| Analysis of nascent RNA identifies a unified architecture of initiation regions at mammalian promoters and enhancers LJ Core, AL Martins, CG Danko, CT Waters, A Siepel, JT Lis Nature genetics 46 (12), 1311-1320, 2014 | 724 | 2014 |
| Bayesian inference of ancient human demography from individual genome sequences I Gronau, MJ Hubisz, B Gulko, CG Danko, A Siepel Nature genetics 43 (10), 1031-1034, 2011 | 684 | 2011 |
| A rapid, extensive, and transient transcriptional response to estrogen signaling in breast cancer cells N Hah, CG Danko, L Core, JJ Waterfall, A Siepel, JT Lis, WL Kraus Cell 145 (4), 622-634, 2011 | 560 | 2011 |
| Complete Khoisan and Bantu genomes from southern Africa SC Schuster, W Miller, A Ratan, LP Tomsho, B Giardine, LR Kasson, ... Nature 463 (7283), 943-947, 2010 | 541 | 2010 |
| Enhancer transcripts mark active estrogen receptor binding sites N Hah, S Murakami, A Nagari, CG Danko, WL Kraus Genome research 23 (8), 1210-1223, 2013 | 493 | 2013 |
| Base-pair-resolution genome-wide mapping of active RNA polymerases using precision nuclear run-on (PRO-seq) DB Mahat, H Kwak, GT Booth, IH Jonkers, CG Danko, RK Patel, ... Nature protocols 11 (8), 1455-1476, 2016 | 488 | 2016 |
| Mammalian heat shock response and mechanisms underlying its genome-wide transcriptional regulation DB Mahat, HH Salamanca, FM Duarte, CG Danko, JT Lis Molecular cell 62 (1), 63-78, 2016 | 412 | 2016 |
| Signaling pathways differentially affect RNA polymerase II initiation, pausing, and elongation rate in cells CG Danko, N Hah, X Luo, AL Martins, L Core, JT Lis, A Siepel, WL Kraus Molecular cell 50 (2), 212-222, 2013 | 386 | 2013 |
| Cell type and gene expression deconvolution with BayesPrism enables Bayesian integrative analysis across bulk and single-cell RNA sequencing in oncology T Chu, Z Wang, D Pe’er, CG Danko Nature Cancer 3 (4), 505-517, 2022 | 236 | 2022 |
| A unified architecture of transcriptional regulatory elements R Andersson, A Sandelin, CG Danko Trends in Genetics 31 (8), 426-433, 2015 | 230 | 2015 |
| Identification of active transcriptional regulatory elements from GRO-seq data CG Danko, SL Hyland, LJ Core, AL Martins, CT Waters, HW Lee, ... Nature methods 12 (5), 433-438, 2015 | 223 | 2015 |
| Transcriptional response to stress is pre-wired by promoter and enhancer architecture A Vihervaara, DB Mahat, MJ Guertin, T Chu, CG Danko, JT Lis, L Sistonen Nature communications 8 (1), 255, 2017 | 161 | 2017 |
| Chromatin run-on and sequencing maps the transcriptional regulatory landscape of glioblastoma multiforme T Chu, EJ Rice, GT Booth, HH Salamanca, Z Wang, LJ Core, SL Longo, ... Nature genetics 50 (11), 1553-1564, 2018 | 129 | 2018 |
| GAGA factor maintains nucleosome-free regions and has a role in RNA polymerase II recruitment to promoters NJ Fuda, MJ Guertin, S Sharma, CG Danko, AL Martins, A Siepel, JT Lis PLoS genetics 11 (3), e1005108, 2015 | 121 | 2015 |
| Parallel evolution of ancient, pleiotropic enhancers underlies butterfly wing pattern mimicry JJ Lewis, RC Geltman, PC Pollak, KE Rondem, SM Van Belleghem, ... Proceedings of the National Academy of Sciences 116 (48), 24174-24183, 2019 | 118 | 2019 |
| Chromatin conformation remains stable upon extensive transcriptional changes driven by heat shock J Ray, PR Munn, A Vihervaara, JJ Lewis, A Ozer, CG Danko, JT Lis Proceedings of the National Academy of Sciences 116 (39), 19431-19439, 2019 | 104 | 2019 |
| Identification of regulatory elements from nascent transcription using dREG Z Wang, T Chu, LA Choate, CG Danko Genome research 29 (2), 293-303, 2019 | 93 | 2019 |
| Simultaneous multiplexed amplicon sequencing and transcriptome profiling in single cells M Saikia, P Burnham, SH Keshavjee, MFZ Wang, M Heyang, ... Nature methods 16 (1), 59-62, 2019 | 86 | 2019 |
| Prediction of histone post-translational modification patterns based on nascent transcription data Z Wang, AG Chivu, LA Choate, EJ Rice, DC Miller, T Chu, SP Chou, ... Nature genetics 54 (3), 295-305, 2022 | 84* | 2022 |
| Gene regulation by CcpA and catabolite repression explored by RNA-Seq in Streptococcus mutans L Zeng, SC Choi, CG Danko, A Siepel, MJ Stanhope, RA Burne PloS one 8 (3), e60465, 2013 | 73 | 2013 |
john lisProfessor of Molecular Biology & Genetics, Cornell UniversityVerified email at cornell.edu
