Anshul Kundaje

58.9k total citations · 9 hit papers
110 papers, 10.0k citations indexed

About

Anshul Kundaje is a scholar working on Molecular Biology, Genetics and Cancer Research. According to data from OpenAlex, Anshul Kundaje has authored 110 papers receiving a total of 10.0k indexed citations (citations by other indexed papers that have themselves been cited), including 101 papers in Molecular Biology, 14 papers in Genetics and 9 papers in Cancer Research. Recurrent topics in Anshul Kundaje's work include Genomics and Chromatin Dynamics (49 papers), RNA and protein synthesis mechanisms (29 papers) and RNA Research and Splicing (28 papers). Anshul Kundaje is often cited by papers focused on Genomics and Chromatin Dynamics (49 papers), RNA and protein synthesis mechanisms (29 papers) and RNA Research and Splicing (28 papers). Anshul Kundaje collaborates with scholars based in United States, United Kingdom and Germany. Anshul Kundaje's co-authors include Alan P. Boyle, M Snyder, Haley M. Amemiya, William J. Greenleaf, Serafim Batzoglou, Peyton Greenside, Anne Brunet, Marc A. Schaub, Howard Y. Chang and Ewan Birney and has published in prestigious journals such as Nature, Science and Cell.

In The Last Decade

Anshul Kundaje

107 papers receiving 10.0k 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.

The ENCODE Blacklist: Identification of Problematic Regions of the Genome

2019 812 citations Anshul Kundaje et al. profile →
Lineage-specific and single-cell chromatin accessibility charts human hematopoiesis and leukemia evolution

2016 656 citations M. Ryan Corces, Peyton Greenside et al. Nature Genetics profile →
Sequence features and chromatin structure around the genomic regions bound by 119 human transcription factors

2012 590 citations Anshul Kundaje, William Stafford Noble et al. profile →
Linking disease associations with regulatory information in the human genome

2012 518 citations Anshul Kundaje, Serafim Batzoglou et al. profile →
Opportunities and challenges for transcriptome-wide association studies

2019 506 citations Michael Wainberg, Nasa Sinnott-Armstrong et al. Nature Genetics profile →
Base-resolution models of transcription-factor binding reveal soft motif syntax

2021 294 citations Žiga Avsec, Avanti Shrikumar et al. Nature Genetics profile →
Chromatin and gene-regulatory dynamics of the developing human cerebral cortex at single-cell resolution

2021 219 citations Anna Shcherbina, Howard Y. Chang et al. profile →
Single-cell analyses define a continuum of cell state and composition changes in the malignant transformation of polyps to colorectal cancer

2022 154 citations Anshul Kundaje, William J. Greenleaf et al. Nature Genetics profile →
Short tandem repeats bind transcription factors to tune eukaryotic gene expression

