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| 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 | 256 | 2019 |
| 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 | 155 | 2019 |
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| 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 | 61 | 2019 |
| 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 | 52 | 2021 |
| The ENCODE uniform analysis pipelines BC Hitz, JW Lee, O Jolanki, MS Kagda, K Graham, P Sud, I Gabdank, ... Research Square, 2023 | 34 | 2023 |
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| 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 | 8 | 2023 |
| Comprehensive characterization of fetal and mature retinal cell identity to assess the fidelity of retinal organoids HJ Kim, M O’Hara-Wright, D Kim, TH Loi, BY Lim, RV Jamieson, ... Stem Cell Reports 18 (1), 175-189, 2023 | 7 | 2023 |
| 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 | 7 | 2022 |
| An integrated cell barcoding and computational analysis pipeline for scalable analysis of differentiation at single-cell resolution S Shen, T Werner, Y Sun, WJ Shim, S Lukowski, S Andersen, HS Chiu, ... bioRxiv, 2022.10. 12.511862, 2022 | 3 | 2022 |
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