| LUMPY: a probabilistic framework for structural variant discovery RM Layer, C Chiang, AR Quinlan, IM Hall Genome biology 15 (6), R84, 2014 | 1731 | 2014 |
| SpeedSeq: ultra-fast personal genome analysis and interpretation C Chiang, RM Layer, GG Faust, MR Lindberg, DB Rose, EP Garrison, ... Nature methods 12 (10), 966-968, 2015 | 629 | 2015 |
| A complete reference genome improves analysis of human genetic variation S Aganezov, SM Yan, DC Soto, M Kirsche, S Zarate, P Avdeyev, ... Science 376 (6588), eabl3533, 2022 | 419 | 2022 |
| Extrachromosomal microDNAs and chromosomal microdeletions in normal tissues Y Shibata, P Kumar, R Layer, S Willcox, JR Gagan, JD Griffith, A Dutta Science 336 (6077), 82-86, 2012 | 353 | 2012 |
| An analytical framework for whole-genome sequence association studies and its implications for autism spectrum disorder DM Werling, H Brand, JY An, MR Stone, L Zhu, JT Glessner, RL Collins, ... Nature genetics 50 (5), 727-736, 2018 | 322 | 2018 |
| Mapping and characterization of structural variation in 17,795 human genomes HJ Abel, DE Larson, AA Regier, C Chiang, I Das, KL Kanchi, RM Layer, ... Nature 583 (7814), 83-89, 2020 | 305 | 2020 |
| A map of constrained coding regions in the human genome JM Havrilla, BS Pedersen, RM Layer, AR Quinlan Nature genetics 51 (1), 88-95, 2019 | 290 | 2019 |
| MicroRNA-378 targets the myogenic repressor MyoR during myoblast differentiation J Gagan, BK Dey, R Layer, Z Yan, A Dutta Journal of Biological Chemistry 286 (22), 19431-19438, 2011 | 215 | 2011 |
| Breakpoint profiling of 64 cancer genomes reveals numerous complex rearrangements spawned by homology-independent mechanisms A Malhotra, M Lindberg, GG Faust, ML Leibowitz, RA Clark, RM Layer, ... Genome research 23 (5), 762-776, 2013 | 210 | 2013 |
| Vcfanno: fast, flexible annotation of genetic variants BS Pedersen, RM Layer, AR Quinlan Genome biology 17 (1), 118, 2016 | 208 | 2016 |
| GIGGLE: a search engine for large-scale integrated genome analysis RM Layer, BS Pedersen, T DiSera, GT Marth, J Gertz, AR Quinlan Nature methods 15 (2), 123-126, 2018 | 198 | 2018 |
| Combating subclonal evolution of resistant cancer phenotypes SW Brady, JA McQuerry, Y Qiao, SR Piccolo, G Shrestha, DF Jenkins, ... Nature communications 8 (1), 1231, 2017 | 171 | 2017 |
| MUNC, a long noncoding RNA that facilitates the function of MyoD in skeletal myogenesis AC Mueller, MA Cichewicz, BK Dey, R Layer, BJ Reon, JR Gagan, A Dutta Molecular and cellular biology 35 (3), 498-513, 2015 | 142 | 2015 |
| Samplot: a platform for structural variant visual validation and automated filtering JR Belyeu, M Chowdhury, J Brown, BS Pedersen, MJ Cormier, ... Genome biology 22 (1), 161, 2021 | 134 | 2021 |
| Regulation of several androgen-induced genes through the repression of the miR-99a/let-7c/miR-125b-2 miRNA cluster in prostate cancer cells D Sun, R Layer, AC Mueller, MA Cichewicz, M Negishi, BM Paschal, ... Oncogene 33 (11), 1448-1457, 2014 | 120 | 2014 |
| Notch3 and Mef2c proteins are mutually antagonistic via Mkp1 protein and miR-1/206 microRNAs in differentiating myoblasts J Gagan, BK Dey, R Layer, Z Yan, A Dutta Journal of Biological Chemistry 287 (48), 40360-40370, 2012 | 118 | 2012 |
| The structural variation landscape in 492 Atlantic salmon genomes AC Bertolotti, RM Layer, MK Gundappa, MD Gallagher, E Pehlivanoglu, ... Nature Communications 11 (1), 5176, 2020 | 116 | 2020 |
| Whole-genome analysis for effective clinical diagnosis and gene discovery in early infantile epileptic encephalopathy BEP Ostrander, RJ Butterfield, BS Pedersen, AJ Farrell, RM Layer, ... NPJ genomic medicine 3 (1), 22, 2018 | 102 | 2018 |
| Efficient genotype compression and analysis of large genetic-variation data sets RM Layer, N Kindlon, KJ Karczewski, Exome Aggregation Consortium, ... Nature methods 13 (1), 63-65, 2016 | 69 | 2016 |
| svtools: population-scale analysis of structural variation DE Larson, HJ Abel, C Chiang, A Badve, I Das, JM Eldred, RM Layer, ... Bioinformatics 35 (22), 4782-4787, 2019 | 59 | 2019 |
