| Calling somatic SNVs and indels with Mutect2 D Benjamin, T Sato, K Cibulskis, G Getz, C Stewart, L Lichtenstein BioRxiv, 861054, 2019 | 426 | 2019 |
| Mitochondrial DNA variation across 56,434 individuals in gnomAD KM Laricchia, NJ Lake, NA Watts, M Shand, A Haessly, L Gauthier, ... Genome research 32 (3), 569-582, 2022 | 67 | 2022 |
| Friedel oscillations as a probe of fermionic quasiparticles EG Dalla Torre, D Benjamin, Y He, D Dentelski, E Demler Physical Review B 93 (20), 205117, 2016 | 48 | 2016 |
| Single-Band Model of Resonant Inelastic X-Ray Scattering by Quasiparticles in High- Cuprate Superconductors D Benjamin, I Klich, E Demler Physical review letters 112 (24), 247002, 2014 | 47 | 2014 |
| Quantification of somatic mutation flow across individual cell division events by lineage sequencing Y Brody, RJ Kimmerling, YE Maruvka, D Benjamin, JJ Elacqua, ... Genome research 28 (12), 1901-1918, 2018 | 30 | 2018 |
| Variational polaron method for Bose-Bose mixtures D Benjamin, E Demler Physical Review A 89 (3), 033615, 2014 | 30 | 2014 |
| Exploring quasiparticles in high-Tc cuprates through photoemission, tunneling, and x-ray scattering experiments EG Dalla Torre, Y He, D Benjamin, E Demler New Journal of Physics 17 (2), 022001, 2015 | 23 | 2015 |
| GATK-gCNV enables the discovery of rare copy number variants from exome sequencing data M Babadi, JM Fu, SK Lee, AN Smirnov, LD Gauthier, M Walker, ... Nature genetics 55 (9), 1589-1597, 2023 | 20 | 2023 |
| Microscopic theory of resonant soft-X-ray scattering in materials with charge order: The example of charge stripes in high-temperature cuprate superconductors D Benjamin, D Abanin, P Abbamonte, E Demler Physical review letters 110 (13), 137002, 2013 | 19 | 2013 |
| Calling somatic snvs and indels with mutect2. BioRxiv. 2019: 861054 D Benjamin, T Sato, K Cibulskis, G Getz, C Stewart, L Lichtenstein View Article, 0 | 17 | |
| GATK-gCNV: a rare copy number variant discovery algorithm and its application to exome sequencing in the UK biobank M Babadi, JM Fu, SK Lee, AN Smirnov, LD Gauthier, M Walker, ... bioRxiv, 2022.08. 25.504851, 2022 | 9 | 2022 |
| GATK CNV: copy-number variation discovery from coverage data M Babadi, DI Benjamin, SK Lee, A Smirnov, A Chevalier, L Lichtenstein, ... Cancer Research 77 (13_Supplement), 3580-3580, 2017 | 8 | 2017 |
| Probing competing and intertwined orders with resonant inelastic x-ray scattering in the hole-doped cuprates D Benjamin, I Klich, E Demler Physical Review B 92 (3), 035151, 2015 | 8 | 2015 |
| Calling somatic SNVs and indels with Mutect2. 2019; bioRxiv doi: 02 December 2019, preprint: not peer reviewedhttps D Benjamin, T Sato, K Cibulskis, G Getz, C Stewart, L Lichtenstein doi. org/10.1101/861054, 0 | 6 | |
| A validated lineage-derived somatic truth data set enables benchmarking in cancer genome analysis M Shand, J Soto, L Lichtenstein, D Benjamin, Y Farjoun, Y Brody, ... Communications Biology 3 (1), 744, 2020 | 5 | 2020 |
| Calling Somatic SNVs and Indels with Mutect2. bioRxiv, 861054 (2019) D Benjamin, T Sato, K Cibulskis, G Getz, C Stewart, L Lichtenstein Acknowledgments: We thank all members of the Jan Vijg’s laboratory for …, 0 | 5 | |
| Pair HMM probabilistic realignment in HaplotypeCaller and Mutect D Benjamin Broad Institute. Available online: https://github. com/broadinstitute/gatk …, 2018 | 4 | 2018 |
| GATK ACNV: allelic copy-number variation discovery from SNPs and coverage data A Chevalier, L Lichtenstein, A Smirnov, SK Lee, M Babidi, DI Benjamin, ... Cancer Research 77 (13_Supplement), 3581-3581, 2017 | 3 | 2017 |
| Superconducting pairing in resonant inelastic x-ray scattering Y Shi, D Benjamin, E Demler, I Klich Physical Review B 94 (9), 094516, 2016 | 3 | 2016 |
| GATK-gCNV enables the discovery of rare copy number variants from exome sequencing data (Aug, 10.1038/s41588-023-01449-0, 2023) M Babadi, JM Fu, SK Lee, AN Smirnov, LD Gauthier, M Walker, ... NATURE GENETICS, 2024 | | 2024 |
