| Fast and scalable inference of multi-sample cancer lineages V Popic, R Salari, I Hajirasouliha, D Kashef-Haghighi, RB West, ... Genome biology 16, 1-17, 2015 | 243 | 2015 |
| Short read alignment with populations of genomes L Huang, V Popic, S Batzoglou Bioinformatics 29 (13), i361-i370, 2013 | 161 | 2013 |
| High-throughput RNA isoform sequencing using programmed cDNA concatenation AM Al’Khafaji, JT Smith, KV Garimella, M Babadi, V Popic, ... Nature Biotechnology, 1-5, 2023 | 129 | 2023 |
| Abstractions for usable information flow control in Aeolus W Cheng, DRK Ports, D Schultz, V Popic, A Blankstein, J Cowling, ... 2012 USENIX Annual Technical Conference (USENIX ATC 12), 139-151, 2012 | 119 | 2012 |
| Composition and reuse with compiled domain-specific languages AK Sujeeth, T Rompf, KJ Brown, HJ Lee, H Chafi, V Popic, M Wu, ... ECOOP 2013–Object-Oriented Programming: 27th European Conference …, 2013 | 90 | 2013 |
| A hybrid cloud read aligner based on MinHash and kmer voting that preserves privacy V Popic, S Batzoglou Nature communications 8 (1), 15311, 2017 | 57* | 2017 |
| Cue: a deep-learning framework for structural variant discovery and genotyping V Popic, C Rohlicek, F Cunial, I Hajirasouliha, D Meleshko, K Garimella, ... Nature methods 20 (4), 559-568, 2023 | 37 | 2023 |
| DNA sequencing using hydrogel beads YS Wu, F Gorpe-Yasar, TK Khurana, V Popic, EB Jaeger, M Ronaghi US Patent 11,180,752, 2021 | 19 | 2021 |
| Fast metagenomic binning via hashing and bayesian clustering V Popic, V Kuleshov, M Snyder, S Batzoglou Journal of Computational Biology 25 (7), 677-688, 2018 | 17* | 2018 |
| Meltos: multi-sample tumor phylogeny reconstruction for structural variants C Ricketts, D Seidman, V Popic, F Hormozdiari, S Batzoglou, ... Bioinformatics 36 (4), 1082-1090, 2020 | 13 | 2020 |
| Using LICHeE and BAMSE for reconstructing cancer phylogenetic trees C Ricketts, V Popic, H Toosi, I Hajirasouliha Current protocols in bioinformatics 62 (1), e49, 2018 | 8 | 2018 |
| Audit trails in the Aeolus distributed security platform V Popic | 6 | 2010 |
| Secure discovery of genetic relatives across large-scale and distributed genomic data sets MM Hong, D Froelicher, R Magner, V Popic, B Berger, H Cho Genome Research 34 (9), 1312-1323, 2024 | 3 | 2024 |
| Spatial indexing of genetic material and library preparation using hydrogel beads and flow cells TK Khurana, YS Wu, XJ Chen, F Gorpe-Yasar, YY Lin, V Popic, EB Jaeger, ... US Patent 11,352,668, 2022 | 3 | 2022 |
| Parallizing the push-relabel max flow algorithm V Popic, J Vélez | 2 | 2010 |
| CTAT-LR-fusion: accurate fusion transcript identification from long and short read isoform sequencing at bulk or single cell resolution Q Qin, V Popic, H Yu, E White, A Khorgade, A Shin, K Wienand, A Dondi, ... BioRxiv, 2024 | 1 | 2024 |
| Dna sequencing using hydrogel beads YS Wu, F Gorpe-Yasar, TK Khurana, V Popic, EB Jaeger, M Ronaghi US Patent App. 17/451,771, 2022 | 1 | 2022 |
| Accurate fusion transcript identification from long-and short-read isoform sequencing at bulk or single-cell resolution Q Qin, V Popic, K Wienand, H Yu, E White, A Khorgade, A Shin, ... Genome Research, 2025 | | 2025 |
| A Murine Database of Structural Variants Enables the Genetic Architecture of a Spontaneous Murine Lymphoma to be Characterized W Ren, Z Fang, E Dolzhenko, CT Saunders, Z Cheng, V Popic, G Peltz bioRxiv, 2025.01. 09.632219, 2025 | | 2025 |
| Multi-platform evaluation and optimization of single-cell RNA isoform sequencing JT Webber, DA Bartlett, G Al-Eryani, A Khorgade, A Shin, C Georgescu, ... bioRxiv, 2025.02. 22.639662, 2025 | | 2025 |
