Vikram Agarwal

University of Washington — United States

Biochemistry, Genetics and Molecular Biology · Life Sciences

22h-index10.4kcitations52works26.92yr avg
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Research Topics

RNA and protein synthesis mechanisms(28), RNA Research and Splicing(20), Genomics and Chromatin Dynamics(18), RNA modifications and cancer(12), Genomics and Phylogenetic Studies(4)

Publications52 total

Translation efficiency covariation identifies conserved coordination patterns across cell types
Nature Biotechnology·2025· 7 citedOpen Access
Predicting the translation efficiency of messenger RNA in mammalian cells
Nature Biotechnology·2025· 22 citedOpen Access
GAME: Genomic API for Model Evaluation
2025Open Access
Abstract 1018 Translation efficiency covariation across cell types is a conserved organizing principle of mammalian transcriptomes
Journal of Biological Chemistry·2025Open Access
MPRAbase a Massively Parallel Reporter Assay database
Genome Research·2025· 4 citedOpen Access
Computational Methods for Modeling Lipid-Mediated Active Pharmaceutical Ingredient Delivery
Molecular Pharmaceutics·2025· 20 citedOpen Access
mRNA-LM: full-length integrated SLM for mRNA analysis
Nucleic Acids Research·2025· 8 citedOpen Access
Massively parallel characterization of transcriptional regulatory elements
Nature·2025· 61 citedOpen Access
Predicting RNA-seq coverage from DNA sequence as a unifying model of gene regulation
Nature Genetics·2025· 131 citedOpen Access
Deciphering the impact of genomic variation on function
Nature·2024· 67 citedOpen Access
Predicting the translation efficiency of messenger RNA in mammalian cells
2024· 11 citedOpen Access
Translation efficiency covariation across cell types is a conserved organizing principle of mammalian transcriptomes
2024· 8 citedOpen Access
CodonBERT large language model for mRNA vaccines
Genome Research·2024· 40 citedOpen Access
Representations of lipid nanoparticles using large language models for transfection efficiency prediction
Bioinformatics·2024· 22 citedOpen Access
How DNA encodes the start of transcription
Science·2024· 2 cited
MPRAbase: A Massively Parallel Reporter Assay Database
2023· 7 citedOpen Access
CodonBERT: Large Language Models for mRNA design and optimization
2023· 30 citedOpen Access
Predicting RNA-seq coverage from DNA sequence as a unifying model of gene regulation
2023· 64 citedOpen Access
Massively parallel characterization of transcriptional regulatory elements in three diverse human cell types
Zenodo (CERN European Organization for Nuclear Research)·2023· 1 citedOpen Access
Transcription factor binding site orientation and order are major drivers of gene regulatory activity
Nature Communications·2023· 71 citedOpen Access
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Frequent Co-authors

Jay Shendure(20), Beth Martin(12), Nadav Ahituv(12), David R. Kelley(11), Fumitaka Inoue(9), Martin Kircher(8), Dinghai Zheng(8), Jun Wang(8), Jason C. Klein(7), Aidan Keith(7), Jingjing Zhao(7), Ilias Georgakopoulos‐Soares(7), Max Schubach(6), Fernando Ulloa Montoya(5), Can Cenik(5), Saeed Moayedpour(4), Lorenzo Kogler-Anele(4), Akshay Balsubramani(4), Ziv Bar‐Joseph(4), Sven Jäger(4)