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Daniel Sunwook Kim
Daniel Sunwook Kim
Verified email at mskcc.org
Title
Cited by
Cited by
Year
Expanded encyclopaedias of DNA elements in the human and mouse genomes
JE Moore, MJ Purcaro, HE Pratt, CB Epstein, N Shoresh, J Adrian, T Kawli, ...
Nature 583 (7818), 699-710, 2020
11912020
Lineage-specific dynamic and pre-established enhancer–promoter contacts cooperate in terminal differentiation
AJ Rubin, BC Barajas, M Furlan-Magaril, V Lopez-Pajares, MR Mumbach, ...
Nature genetics 49 (10), 1522-1528, 2017
2892017
Coupled single-cell CRISPR screening and epigenomic profiling reveals causal gene regulatory networks
AJ Rubin, KR Parker, AT Satpathy, Y Qi, B Wu, AJ Ong, MR Mumbach, ...
Cell 176 (1), 361-376. e17, 2019
2452019
The Kipoi repository accelerates community exchange and reuse of predictive models for genomics
Ž Avsec, R Kreuzhuber, J Israeli, N Xu, J Cheng, A Shrikumar, A Banerjee, ...
Nature biotechnology 37 (6), 592-600, 2019
1512019
Perspectives on ENCODE
MP Snyder, TR Gingeras, JE Moore, Z Weng, MB Gerstein, B Ren, ...
Nature 583 (7818), 693-698, 2020
922020
Integrating regulatory DNA sequence and gene expression to predict genome-wide chromatin accessibility across cellular contexts
S Nair, DS Kim, J Perricone, A Kundaje
Bioinformatics 35 (14), i108-i116, 2019
612019
The dynamic, combinatorial cis-regulatory lexicon of epidermal differentiation
DS Kim, VI Risca, DL Reynolds, J Chappell, AJ Rubin, N Jung, ...
Nature genetics 53 (11), 1564-1576, 2021
482021
The ENCODE uniform analysis pipelines
BC Hitz, JW Lee, O Jolanki, MS Kagda, K Graham, P Sud, I Gabdank, ...
Research Square, 2023
252023
kundajelab/atac_dnase_pipelines: 0.3. 3
J Lee, G Christoforo, CS Foo, C Probert, A Kundaje, N Boley, M Dacre, ...
Zenodo, 2016
92016
A cis-regulatory lexicon of DNA motif combinations mediating cell-type-specific gene regulation
LKH Donohue, MG Guo, Y Zhao, N Jung, RT Bussat, DS Kim, PH Neela, ...
Cell genomics 2 (11), 2022
62022
Single-Cell and Spatial Transcriptomic Analysis of Human Skin Delineates Intercellular Communication and Pathogenic Cells
K Thrane, MCG Winge, H Wang, L Chen, MG Guo, A Andersson, ...
Journal of Investigative Dermatology 143 (11), 2177-2192. e13, 2023
52023
ATAC-seq Data Processing
DS Kim
Chromatin Accessibility: Methods and Protocols, 305-323, 2023
12023
Deep Learning on Chromatin Accessibility
DS Kim
Chromatin Accessibility: Methods and Protocols, 325-333, 2023
2023
Single-Cell and Spatial Transcriptomics Atlas of Intercellular Communication and Pathogenic Cells in Human Skin
AL Ji, K Thrane, MG Guo, A Andersson, DS Kim, SK Longo, A McGeever, ...
2022
Dissecting intercellular communication in adult human skin with single-cell and spatial transcriptomics
A Ji, K Thrane, M Guo, A Rubin, D Kim, T Hollmig, S Aasi, J Lundeberg, ...
Journal of Investigative Dermatology 141 (5), S17-S17, 2021
2021
Kipoi: accelerating the community exchange and reuse of predictive models for genomics
Ž Avsec, R Kreuzhuber, J Israeli, N Xu, J Cheng, A Shrikumar, A Banerjee, ...
BioRxiv, 375345, 2018
2018
795 Decoding regulatory sequence across skin differentiation with deep learning
D Kim, V Risca, J Chappell, M Shi, Z Zhao, N Jung, H Chang, M Snyder, ...
Journal of Investigative Dermatology 138 (5), S135, 2018
2018
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