Kellie E. Kolb, Benjamin E. Mead, Nadav Ahituv, Micaela E. Martinez, Alex K. Shalek, Bonnie Berger, Brittany A. Goods	33
5	Learning the language of viral evolution and escape 2021 ·Science ·Brian Hie, Ellen D. Zhong, Bonnie Berger, Bryan D. Bryson	183
6	Large mosaic copy number variations confer autism risk 2021 ·Nature Neuroscience ·Maxwell A. Sherman, Rachel E. Rodin, Giulio Genovese, Caroline Dias, Alison R. Barton, Ronen E. Mukamel, Bonnie Berger, Peter J. Park, Christopher A. Walsh, Po‐Ru Loh	34
7	HIV infection drives interferon signaling within intestinal SARS-CoV-2 target cells 2021 ·JCI Insight ·(unknown), (unknown), (unknown), Sarah K. Nyquist, (unknown), Alveera Singh, (unknown), Ian Mbano, Ntombifuthi Mthabela, (unknown), Farina Karim, Warren Kuhn, (unknown), (unknown), Frank Anderson, Bonnie Berger, Tune H. Pers, Alex K. Shalek, Alasdair Leslie, Henrik N. Kløverpris	5
8	Hopper: a mathematically optimal algorithm for sketching biological data 2020 ·Bioinformatics ·(unknown), Bonnie Berger	13
9	A Randomized Parallel Algorithm for Efficiently Finding Near-Optimal Universal Hitting Sets 2020 ·Lecture notes in computer science ·(unknown), Bonnie Berger, Yaron Orenstein	17
10	Meta-analysis of Caenorhabditis elegans single-cell developmental data reveals multi-frequency oscillation in gene activation 2019 ·Bioinformatics ·Luke A. D. Hutchison, Bonnie Berger, Isaac S. Kohane	4
11	Metagenomic binning through low-density hashing 2018 ·Bioinformatics ·Yunan Luo, Yun William Yu, Jianyang Zeng, Bonnie Berger, Jian Peng	18
12	Realizing private and practical pharmacological collaboration 2018 ·Science ·Brian Hie, Hyunghoon Cho, Bonnie Berger	49
13	Secure genome-wide association analysis using multiparty computation 2018 ·Nature Biotechnology ·Hyunghoon Cho, David J. Wu, Bonnie Berger	123
14	Realizing privacy preserving genome-wide association studies 2016 ·Bioinformatics ·Sean Simmons, Bonnie Berger	40
15	Fast genotyping of known SNPs through approximate k -mer matching 2016 ·Bioinformatics ·(unknown), Deniz Yörükoğlu, Yun William Yu, Bonnie Berger	34
16	Inference of Admixture Parameters in Human Populations Using Weighted Linkage Disequilibrium 2012 ·arXiv (Cornell University) ·Po‐Ru Loh, Mark Lipson, Nick Patterson, Priya Moorjani, Joseph K. Pickrell, David Reich, Bonnie Berger	2
17	Pertactin β-helix folding mechanism suggests common themes for the secretion and folding of autotransporter proteins 2006 ·Proceedings of the National Academy of Sciences ·Mirco Junker, (unknown), (unknown), (unknown), (unknown), Bonnie Berger, Patricia L. Clark	169
18	Herpesviral Protein Networks and Their Interaction with the Human Proteome 2005 ·Science ·Peter Uetz, Yuan Dong, (unknown), (unknown), Armin Baiker, Bonnie Berger, Seesandra V. Rajagopala, (unknown), (unknown), Even Fossum, Jürgen Haas	315
19	trilogy : Discovery of sequence–structure patterns across diverse proteins 2002 ·Proceedings of the National Academy of Sciences ·Philip Bradley, Peter S. Kim, Bonnie Berger	23
20	Approximation alogorithms for the maximum acyclic subgraph problem 1990 ·Symposium on Discrete Algorithms ·Bonnie Berger, Peter W. Shor	50

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.

Explore authors with similar magnitude of impact