| Best practices for single-cell analysis across modalities L Heumos, AC Schaar, C Lance, A Litinetskaya, F Drost, L Zappia, ... Nature Reviews Genetics 24 (8), 550-572, 2023 | 384 | 2023 |
| Alignment and mapping methodology influence transcript abundance estimation A Srivastava, L Malik, H Sarkar, M Zakeri, F Almodaresi, C Soneson, ... Genome biology 21, 1-29, 2020 | 158 | 2020 |
| RapMap: a rapid, sensitive and accurate tool for mapping RNA-seq reads to transcriptomes A Srivastava, H Sarkar, N Gupta, R Patro Bioinformatics 32 (12), i192-i200, 2016 | 138 | 2016 |
| A space and time-efficient index for the compacted colored de Bruijn graph F Almodaresi*, H Sarkar*, A Srivastava, R Patro Bioinformatics 34 (13), i169-i177, 2018 | 90 | 2018 |
| Dissecting the immune suppressive human prostate tumor microenvironment via integrated single-cell and spatial transcriptomic analyses T Hirz, S Mei, H Sarkar, Y Kfoury, S Wu, BM Verhoeven, AO Subtelny, ... Nature Communications 14 (1), 663, 2023 | 75 | 2023 |
| Haplotype-aware analysis of somatic copy number variations from single-cell transcriptomes T Gao, R Soldatov, H Sarkar, A Kurkiewicz, E Biederstedt, PR Loh, ... Nature Biotechnology 41 (3), 417-426, 2023 | 63 | 2023 |
| Alevin-fry unlocks rapid, accurate and memory-frugal quantification of single-cell RNA-seq data D He, M Zakeri, H Sarkar, C Soneson, A Srivastava, R Patro Nature Methods 19 (3), 316-322, 2022 | 54 | 2022 |
| Voronoi game on graphs S Bandyapadhyay, A Banik, S Das, H Sarkar Theoretical Computer Science 562, 270-282, 2015 | 50 | 2015 |
| 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 | 35 | 2023 |
| Towards selective-alignment: Bridging the accuracy gap between alignment-based and alignment-free transcript quantification H Sarkar, M Zakeri, L Malik, R Patro Proceedings of the 2018 ACM International Conference on Bioinformatics …, 2018 | 26 | 2018 |
| A Bayesian framework for inter-cellular information sharing improves dscRNA-seq quantification A Srivastava, L Malik, H Sarkar, R Patro Bioinformatics 36 (Supplement_1), i292-i299, 2020 | 20 | 2020 |
| Minnow: a principled framework for rapid simulation of dscRNA-seq data at the read level H Sarkar, A Srivastava, R Patro Bioinformatics 35 (14), i136-i144, 2019 | 19 | 2019 |
| Airpart: interpretable statistical models for analyzing allelic imbalance in single-cell datasets W Mu, H Sarkar, A Srivastava, K Choi, R Patro, MI Love Bioinformatics 38 (10), 2773-2780, 2022 | 16 | 2022 |
| Terminus enables the discovery of data-driven, robust transcript groups from RNA-seq data H Sarkar, A Srivastava, HC Bravo, MI Love, R Patro Bioinformatics 36 (Supplement_1), i102-i110, 2020 | 13 | 2020 |
| Accurate, fast and lightweight clustering of de novo transcriptomes using fragment equivalence classes A Srivastava, H Sarkar, L Malik, R Patro arXiv preprint arXiv:1604.03250, 2016 | 11 | 2016 |
| Social media attributions in the context of water crisis R Sarkar, H Sarkar, S Mahinder, AR KhudaBukhsh arXiv preprint arXiv:2001.01697, 2020 | 10 | 2020 |
| Single-cell analysis of immune and stroma cell remodeling in clear cell renal cell carcinoma primary tumors and bone metastatic lesions S Mei, AM Alchahin, I Tsea, Y Kfoury, T Hirz, NE Jeffries, T Zhao, Y Xu, ... Genome Medicine 16 (1), 1, 2024 | 7 | 2024 |
| Haplotype-enhanced inference of somatic copy number profiles from single-cell transcriptomes T Gao, R Soldatov, H Sarkar, A Kurkiewicz, E Biederstedt, PR Loh, ... bioRxiv, 2022.02. 07.479314, 2022 | 6 | 2022 |
| Mapping the topography of spatial gene expression with interpretable deep learning U Chitra, BJ Arnold, H Sarkar, C Ma, S Lopez-Darwin, K Sanno, ... International Conference on Research in Computational Molecular Biology, 368-371, 2024 | 5 | 2024 |
| refine. bio: A resource of uniformly processed publicly available gene expression datasets CS Greene, D Hu, RWW Jones, S Liu, DS Mejia, R Patro, SR Piccolo, ... Google Scholar, 2023 | 5 | 2023 |
Rob PatroAssociate Professor, Department of Computer Science, University of MarylandVerified email at cs.umd.edu
