| Spatial epigenome–transcriptome co-profiling of mammalian tissues D Zhang, Y Deng, P Kukanja, E Agirre, M Bartosovic, M Dong, C Ma, S Ma, ... Nature 616 (7955), 113-122, 2023 | 85 | 2023 |
| SQUID: transcriptomic structural variation detection from RNA-seq C Ma, M Shao, C Kingsford Genome biology 19 (1), 52, 2018 | 26 | 2018 |
| Exact transcript quantification over splice graphs C Ma, H Zheng, C Kingsford Algorithms for Molecular Biology 16 (1), 5, 2021 | 12 | 2021 |
| Network motifs modulate druggability of cellular targets F Wu, C Ma, C Tan Scientific reports 6 (1), 36626, 2016 | 11 | 2016 |
| Deriving ranges of optimal estimated transcript expression due to nonidentifiability H Zheng, C Ma, C Kingsford Journal of Computational Biology 29 (2), 121-139, 2022 | 10 | 2022 |
| Detecting, categorizing, and correcting coverage anomalies of RNA-seq quantification C Ma, C Kingsford Cell systems 9 (6), 589-599. e7, 2019 | 10 | 2019 |
| Epigenetic regulation during cancer transitions across 11 tumour types NV Terekhanova, A Karpova, WW Liang, A Strzalkowski, S Chen, Y Li, ... Nature 623 (7986), 432-441, 2023 | 7 | 2023 |
| Belayer: Modeling discrete and continuous spatial variation in gene expression from spatially resolved transcriptomics C Ma, U Chitra, S Zhang, B Raphael Cell Systems 13 (10), 786-797, 2022 | 7 | 2022 |
| Finding ranges of optimal transcript expression quantification in cases of non-identifiability C Ma, H Zheng, C Kingsford Biorxiv, 2020 | 6 | 2020 |
| Detecting transcriptomic structural variants in heterogeneous contexts via the Multiple Compatible Arrangements Problem Y Qiu, C Ma, H Xie, C Kingsford Algorithms for Molecular Biology 15 (1), 9, 2020 | 3 | 2020 |
| Detecting anomalies in RNA-seq quantification C Ma, C Kingsford bioRxiv, 541714, 2019 | 2 | 2019 |
| Mapping the topography of spatial gene expression with interpretable deep learning U Chitra, BJ Arnold, H Sarkar, C Ma, S Lopez-Darwin, K Sanno, ... bioRxiv, 2023 | 1 | 2023 |
| Estimating mutual information under measurement error C Ma, C Kingsford bioRxiv, 852384, 2019 | | 2019 |
| SQUID: Transcriptomic Structural Variation Detection from C Ma, M Shao, C Kingsford | | |
