| Individual brain organoids reproducibly form cell diversity of the human cerebral cortex S Velasco, AJ Kedaigle, SK Simmons, A Nash, M Rocha, G Quadrato, ... Nature 570 (7762), 523-527, 2019 | 861 | 2019 |
| Systematic comparison of single-cell and single-nucleus RNA-sequencing methods J Ding, X Adiconis, SK Simmons, MS Kowalczyk, CC Hession, ... Nature biotechnology 38 (6), 737-746, 2020 | 708 | 2020 |
| Single-cell transcriptomic profiling of the aging mouse brain M Ximerakis, SL Lipnick, BT Innes, SK Simmons, X Adiconis, D Dionne, ... Nature neuroscience 22 (10), 1696-1708, 2019 | 573 | 2019 |
| Autism genes converge on asynchronous development of shared neuron classes B Paulsen, S Velasco, AJ Kedaigle, M Pigoni, G Quadrato, AJ Deo, ... Nature 602 (7896), 268-273, 2022 | 272 | 2022 |
| In vivo Perturb-Seq reveals neuronal and glial abnormalities associated with autism risk genes X Jin, SK Simmons, A Guo, AS Shetty, M Ko, L Nguyen, V Jokhi, ... Science 370 (6520), eaaz6063, 2020 | 246 | 2020 |
| Distinct subnetworks of the thalamic reticular nucleus Y Li, VG Lopez-Huerta, X Adiconis, K Levandowski, S Choi, SK Simmons, ... Nature 583 (7818), 819-824, 2020 | 147 | 2020 |
| Comprehensive comparative analysis of 5′-end RNA-sequencing methods X Adiconis, AL Haber, SK Simmons, A Levy Moonshine, Z Ji, MA Busby, ... Nature methods 15 (7), 505-511, 2018 | 116 | 2018 |
| Enabling privacy-preserving GWASs in heterogeneous human populations S Simmons, C Sahinalp, B Berger Cell systems 3 (1), 54-61, 2016 | 100 | 2016 |
| Effects of 3D culturing conditions on the transcriptomic profile of stem-cell-derived neurons H Tekin, S Simmons, B Cummings, L Gao, X Adiconis, CC Hession, ... Nature Biomedical Engineering 2 (7), 540-554, 2018 | 96 | 2018 |
| Realizing privacy preserving genome-wide association studies S Simmons, B Berger Bioinformatics 32 (9), 1293-1300, 2016 | 86 | 2016 |
| Genetic analysis of isoform usage in the human anti-viral response reveals influenza-specific regulation of ERAP2 transcripts under balancing selection CJ Ye, J Chen, AC Villani, RE Gate, M Subramaniam, T Bhangale, ... Genome research 28 (12), 1812-1825, 2018 | 72 | 2018 |
| Algebraic Cryptanalysis of Simplified AES∗ S Simmons Cryptologia 33 (4), 305-314, 2009 | 35 | 2009 |
| The effect of background noise and its removal on the analysis of single-cell expression data P Janssen, Z Kliesmete, B Vieth, X Adiconis, S Simmons, J Marshall, ... Genome Biology 24 (1), 140, 2023 | 31 | 2023 |
| Brain-region-specific changes in neurons and glia and dysregulation of dopamine signaling in Grin2a mutant mice Z Farsi, A Nicolella, SK Simmons, S Aryal, N Shepard, K Brenner, S Lin, ... Neuron 111 (21), 3378-3396. e9, 2023 | 29 | 2023 |
| A single-cell map of antisense oligonucleotide activity in the brain MA Mortberg, JE Gentile, NM Nadaf, C Vanderburg, S Simmons, ... Nucleic Acids Research 51 (14), 7109-7124, 2023 | 28 | 2023 |
| Mostly natural sequencing-by-synthesis for scRNA-seq using Ultima sequencing SK Simmons, G Lithwick-Yanai, X Adiconis, F Oberstrass, N Iremadze, ... Nature Biotechnology 41 (2), 204-211, 2023 | 28 | 2023 |
| Privacy-preserving biomedical database queries with optimal privacy-utility trade-offs H Cho, S Simmons, R Kim, B Berger Cell systems 10 (5), 408-416. e9, 2020 | 28 | 2020 |
| Heterochronic parabiosis reprograms the mouse brain transcriptome by shifting aging signatures in multiple cell types M Ximerakis, KM Holton, RM Giadone, C Ozek, M Saxena, S Santiago, ... Nature Aging 3 (3), 327-345, 2023 | 27 | 2023 |
| Differential excitatory vs inhibitory SCN expression at single cell level regulates brain sodium channel function in neurodevelopmental disorders J Du, S Simmons, A Brunklaus, X Adiconis, CC Hession, Z Fu, Y Li, ... European Journal of Paediatric Neurology 24, 129-133, 2020 | 24 | 2020 |
| Avoidable binary patterns in partial words F Blanchet-Sadri, R Mercaş, S Simmons, E Weissenstein Acta Informatica 48 (1), 25-41, 2011 | 20 | 2011 |
Joshua Z. LevinBroad Institute of MIT & HarvardEmail verificata su broadinstitute.org