Author

Dohyeon Kim

Konkuk UniversityORCID 0000-0002-0116-7756Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Research Focus:benchmarking· 1 Approach:deep learning· 1 Assay:DNA methylation· 1 Research Focus:gene regulatory network inference· 1 Approach:statistical model· 1 Assay:whole-genome sequencing· 1 Organism:yeast· 1

Frequent Co-Authors

Aayush Prakash· 1 shared Abdul Muntakim RafiiD· 1 shared Alexandre OliveiraiD· 1 shared Alina RenziD· 1 shared Andigoni MalousiiD· 1 shared Andreas DrägeriD· 1 shared Andreas Fønss MølleriD· 1 shared Andrey S. Lando· 1 shared

Activity by Year

2024-2024 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 21 mutual co-author links

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1 shared paperGenomics

Aayush Prakash

Mutual co-authors in cluster

Author profile →

2 papers

Recent·Most cited

Evaluation and optimization of sequence-based gene regulatory deep learning models

Abdul Muntakim Rafi, Daria Nogina, Dmitry Penzar, Dohoon Lee, Danyeong Lee, N. S. KIM, Sangyeup Kim, Dohyeon Kim, Yeojin Shin, Il‐Youp Kwak, Georgy Meshcheryakov, Andrey S. Lando, Arsenii O. Zinkevich, Byeongchan Kim, Juhyun Lee, , Carl G. de Boer

The paper evaluates and optimizes sequence-based gene regulatory deep learning models using a DREAM Challenge dataset, showing improvements through architectural and training strategy refinements.

Nature Biotechnology · Oct 11, 2024Peer-reviewedGenomics

FROG Analysis Ensures the Reproducibility of Genome Scale Metabolic Models

Karthik Raman, Miroslav Kratochvíl, Brett G. Olivier, Matthias König, Pratyay Sengupta, Dinesh Kumar Kuppa Baskaran, Tung V. N. Nguyen, Daniel Lobo, St. Elmo Wilken, Krishna Kumar Tiwari, Aswathy K. Raghu, Indumathi Palanikumar, Lavanya Raajaraam, Maziya Ibrahim, Sanjaay Balakrishnan, , Rahuman S. Malik‐Sheriff

The paper introduces FROG analysis to standardize reproducibility assessments of genome-scale metabolic models, resulting in full reproducibility of all tested models.

bioRxiv · Sep 24, 2024 · PreprintSystems Biology