| Extrachromosomal oncogene amplification drives tumour evolution and genetic heterogeneity KM Turner, V Deshpande, D Beyter, T Koga, J Rusert, C Lee, B Li, ... Nature 543 (7643), 122-125, 2017 | 675 | 2017 |
| Extrachromosomal DNA is associated with oncogene amplification and poor outcome across multiple cancers H Kim, NP Nguyen, K Turner, S Wu, AD Gujar, J Luebeck, J Liu, ... Nature genetics 52 (9), 891-897, 2020 | 360 | 2020 |
| ExpansionHunter: a sequence-graph-based tool to analyze variation in short tandem repeat regions E Dolzhenko, V Deshpande, F Schlesinger, P Krusche, R Petrovski, ... Bioinformatics 35 (22), 4754-4756, 2019 | 246 | 2019 |
| Exploring the landscape of focal amplifications in cancer using AmpliconArchitect V Deshpande, J Luebeck, NPD Nguyen, M Bakhtiari, KM Turner, ... Nature communications 10 (1), 392, 2019 | 236 | 2019 |
| Whole genome sequencing for the diagnosis of neurological repeat expansion disorders in the UK: a retrospective diagnostic accuracy and prospective clinical validation study K Ibañez, J Polke, RT Hagelstrom, E Dolzhenko, D Pasko, ERA Thomas, ... The Lancet Neurology 21 (3), 234-245, 2022 | 119 | 2022 |
| AmpliconReconstructor integrates NGS and optical mapping to resolve the complex structures of focal amplifications J Luebeck, C Coruh, SR Dehkordi, JT Lange, KM Turner, V Deshpande, ... Nature communications 11 (1), 4374, 2020 | 75 | 2020 |
| Cerulean: a hybrid assembly using high throughput short and long reads V Deshpande, EDK Fung, S Pham, V Bafna Algorithms in Bioinformatics: 13th International Workshop, WABI 2013, Sophia …, 2013 | 66* | 2013 |
| ViFi: accurate detection of viral integration and mRNA fusion reveals indiscriminate and unregulated transcription in proximal genomic regions in cervical cancer NPD Nguyen, V Deshpande, J Luebeck, PS Mischel, V Bafna Nucleic acids research 46 (7), 3309-3325, 2018 | 58 | 2018 |
| EcSeg: semantic segmentation of metaphase images containing extrachromosomal DNA U Rajkumar, K Turner, J Luebeck, V Deshpande, M Chandraker, ... Iscience 21, 428-435, 2019 | 40 | 2019 |
| REViewer: haplotype-resolved visualization of read alignments in and around tandem repeats E Dolzhenko, B Weisburd, K Ibañez, IS Rajan-Babu, C Anyansi, ... Genome medicine 14 (1), 84, 2022 | 25 | 2022 |
| 13. AmpliconSuite: Analyzing focal amplifications in cancer genomes J Luebeck, E Huang, B Dameracharla, F Kim, T Liefeld, R Ahuja, ... Cancer Genetics 286, S5, 2024 | | 2024 |
| AmpliconSuite: an end-to-end workflow for analyzing focal amplifications in cancer genomes J Luebeck, E Huang, F Kim, T Liefeld, B Dameracharla, R Ahuja, ... bioRxiv, 2024.05. 06.592768, 2024 | | 2024 |
| Methods of diagnosing and treating cancer targeting extrachromosomal dna P Mischel, P Mali, V Bafna, K Turner, V Deshpande, D Beyter US Patent App. 17/518,396, 2022 | | 2022 |
| Methods of diagnosing and treating cancer targeting extrachromosomal DNA P Mischel, P Mali, V Bafna, K Turner, V Deshpande, D Beyter US Patent 11,193,164, 2021 | | 2021 |
| Rapid Detection of Gene Fusions Viraj Deshpande, Johann Felix Wilhelm Schlesinger, Sean Truong, John Cooper ... WO Patent US20210193254A1, 2021 | | 2021 |
| Computational methods to study genomic structure and structural variation VB Deshpande UC San Diego, 2017 | | 2017 |
Paul MischelStanford UniversityVerified email at stanford.edu
