| Defining the core essential genome of Pseudomonas aeruginosa BE Poulsen, R Yang, AE Clatworthy, T White, SJ Osmulski, L Li, ... Proceedings of the National Academy of Sciences 116 (20), 10072-10080, 2019 | 187 | 2019 |
| Simultaneous detection of genotype and phenotype enables rapid and accurate antibiotic susceptibility determination RP Bhattacharyya, N Bandyopadhyay, P Ma, SS Son, J Liu, LL He, L Wu, ... Nature medicine 25 (12), 1858-1864, 2019 | 111 | 2019 |
| Hybridization-based capture of pathogen mRNA enables paired host-pathogen transcriptional analysis V Betin, C Penaranda, N Bandyopadhyay, R Yang, A Abitua, ... Scientific reports 9 (1), 19244, 2019 | 32 | 2019 |
| Epiphany: predicting Hi-C contact maps from 1D epigenomic signals R Yang, A Das, VR Gao, A Karbalayghareh, WS Noble, JA Bilmes, ... Genome Biology 24 (1), 1-26, 2023 | 30 | 2023 |
| Accelerating Batch Active Learning Using Continual Learning Techniques A Das, G Bhatt, M Bhalerao, V Gao, R Yang, J Bilmes arXiv preprint arXiv:2305.06408, 2023 | 8* | 2023 |
| Efficient detection and assembly of non-reference DNA sequences with synthetic long reads D Meleshko, R Yang, P Marks, S Williams, I Hajirasouliha Nucleic Acids Research 50 (18), e108-e108, 2022 | 5 | 2022 |
| ChromaFold predicts the 3D contact map from single-cell chromatin accessibility VR Gao, R Yang, A Das, R Luo, H Luo, DR McNally, I Karagiannidis, ... Nature Communications 15 (1), 9432, 2024 | 4 | 2024 |
| HiC2Self: self-supervised denoising for bulk and single-cell Hi-C contact maps R Yang, A Karbalayghareh, CS Leslie bioRxiv, 2024.11. 21.624767, 2024 | | 2024 |
| Blackbird: structural variant detection using synthetic and low-coverage long-reads D Meleshko, R Yang, S Maharajan, DC Danko, A Korobeynikov, ... bioRxiv, 2024.11. 17.624011, 2024 | | 2024 |
| TAD hierarchy restricts poised LTR activation and loss of TAD hierarchy promotes LTR co-option in cancer EWP Wong, M Sahin, R Yang, UJ Lee, YA Zhan, R Misra, F Tomas, ... bioRxiv, 2024.05. 31.596845, 2024 | | 2024 |
