Viraj B Deshpande
Cited by
Cited by
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
Cerulean: A hybrid assembly using high throughput short and long reads
V Deshpande, EDK Fung, S Pham, V Bafna
International workshop on algorithms in bioinformatics, 349-363, 2013
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
Exploring the landscape of focal amplifications in cancer using AmpliconArchitect
V Deshpande, J Luebeck, NPD Nguyen, M Bakhtiari, KM Turner, ...
Nature communications 10 (1), 1-14, 2019
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
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
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), 1-14, 2020
EcSeg: semantic segmentation of metaphase images containing extrachromosomal DNA
U Rajkumar, K Turner, J Luebeck, V Deshpande, M Chandraker, ...
Iscience 21, 428-435, 2019
Whole genome sequencing for diagnosis of neurological repeat expansion disorders
K Ibanez, J Polke, T Hagelstrom, E Dolzhenko, D Pasko, E Thomas, ...
bioRxiv, 2020
Methods of diagnosing and treating cancer targeting extrachromosomal dna
P Mischel, P Mali, V Bafna, K Turner, V Deshpande, D Beyter
US Patent App. 15/989,100, 2018
Computational methods to study genomic structure and structural variation
VB Deshpande
UC San Diego, 2017
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