Maria Chikina, Ph.D.

Affiliations: 
2011 Princeton University, Princeton, NJ 
Area:
Bioinformatics Biology, Computer Science, Molecular Biology
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"Maria Chikina"

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Olga G. Troyanskaya grad student 2011 Princeton
 (Devising effective similarity measures and learning algorithms for the study of metazoan gene expression.)
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Publications

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Hu M, Chikina M. (2024) InstaPrism: an R package for fast implementation of BayesPrism. Bioinformatics (Oxford, England)
Hu M, Chikina M. (2024) Heterogeneous pseudobulk simulation enables realistic benchmarking of cell-type deconvolution methods. Genome Biology. 25: 169
Zhang S, Heil BJ, Mao W, et al. (2024) MousiPLIER: A Mouse Pathway-Level Information Extractor Model. Eneuro
Crawford J, Chikina M, Greene CS. (2024) Optimizer's dilemma: optimization strongly influences model selection in transcriptomic prediction. Bioinformatics Advances. 4: vbae004
Zhang S, Heil BJ, Mao W, et al. (2023) MousiPLIER: A Mouse Pathway-Level Information Extractor Model. Biorxiv : the Preprint Server For Biology
Balcı AT, Ebeid MM, Benos PV, et al. (2023) An intrinsically interpretable neural network architecture for sequence-to-function learning. Bioinformatics (Oxford, England). 39: i413-i422
Sasse A, Ng B, Spiro A, et al. (2023) How far are we from personalized gene expression prediction using sequence-to-expression deep neural networks? Biorxiv : the Preprint Server For Biology
Mao W, Miller CM, Nair VD, et al. (2023) A methylation clock model of mild SARS-CoV-2 infection provides insight into immune dysregulation. Molecular Systems Biology. e11361
Balcı AT, Ebeid MM, Benos PV, et al. (2023) An intrinsically interpretable neural network architecture for sequence to function learning. Biorxiv : the Preprint Server For Biology
Cappuccio A, Chawla DG, Chen X, et al. (2022) Multi-objective optimization identifies a specific and interpretable COVID-19 host response signature. Cell Systems. 13: 989-1001.e8
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