Cancer | Raunak Shrestha

Pathway and network analysis of more than 2,500 whole cancer genomes

MA Reyna, D Haan, M Paczkowska, LPC Verbeke, M Vazquez, A Kahraman, S Pulido-Tamayo, J Barenboim, L Wadi, P Dhingra, Raunak Shrestha, G Getz, MS Lawrence, JS Pedersen, MA Rubin, DA Wheeler, S Brunak, JMG Izarzugaza, E Khurana, K Marchal, C von Mering, SC Sahinalp, A Valencia, J Reimand, JM Stuart, BJ Raphael, PCAWG Consortium

BAP1 Haploinsufficiency Predicts a Distinct Immunogenic Class of Malignant Peritoneal Mesothelioma

Malignant peritoneal mesothelioma (PeM) is a rare and fatal cancer originating from the abdominal lining. Our study revealed that BAP1 could serve as a prognostic and predictive biomarker for immunotherapy in PeM.

Raunak Shrestha, N Nabavi, Y Lin, F Mo, S Anderson, S Volik, H H Adomat, D Lin, H Xue, X Dong, R Shukin, RH Bell, B McConeghy, A Haegert, S Brahmbhatt, E Li, HZ Oo, A Hurtado-Coll, L Fazli, J Zhou, Y McConnell, A McCart, A Lowy, GB Morin, T Chen, M Daugaard, SC Sahinalp, F Hach, S Le Bihan, ME Gleave, Y Wang, A Churg, CC Collins

BAP1 Haploinsufficiency Predicts a Distinct Immunogenic Class of Malignant Peritoneal Mesothelioma

Combinatorial Detection of Conserved Alteration Patterns for Identifying Cancer Subnetworks

We introduce a novel combinatorial method, cd-CAP, for simultaneous detection of connected subnetworks of an interaction network where genes exhibit conserved alteration patterns across tumor samples.

E Hodzic, Raunak Shrestha, K Zhu, K Cheng, CC Collins, SC Sahinalp

Combinatorial Detection of Conserved Alteration Patterns for Identifying Cancer Subnetworks

HIT'nDRIVE: Patient-Specific Multi-Driver Gene Prioritization for Precision Oncology

Here goes my paper that got published in @genomeresearch today :D https://t.co/yY8Ipch2Eg #Bioinformatics #Genomics #PrecisionOncology pic.twitter.com/ZxDCjzrQn6 — Raunak Shrestha (@raunakms) July 18, 2017 Our paper highlighted in @CellSystemsCP "Identifying Rare Cancer Drivers" https://t.

Raunak Shrestha, E Hodzic, T Sauerwald, P Dao, K Wang, J Yeung, S Anderson, F Vandin, G Haffari, CC Collins, SC Sahinalp

HIT'nDRIVE: Patient-Specific Multi-Driver Gene Prioritization for Precision Oncology

BIRC6-targeting as potential therapy for advanced, enzalutamide-resistant prostate cancer

ISU Luk, Raunak Shrestha, H Xue, F Zhang, D Lin, A Haegert, R Wu, X Dong, CC Collins, A Zoubeidi, ME Gleave, PW Gout, Y Wang

Heterogeneity in the inter-tumor transcriptome of high risk prostate cancer

AW Wyatt, F Mo, K Wang, B McConeghy, S Brahmbhatt, L Jong, DM Mitchell, RL Johnston, A Haegert, E Li, J Liew, J Yeung, Raunak Shrestha, A Lapuk, A McPherson, R Shukin, RH Bell, S Anderson, J Bishop, A Hurtado-Coll, H Xiao, AM Chinnaiyan, R Mehra, D Lin, Y Wang, L Fazli, ME Gleave, S Volik, CC Collins

A Meta-Analysis Approach for Characterizing Pan-Cancer Mechanisms of Drug Sensitivity in Cell Lines

K Wang, Raunak Shrestha, AW Wyatt, A Reddy, J Lehar, Y Wang, A Lapuk, CC Collins