| QIIME allows analysis of high-throughput community sequencing data JG Caporaso, J Kuczynski, J Stombaugh, K Bittinger, FD Bushman, ... Nature methods 7 (5), 335-336, 2010 | 36327 | 2010 |
| Human gut microbiome viewed across age and geography T Yatsunenko, FE Rey, MJ Manary, I Trehan, MG Dominguez-Bello, ... nature 486 (7402), 222-227, 2012 | 8668 | 2012 |
| Defining seasonal marine microbial community dynamics JA Gilbert, JA Steele, JG Caporaso, L Steinbrück, J Reeder, B Temperton, ... The ISME journal 6 (2), 298-308, 2012 | 1113 | 2012 |
| Rapidly denoising pyrosequencing amplicon reads by exploiting rank-abundance distributions J Reeder, R Knight Nature methods 7 (9), 668-669, 2010 | 823 | 2010 |
| A comprehensive transcriptional portrait of human cancer cell lines C Klijn, S Durinck, EW Stawiski, PM Haverty, Z Jiang, H Liu, J Degenhardt, ... Nature biotechnology 33 (3), 306-312, 2015 | 698 | 2015 |
| GMAP and GSNAP for genomic sequence alignment: enhancements to speed, accuracy, and functionality TD Wu, J Reeder, M Lawrence, G Becker, MJ Brauer Statistical genomics: methods and protocols, 283-334, 2016 | 435 | 2016 |
| Reshaping the gut microbiome with bacterial transplantation and antibiotic intake C Manichanh, J Reeder, P Gibert, E Varela, M Llopis, M Antolin, R Guigo, ... Genome research 20 (10), 1411-1419, 2010 | 404 | 2010 |
| Design, implementation and evaluation of a practical pseudoknot folding algorithm based on thermodynamics J Reeder, R Giegerich BMC bioinformatics 5, 1-12, 2004 | 401 | 2004 |
| RNAshapes: an integrated RNA analysis package based on abstract shapes P Steffen, B Voß, M Rehmsmeier, J Reeder, R Giegerich Bioinformatics 22 (4), 500-503, 2006 | 394 | 2006 |
| Spectrum of diverse genomic alterations define non–clear cell renal carcinoma subtypes S Durinck, EW Stawiski, A Pavía-Jiménez, Z Modrusan, P Kapur, ... Nature genetics 47 (1), 13-21, 2015 | 374 | 2015 |
| The'rare biosphere': a reality check J Reeder, R Knight Nature methods 6 (9), 636-637, 2009 | 291 | 2009 |
| Recurrent loss of NFE2L2 exon 2 is a mechanism for Nrf2 pathway activation in human cancers LD Goldstein, J Lee, F Gnad, C Klijn, A Schaub, J Reeder, A Daemen, ... Cell reports 16 (10), 2605-2617, 2016 | 198 | 2016 |
| Analysis of protein-altering variants in telomerase genes and their association with MUC5B common variant status in patients with idiopathic pulmonary fibrosis: a candidate … A Dressen, AR Abbas, C Cabanski, J Reeder, TR Ramalingam, ... The Lancet Respiratory Medicine 6 (8), 603-614, 2018 | 168 | 2018 |
| pknotsRG: RNA pseudoknot folding including near-optimal structures and sliding windows J Reeder, P Steffen, R Giegerich Nucleic acids research 35 (suppl_2), W320-W324, 2007 | 167 | 2007 |
| Knight, R1: CAS: 528: DC% 2BC3cXksFalurg% 3D: QIIME allows analysis of high-throughput community sequencing data. vol. 7 JG Caporaso, J Kuczynski, J Stombaugh, K Bittinger, FD Bushman, ... Nat Methods, 335-336, 2010 | 154 | 2010 |
| Consensus shapes: an alternative to the Sankoff algorithm for RNA consensus structure prediction J Reeder, R Giegerich Bioinformatics 21 (17), 3516-3523, 2005 | 134 | 2005 |
| Germline genetic polymorphisms influence tumor gene expression and immune cell infiltration YW Lim, H Chen-Harris, O Mayba, S Lianoglou, A Wuster, T Bhangale, ... Proceedings of the National Academy of Sciences 115 (50), E11701-E11710, 2018 | 125 | 2018 |
| Integrated exome and transcriptome sequencing reveals ZAK isoform usage in gastric cancer J Liu, M McCleland, EW Stawiski, F Gnad, O Mayba, PM Haverty, ... Nature communications 5 (1), 3830, 2014 | 105 | 2014 |
| Beyond Mfold: recent advances in RNA bioinformatics J Reeder, M Höchsmann, M Rehmsmeier, B Voss, R Giegerich Journal of biotechnology 124 (1), 41-55, 2006 | 94 | 2006 |
| KnotInFrame: prediction of− 1 ribosomal frameshift events C Theis, J Reeder, R Giegerich Nucleic acids research 36 (18), 6013-6020, 2008 | 88 | 2008 |
Dan KnightsUniversity of MinnesotaVerified email at umn.edu
