| Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks C Trapnell, A Roberts, L Goff, G Pertea, D Kim, DR Kelley, H Pimentel, ... Nature Protocols 7 (3), 562-578, 2012 | 2339 | 2012 |
| Identification of novel transcripts in annotated genomes using RNA-Seq A Roberts, H Pimentel, C Trapnell, L Pachter Bioinformatics 27 (17), 2325-2329, 2011 | 475 | 2011 |
| Improving RNA-Seq expression estimates by correcting for fragment bias A Roberts, C Trapnell, J Donaghey, JL Rinn, L Pachter Genome biology 12 (3), 1, 2011 | 471 | 2011 |
| Streaming fragment assignment for real-time analysis of sequencing experiments A Roberts, L Pachter Nature Methods, 2012 | 236 | 2012 |
| Fast statistical alignment RK Bradley, A Roberts, M Smoot, S Juvekar, J Do, C Dewey, I Holmes, ... PLoS Comput Biol 5 (5), e1000392, 2009 | 230 | 2009 |
| The polymorphism architecture of mouse genetic resources elucidated using genome-wide resequencing data: implications for QTL discovery and systems genetics A Roberts, FPM de Villena, W Wang, L McMillan, DW Threadgill Mammalian Genome 18 (6-7), 473-481, 2007 | 128 | 2007 |
| Inferring missing genotypes in large SNP panels using fast nearest-neighbor searches over sliding windows A Roberts, L McMillan, W Wang, J Parker, I Rusyn, D Threadgill Bioinformatics 23 (13), i401-i407, 2007 | 60 | 2007 |
| Genome methylation in D. melanogaster is found at specific short motifs and is independent of DNMT2 activity S Takayama, J Dhahbi, A Roberts, G Mao, SJ Heo, L Pachter, DIK Martin, ... Genome research 24 (5), 821-830, 2014 | 47 | 2014 |
| RNA-Seq and find: entering the RNA deep field A Roberts, L Pachter Genome medicine 3 (11), 1, 2011 | 12 | 2011 |
| Fragment assignment in the cloud with eXpress-D A Roberts, H Feng, L Pachter BMC bioinformatics 14 (1), 1, 2013 | 9 | 2013 |
| Sample selection for maximal diversity F Pan, A Roberts, L McMillan, D Threadgill, W Wang Seventh IEEE International Conference on Data Mining (ICDM 2007), 262-271, 2007 | 7 | 2007 |
| Quantifying uniformity of mapped reads V Hower, R Starfield, A Roberts, L Pachter Bioinformatics, 2012 | 3 | 2012 |