| DNA-demethylating agents target colorectal cancer cells by inducing viral mimicry by endogenous transcripts D Roulois, HL Yau, R Singhania, Y Wang, A Danesh, SY Shen, H Han, ... Cell 162 (5), 961-973, 2015 | 1344 | 2015 |
| Sensitive tumour detection and classification using plasma cell-free DNA methylomes SY Shen, R Singhania, G Fehringer, A Chakravarthy, MHA Roehrl, ... Nature 563 (7732), 579-583, 2018 | 762 | 2018 |
| Detection of renal cell carcinoma using plasma and urine cell-free DNA methylomes PV Nuzzo, JE Berchuck, K Korthauer, S Spisak, AH Nassar, S Abou Alaiwi, ... Nature medicine 26 (7), 1041-1043, 2020 | 235 | 2020 |
| Detection and discrimination of intracranial tumors using plasma cell-free DNA methylomes F Nassiri, A Chakravarthy, S Feng, SY Shen, R Nejad, JA Zuccato, ... Nature medicine 26 (7), 1044-1047, 2020 | 230 | 2020 |
| Mutant IDH1 downregulates ATM and alters DNA repair and sensitivity to DNA damage independent of TET2 S Inoue, WY Li, A Tseng, I Beerman, AJ Elia, SC Bendall, F Lemonnier, ... Cancer cell 30 (2), 337-348, 2016 | 222 | 2016 |
| Preparation of cfMeDIP-seq libraries for methylome profiling of plasma cell-free DNA SY Shen, JM Burgener, SV Bratman, DD De Carvalho Nature protocols 14 (10), 2749-2780, 2019 | 158 | 2019 |
| Seasonal variation of bacterial endophytes in urban trees SY Shen, R Fulthorpe Frontiers in microbiology 6, 427, 2015 | 101 | 2015 |
| Bacterial endophytes isolated from plants in natural oil seep soils with chronic hydrocarbon contamination R Lumactud, SY Shen, M Lau, R Fulthorpe Frontiers in microbiology 7, 755, 2016 | 77 | 2016 |
| Tumor-naïve multimodal profiling of circulating tumor DNA in head and neck squamous cell carcinoma JM Burgener, J Zou, Z Zhao, Y Zheng, SY Shen, SH Huang, S Keshavarzi, ... Clinical Cancer Research 27 (15), 4230-4244, 2021 | 74 | 2021 |
| DNA hypomethylating agents increase activation and cytolytic activity of CD8+ T cells HL Yau, E Bell, I Ettayebi, FC de Almeida, GM Boukhaled, SY Shen, ... Molecular cell 81 (7), 1469-1483. e8, 2021 | 71 | 2021 |
| An open-label, phase II multicohort study of an oral hypomethylating agent CC-486 and durvalumab in advanced solid tumors K Taylor, HL Yau, A Chakravarthy, B Wang, SY Shen, I Ettayebi, CA Ishak, ... Journal for immunotherapy of cancer 8 (2), 2020 | 52 | 2020 |
| The cell-free DNA methylome captures distinctions between localized and metastatic prostate tumors S Chen, J Petricca, W Ye, J Guan, Y Zeng, N Cheng, L Gong, SY Shen, ... Nature communications 13 (1), 6467, 2022 | 36 | 2022 |
| Modeling methyl-sensitive transcription factor motifs with an expanded epigenetic alphabet C Viner, CA Ishak, J Johnson, NJ Walker, H Shi, MK Sjöberg-Herrera, ... Genome biology 25 (1), 11, 2024 | 28 | 2024 |
| Cerebrospinal fluid methylome-based liquid biopsies for accurate malignant brain neoplasm classification JA Zuccato, V Patil, S Mansouri, M Voisin, A Chakravarthy, SY Shen, ... Neuro-oncology 25 (8), 1452-1460, 2023 | 22 | 2023 |
| Dynamics of the cell-free DNA methylome of metastatic prostate cancer during androgen-targeting treatment MR Peter, M Bilenky, R Isserlin, GD Bader, SY Shen, DD De Carvalho, ... Epigenomics 12 (15), 1317-1332, 2020 | 17 | 2020 |
| Seasonal variation of bacterial endophytes in urban trees. Front Microbiol 6: 427 SY Shen, R Fulthorpe | 15 | 2015 |
| PacBio SMRT assembly of a complex multi-replicon genome reveals chlorocatechol degradative operon in a region of genome plasticity N Ricker, SY Shen, J Goordial, S Jin, RR Fulthorpe Gene 586 (2), 239-247, 2016 | 11 | 2016 |
| Fungal endophytes increase biomass production in pale swallow-wort (Vincetoxicum rossicum (Kleopow) Barbar.) RB Dickinson, RS Bourchier, RR Fulthorpe, SY Shen, IM Jones, SM Smith Botany 99 (6), 337-353, 2021 | 7 | 2021 |
| The chromatin and single-cell transcriptional landscapes of CD4 T cells in inflammatory bowel disease link risk loci with a proinflammatory Th17 cell population TS Medina, A Murison, M Smith, GS Kinker, A Chakravarthy, GAF Vitiello, ... Frontiers in immunology 14, 1161901, 2023 | 5 | 2023 |
| Sensitive and reproducible cell-free methylome quantification with synthetic spike-in controls SL Wilson, SY Shen, L Harmon, JM Burgener, T Triche, SV Bratman, ... Cell Reports Methods 2 (9), 2022 | 5 | 2022 |
