| GiniClust: detecting rare cell types from single-cell gene expression data with Gini index L Jiang, H Chen, L Pinello, GC Yuan Genome biology 17 (1), 1-13, 2016 | 247 | 2016 |
| Assessment of computational methods for the analysis of single-cell ATAC-seq data H Chen, C Lareau, T Andreani, ME Vinyard, SP Garcia, K Clement, ... Genome biology 20 (1), 1-25, 2019 | 224 | 2019 |
| Single-cell trajectories reconstruction, exploration and mapping of omics data with STREAM H Chen, L Albergante, JY Hsu, CA Lareau, G Lo Bosco, J Guan, S Zhou, ... Nature communications 10 (1), 1903, 2019 | 202 | 2019 |
| Dissecting hematopoietic and renal cell heterogeneity in adult zebrafish at single-cell resolution using RNA sequencing Q Tang, S Iyer, R Lobbardi, JC Moore, H Chen, C Lareau, C Hebert, ... Journal of Experimental Medicine 214 (10), 2875-2887, 2017 | 138 | 2017 |
| Mapping human pluripotent stem cell differentiation pathways using high throughput single-cell RNA-sequencing X Han, H Chen, D Huang, H Chen, L Fei, C Cheng, H Huang, GC Yuan, ... Genome biology 19 (1), 1-19, 2018 | 99 | 2018 |
| Three subtypes of lung cancer fibroblasts define distinct therapeutic paradigms H Hu, Z Piotrowska, PJ Hare, H Chen, HE Mulvey, A Mayfield, S Noeen, ... Cancer Cell 39 (11), 1531-1547. e10, 2021 | 94 | 2021 |
| Aging-associated alterations in mammary epithelia and stroma revealed by single-cell RNA sequencing CMC Li, H Shapiro, C Tsiobikas, LM Selfors, H Chen, J Rosenbluth, ... Cell reports 33 (13), 2020 | 77* | 2020 |
| Robust and scalable learning of complex intrinsic dataset geometry via ElPiGraph L Albergante, E Mirkes, J Bac, H Chen, A Martin, L Faure, E Barillot, ... Entropy 22 (3), 296, 2020 | 55* | 2020 |
| Parallel single-cell RNA-seq and genetic recording reveals lineage decisions in developing embryoid bodies IS Kim, J Wu, GJ Rahme, S Battaglia, A Dixit, E Gaskell, H Chen, L Pinello, ... Cell reports 33 (1), 2020 | 16 | 2020 |
| singlecellVR: interactive visualization of single-cell data in virtual reality DF Stein*, H Chen*, ME Vinyard*, Q Qin*, RD Combs, Q Zhang, L Pinello Frontiers in genetics 12 (764170), 2021 | 15 | 2021 |
| SIMBA: SIngle-cell eMBedding Along with features H Chen, J Ryu, ME Vinyard, A Lerer, L Pinello Nature Methods, 1-11, 2023 | 12 | 2023 |
| STREAM: Single-cell trajectories reconstruction, exploration and mapping of omics data H Chen, L Albergante, JY Hsu, CA Lareau, GL Bosco, J Guan, S Zhou, ... bioRxiv, 302554, 2018 | 8 | 2018 |
| Current progress and potential opportunities to infer single-cell developmental trajectory and cell fate L Wang*, Q Zhang*, Q Qin*, N Trasanidis*, M Vinyard*, H Chen*, L Pinello Current Opinion in Systems Biology, 2021 | 7 | 2021 |
| Single-cell trajectories reconstruction, exploration and mapping of omics data with STREAM. Nat Commun. 2019; 10 (1): 1903 H Chen, L Albergante, JY Hsu, CA Lareau, GL Bosco, J Guan, S Zhou, ... | 7 | 2019 |
| Selective inhibition of integrin αvβ6 leads to rapid induction of urinary bladder tumors in cynomolgus macaques M Guffroy, B Trela, T Kambara, L Stawski, H Chen, L Luus, ... Toxicological Sciences 191 (2), 400-413, 2023 | 3 | 2023 |
| Distinct niche structures and intrinsic programs of fallopian tube and ovarian surface epithelial cells G Qin, ES Park, X Chen, S Han, D Xiang, F Ren, G Liu, H Chen, GC Yuan, ... Iscience 26 (1), 2023 | 2 | 2023 |
| Robust and scalable learning of complex dataset topologies via elpigraph L Albergante, EM Mirkes, H Chen, A Martin, L Faure, E Barillot, L Pinello, ... Entropy 22, 2020 | 2 | 2020 |
| Characterization of Mammary Cells Co‐expressing Separate Lineage Markers HK Shapiro, CMC Li, C Tsiobikas, L Selfors, H Chen, K Gray, Y Oren, ... The FASEB Journal 34 (S1), 1-1, 2020 | | 2020 |
| singlecellVR: interactive visualization of single-cell data in virtual reality DF Stein*, H Chen*, ME Vinyard*, L Pinello bioRxiv, 2020.07.30.229534, 2020 | | 2020 |
| DPNuc: Identifying Nucleosome Positions Based on the Dirichlet Process Mixture Model H Chen, J Guan, S Zhou IEEE/ACM Transactions on Computational Biology and Bioinformatics 12 (6 …, 2015 | | 2015 |
Luca PinelloAssociate Professor, MGH/Harvard Medical School/BROAD InstituteVerified email at mgh.harvard.edu
