| Defining T cell states associated with response to checkpoint immunotherapy in melanoma M Sade-Feldman, K Yizhak, SL Bjorgaard, JP Ray, CG de Boer, ... Cell 175 (4), 998-1013. e20, 2018 | 1358 | 2018 |
| Core circadian clock genes regulate leukemia stem cells in AML RV Puram, MS Kowalczyk, CG de Boer, RK Schneider, PG Miller, ... Cell 165 (2), 303-316, 2016 | 228 | 2016 |
| YeTFaSCo: a database of evaluated yeast transcription factor sequence specificities CG De Boer, TR Hughes Nucleic acids research 40 (D1), D169-D179, 2012 | 215 | 2012 |
| Deciphering eukaryotic gene-regulatory logic with 100 million random promoters CG de Boer, ED Vaishnav, R Sadeh, EL Abeyta, N Friedman, A Regev Nature biotechnology 38 (1), 56-65, 2020 | 210 | 2020 |
| Defining T cell states associated with response to checkpoint immunotherapy in melanoma M Sade-Feldman, K Yizhak, SL Bjorgaard, JP Ray, CG de Boer, ... Cell 176 (1), 404, 2019 | 199 | 2019 |
| Heterogeneous responses of hematopoietic stem cells to inflammatory stimuli are altered with age M Mann, A Mehta, CG de Boer, MS Kowalczyk, K Lee, P Haldeman, ... Cell reports 25 (11), 2992-3005. e5, 2018 | 149 | 2018 |
| The evolution, evolvability and engineering of gene regulatory DNA ED Vaishnav, CG de Boer, J Molinet, M Yassour, L Fan, X Adiconis, ... Nature 603 (7901), 455-463, 2022 | 133 | 2022 |
| Mapping yeast transcriptional networks TR Hughes, CG de Boer Genetics 195 (1), 9-36, 2013 | 92 | 2013 |
| Natural variation in non-coding regions underlying phenotypic diversity in budding yeast F Salinas, CG De Boer, V Abarca, V García, M Cuevas, S Araos, ... Scientific reports 6 (1), 21849, 2016 | 51 | 2016 |
| Prioritizing disease and trait causal variants at the TNFAIP3 locus using functional and genomic features JP Ray, CG de Boer, CP Fulco, CA Lareau, M Kanai, JC Ulirsch, ... Nature communications 11 (1), 1237, 2020 | 42 | 2020 |
| Global discovery of lupus genetic risk variant allelic enhancer activity X Lu, X Chen, C Forney, O Donmez, D Miller, S Parameswaran, T Hong, ... Nature communications 12 (1), 1611, 2021 | 41 | 2021 |
| BROCKMAN: deciphering variance in epigenomic regulators by k-mer factorization CG de Boer, A Regev BMC bioinformatics 19, 1-13, 2018 | 41 | 2018 |
| A unified model for yeast transcript definition CG de Boer, H van Bakel, K Tsui, J Li, QD Morris, C Nislow, JF Greenblatt, ... Genome research 24 (1), 154-166, 2014 | 28 | 2014 |
| MAUDE: inferring expression changes in sorting-based CRISPR screens CG de Boer, JP Ray, N Hacohen, A Regev Genome biology 21 (1), 134, 2020 | 27 | 2020 |
| Poly-dA: dT tracts form an in vivo nucleosomal turnstile CG de Boer, TR Hughes PloS one 9 (10), e110479, 2014 | 24 | 2014 |
| Prioritization of autoimmune disease-associated genetic variants that perturb regulatory element activity in T cells K Mouri, MH Guo, CG de Boer, MM Lissner, IA Harten, GA Newby, ... Nature genetics 54 (5), 603-612, 2022 | 23 | 2022 |
| Hold out the genome: a roadmap to solving the cis-regulatory code CG de Boer, J Taipale Nature 625 (7993), 41-50, 2024 | 12 | 2024 |
| Systematic identification of genomic elements that regulate FCGR2A expression and harbor variants linked with autoimmune disease J Dahlqvist, CP Fulco, JP Ray, T Liechti, CG de Boer, DJ Lieb, ... Human Molecular Genetics 31 (12), 1946-1961, 2022 | 9 | 2022 |
| LegNet: a best-in-class deep learning model for short DNA regulatory regions D Penzar, D Nogina, E Noskova, A Zinkevich, G Meshcheryakov, A Lando, ... Bioinformatics 39 (8), btad457, 2023 | 8 | 2023 |
| A comprehensive fitness landscape model reveals the evolutionary history and future evolvability of eukaryotic cis-regulatory DNA sequences ED Vaishnav, CG de Boer, M Yassour, J Molinet, L Fan, X Adiconis, ... BioRxiv, 2021.02. 17.430503, 2021 | 6 | 2021 |
