| Comprehensive analysis of mRNA methylation reveals enrichment in 3′ UTRs and near stop codons KD Meyer, Y Saletore, P Zumbo, O Elemento, CE Mason, SR Jaffrey Cell 149 (7), 1635-1646, 2012 | 3665 | 2012 |
| Genetic diagnosis by whole exome capture and massively parallel DNA sequencing M Choi, UI Scholl, W Ji, T Liu, IR Tikhonova, P Zumbo, A Nayir, ... Proceedings of the National Academy of Sciences 106 (45), 19096-19101, 2009 | 1841 | 2009 |
| Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data F Rapaport, R Khanin, Y Liang, M Pirun, A Krek, P Zumbo, CE Mason, ... Genome biology 14, 1-13, 2013 | 896 | 2013 |
| A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequencing Quality Control Consortium Nature biotechnology 32 (9), 903-914, 2014 | 849 | 2014 |
| TOX is a critical regulator of tumour-specific T cell differentiation AC Scott, F Dündar, P Zumbo, SS Chandran, CA Klebanoff, M Shakiba, ... Nature 571 (7764), 270-274, 2019 | 846 | 2019 |
| Detecting and correcting systematic variation in large-scale RNA sequencing data S Li, PP Łabaj, P Zumbo, P Sykacek, W Shi, L Shi, J Phan, PY Wu, ... Nature biotechnology 32 (9), 888-895, 2014 | 369 | 2014 |
| Geospatial resolution of human and bacterial diversity with city-scale metagenomics E Afshinnekoo, C Meydan, S Chowdhury, D Jaroudi, C Boyer, N Bernstein, ... Cell systems 1 (1), 72-87, 2015 | 336 | 2015 |
| Relapse-specific mutations in NT5C2 in childhood acute lymphoblastic leukemia JA Meyer, J Wang, LE Hogan, JJ Yang, S Dandekar, JP Patel, Z Tang, ... Nature genetics 45 (3), 290-294, 2013 | 327 | 2013 |
| Sex-specific and lineage-specific alternative splicing in primates R Blekhman, JC Marioni, P Zumbo, M Stephens, Y Gilad Genome research 20 (2), 180-189, 2010 | 323 | 2010 |
| Multi-platform assessment of transcriptome profiling using RNA-seq in the ABRF next-generation sequencing study S Li, SW Tighe, CM Nicolet, D Grove, S Levy, W Farmerie, A Viale, ... Nature biotechnology 32 (9), 915-925, 2014 | 257 | 2014 |
| Adaptable haemodynamic endothelial cells for organogenesis and tumorigenesis B Palikuqi, DHT Nguyen, G Li, R Schreiner, AF Pellegata, Y Liu, ... Nature 585 (7825), 426-432, 2020 | 191 | 2020 |
| A hybrid mechanism of action for BCL6 in B cells defined by formation of functionally distinct complexes at enhancers and promoters K Hatzi, Y Jiang, C Huang, F Garrett-Bakelman, MD Gearhart, ... Cell reports 4 (3), 578-588, 2013 | 190 | 2013 |
| Fully defined human pluripotent stem cell-derived microglia and tri-culture system model C3 production in Alzheimer’s disease SR Guttikonda, L Sikkema, J Tchieu, N Saurat, RM Walsh, O Harschnitz, ... Nature Neuroscience 24 (3), 343-354, 2021 | 148 | 2021 |
| An autoimmune stem-like CD8 T cell population drives type 1 diabetes SV Gearty, F Dündar, P Zumbo, G Espinosa-Carrasco, M Shakiba, ... Nature 602 (7895), 156-161, 2022 | 123 | 2022 |
| An optimized algorithm for detecting and annotating regional differential methylation S Li, FE Garrett-Bakelman, A Akalin, P Zumbo, R Levine, BL To, ID Lewis, ... BMC bioinformatics 14, 1-9, 2013 | 120 | 2013 |
| Genome-scale screens identify JNK–JUN signaling as a barrier for pluripotency exit and endoderm differentiation QV Li, G Dixon, N Verma, BP Rosen, M Gordillo, R Luo, C Xu, Q Wang, ... Nature genetics 51 (6), 999-1010, 2019 | 107 | 2019 |
| TCR signal strength defines distinct mechanisms of T cell dysfunction and cancer evasion M Shakiba, P Zumbo, G Espinosa-Carrasco, L Menocal, F Dündar, ... Journal of Experimental Medicine 219 (2), e20201966, 2021 | 93 | 2021 |
| The non-human primate reference transcriptome resource (NHPRTR) for comparative functional genomics L Pipes, S Li, M Bozinoski, R Palermo, X Peng, P Blood, S Kelly, ... Nucleic acids research 41 (D1), D906-D914, 2013 | 75 | 2013 |
| Immunogenicity and therapeutic targeting of a public neoantigen derived from mutated PIK3CA SS Chandran, J Ma, MG Klatt, F Dündar, C Bandlamudi, P Razavi, ... Nature medicine 28 (5), 946-957, 2022 | 70 | 2022 |
| Introduction to differential gene expression analysis using RNA-seq F Dündar, L Skrabanek, P Zumbo Appl. Bioinformatics, 1-67, 2015 | 49 | 2015 |