2023 98 citations Amr M. Alexandari, Michael G.B. Hayes et al. Science profile →

Peers

Countries citing papers authored by Anshul Kundaje

Since Specialization

Citations

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

Fields of papers citing papers by Anshul Kundaje

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

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

Co-authorship network of co-authors of Anshul Kundaje

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

All Works

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20 of 20 papers shown

#	Work	Indexed citations
1	Using a comprehensive atlas and predictive models to reveal the complexity and evolution of brain-active regulatory elements 2024 ·Science Advances ·Henry Pratt, Gregory Andrews, Nicole Shedd, Nishigandha Phalke, T. Li, Anusri Pampari, Matthew Jensen, Cindy Wen, Michael J. Gandal, Daniel H. Geschwind, Mark Gerstein, Jill E. Moore, Anshul Kundaje, Andrés Colubri, Zhiping Weng	7
2	Short tandem repeats bind transcription factors to tune eukaryotic gene expression breakdown → 2023 ·Science ·(unknown), Amr M. Alexandari, Michael G.B. Hayes, Emil Marklund, Julia M. Schaepe, Arjun K. Aditham, Nilay Shah, Peter Suzuki, Avanti Shrikumar, Ariel Afek, William J. Greenleaf, Raluca Gordân, Julia Zeitlinger, Anshul Kundaje, Polly M. Fordyce	98
3	fastISM: performant in silico saturation mutagenesis for convolutional neural networks 2022 ·Bioinformatics ·Surag Nair, Avanti Shrikumar, Jacob Schreiber, Anshul Kundaje	14
4	Accelerating in silico saturation mutagenesis using compressed sensing 2022 ·Bioinformatics ·Jacob Schreiber, Surag Nair, Akshay Balsubramani, Anshul Kundaje	4
5	Learning cis-regulatory principles of ADAR-based RNA editing from CRISPR-mediated mutagenesis 2021 ·Nature Communications ·Xin Liu, Tao Sun, Anna Shcherbina, Qin Li, Inga Jarmoskaite, Kalli Kappel, Gokul Ramaswami, Rhiju Das, Anshul Kundaje, Jin Billy Li	17
6	Fourier-transform-based attribution priors improve the interpretability and stability of deep learning models for genomics 2020 ·Neural Information Processing Systems ·Alex M. Tseng, Avanti Shrikumar, Anshul Kundaje	2
7	Single-cell epigenomic analyses implicate candidate causal variants at inherited risk loci for Alzheimer’s and Parkinson’s diseases 2020 ·Nature Genetics ·M. Ryan Corces, Anna Shcherbina, Soumya Kundu, Michael J. Gloudemans, Laure Frésard, Jeffrey M. Granja, Bryan H. Louie, Tiffany Eulalio, Shadi Shams, S. Tansu Bagdatli, Maxwell R. Mumbach, Boxiang Liu, Kathleen S. Montine, William J. Greenleaf, Anshul Kundaje, Stephen B. Montgomery, Howard Y. Chang, Thomas J. Montine	198
8	GkmExplain: fast and accurate interpretation of nonlinear gapped k -mer SVMs 2019 ·Bioinformatics ·Avanti Shrikumar, (unknown), Anshul Kundaje	30
9	Integrating regulatory DNA sequence and gene expression to predict genome-wide chromatin accessibility across cellular contexts 2019 ·Bioinformatics ·Surag Nair, Daniel Sunwook Kim, (unknown), Anshul Kundaje	41
10	Opportunities and challenges for transcriptome-wide association studies breakdown → 2019 ·Nature Genetics ·Michael Wainberg, Nasa Sinnott-Armstrong, Nicholas Mancuso, Alvaro Barbeira, David A. Knowles, David E. Golan, Raili Ermel, Arno Ruusalepp, Thomas Quertermous, Ke Hao, Johan Björkegren, Hae Kyung Im, Bogdan Paşaniuc, Manuel A. Rivas, Anshul Kundaje	506
11	Discovering epistatic feature interactions from neural network models of regulatory DNA sequences 2018 ·Bioinformatics ·Peyton Greenside, Tyler C. Shimko, Polly M. Fordyce, Anshul Kundaje	51
12	Intertumoral Heterogeneity in SCLC Is Influenced by the Cell Type of Origin 2018 ·Cancer Discovery ·Dian Yang, Sarah K. Denny, Peyton Greenside, Andrea C. Chaikovsky, Jennifer J. Brady, Youcef Ouadah, Jeffrey M. Granja, Nadine S. Jahchan, Jing Lim, Shirley Kwok, Christina S. Kong, Anna S. Berghoff, Anna Schmitt, Hans Christian Reinhardt, (unknown), Matthias Preusser, Anshul Kundaje, William J. Greenleaf, Julien Sage, Monte M. Winslow	104
13	GenomeDISCO: a concordance score for chromosome conformation capture experiments using random walks on contact map graphs 2018 ·Bioinformatics ·Oana Ursu, Nathan Boley, (unknown), Y. X. Rachel Wang, Galip Gürkan Yardımcı, William Stafford Noble, Anshul Kundaje	68
14	Umap and Bismap: quantifying genome and methylome mappability 2018 ·Nucleic Acids Research ·Mehran Karimzadeh, Carl Ernst, Anshul Kundaje, Michael M. Hoffman	80
15	ChIP-ping the branches of the tree: functional genomics and the evolution of eukaryotic gene regulation 2018 ·Briefings in Functional Genomics ·Georgi K. Marinov, Anshul Kundaje	4
16	TF-MoDISco v0.4.2.2-alpha: Technical Note 2018 ·arXiv (Cornell University) ·Avanti Shrikumar, Katherine Tian, Anna Shcherbina, Žiga Avsec, Abhimanyu Banerjee, Mahfuza Sharmin, Surag Nair, Anshul Kundaje	8
17	Denoising genome-wide histone ChIP-seq with convolutional neural networks 2017 ·Bioinformatics ·Pang Wei Koh, Emma Pierson, Anshul Kundaje	33
18	Vicus: Exploiting local structures to improve network-based analysis of biological data 2017 ·PLoS Computational Biology ·Bo Wang, Lin Huang, Yuke Zhu, Anshul Kundaje, Serafim Batzoglou, Anna Goldenberg	11
19	Unsupervised Learning from Noisy Networks with Applications to Hi-C Data 2016 ·Neural Information Processing Systems ·Bo Wang, Junjie Zhu, (unknown), Oana Ursu, Serafim Batzoglou, Anshul Kundaje	3
20	Spectrogram Analysis of Genomes 2004 ·SHILAP Revista de lepidopterología ·David Sussillo, Anshul Kundaje, Dimitris Anastassiou	0

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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