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G. Auwera, Mauricio Carneiro, C. Hartl, R. Poplin, G. Angel, Ami Levy-Moonshine, Tadeusz Jordan, Khalid Shakir, David Roazen, Joel Thibault, E. Banks, K. Garimella, D. Altshuler, S. Gabriel, M. DePristo (2013)
From FastQ Data to High‐Confidence Variant Calls: The Genome Analysis Toolkit Best Practices PipelineCurrent Protocols in Bioinformatics, 43
Xueqian Gong, Jian Du, S. Parsons, Farhana Merzoug, Y. Webster, P. Iversen, L. Chio, R. Horn, Xi Lin, Wayne Blosser, Bomie Han, S. Jin, S. Yao, H. Bian, C. Ficklin, L. Fan, A. Kapoor, S. Antonysamy, Ann Nulty, K. Froning, D. Manglicmot, A. Pustilnik, K. Weichert, S. Wasserman, M. Dowless, C. Marugán, Carmen Baquero, M. Lallena, S. Eastman, Y. Hui, M. Dieter, T. Doman, S. Chu, Hui-Rong Qian, X. Ye, D. Barda, G. Plowman, C. Reinhard, R. Campbell, J. Henry, S. Buchanan (2018)
Aurora A Kinase Inhibition Is Synthetic Lethal with Loss of the RB1 Tumor Suppressor Gene.Cancer discovery, 9 2
Naveed Ishaque, M. Abba, C. Hauser, N. Patil, N. Paramasivam, D. Huebschmann, J. Leupold, G. Balasubramanian, K. Kleinheinz, U. Toprak, B. Hutter, A. Benner, A. Shavinskaya, C. Zhou, Z. Gu, Jules Kerssemakers, A. Marx, M. Moniuszko, M. Kozłowski, J. Reszeć, J. Nikliński, J. Eils, M. Schlesner, R. Eils, B. Brors, H. Allgayer (2018)
Whole genome sequencing puts forward hypotheses on metastasis evolution and therapy in colorectal cancerNature Communications, 9
Chiao-En Wu, T. Koay, Yi-Hsuan Ho, P. Lovat, J. Lunec (2019)
TP53 mutant cell lines selected for resistance to MDM2 inhibitors retain growth inhibition by MAPK pathway inhibitors but a reduced apoptotic responseCancer Cell International, 19
M. Brenca, S. Rossi, Maurizio Polano, D. Gasparotto, L. Zanatta, D. Racanelli, L. Valori, S. Lamon, A. Tos, R. Maestro (2016)
Transcriptome sequencing identifies ETV6–NTRK3 as a gene fusion involved in GISTThe Journal of Pathology, 238
Bo-Ru Lai, Yu-Tung Wu, Yung-Chia Kuo, H. Hsu, Jen‐Shi Chen, Tse-Ching Chen, R. Wu, C. Chiu, C. Yeh, T. Yeh (2016)
Targeted ultra-deep sequencing unveils a lack of driver-gene mutations linking non-hereditary gastrointestinal stromal tumors and highly prevalent second primary malignancies: random or nonrandom, that is the questionOncotarget, 7
M. Dosil, R. Navaridas, Cristina Mirantes, J. Tarragona, N. Eritja, I. Felip, I. Urdanibia, Cristina Megino, Mónica Domingo, M. Santacana, S. Gatius, C. Piñol, C. Barceló, O. Maiques, A. Macià, A. Velasco, M. Vaquero, X. Matías-Guiu, X. Dolcet (2018)
Tumor suppressive function of E2F‐1 on PTEN‐induced serrated colorectal carcinogenesisThe Journal of Pathology, 247
J. Powers, B. Cochran, J. Baleja, H. Sikes, Xue Zhang, I. Lomakin, Troy Langford, K. Stein, A. Tischler (2018)
A unique model for SDH-deficient GIST: an endocrine-related cancer.Endocrine-related cancer, 25 11
Daniel Coleman, Lina Gao, Jacob Schwartzman, J. Korkola, David Sampson, Daniel Derrick, Joshua Urrutia, Ariel Balter, J. Burchard, Carly King, Kami Chiotti, Laura Heiser, J. Alumkal (2019)
Maintenance of MYC expression promotes de novo resistance to BET bromodomain inhibition in castration-resistant prostate cancerScientific Reports, 9
Natthakan Boongoen, Tossapon Garrett (2004)
BIOINFORMATICS ORIGINAL PAPER
Y. Furukawa, J. Kikuchi (2015)
Molecular pathogenesis of multiple myelomaInternational Journal of Clinical Oncology, 20
Li (2009)
Fast and accurate short read alignment with Burrows-Wheeler transformBioinformatics, 25
Jian Li, Yun-zhi Dang, Jing Gao, Yanyan Li, Jianling Zou, L. Shen (2015)
PI3K/AKT/mTOR pathway is activated after imatinib secondary resistance in gastrointestinal stromal tumors (GISTs)Medical Oncology, 32
R. Ricci, M. Martini, G. Ravegnini, T. Cenci, M. Milione, P. Lanza, F. Pierconti, D. Santini, S. Angelini, A. Biondi, F. Rosa, S. Alfieri, G. Clemente, R. Persiani, A. Cassano, M. Pantaleo, L. Larocca (2019)
Preferential MGMT methylation could predispose a subset of KIT/PDGFRA-WT GISTs, including SDH-deficient ones, to respond to alkylating agentsClinical Epigenetics, 11
S. McBrayer, B. Olenchock, G. Dinatale, D. Shi, J. Khanal, R. Jennings, Jesse Novak, Matthew Oser, A. Robbins, Rebecca Modiste, D. Bonal, J. Moslehi, R. Bronson, D. Neuberg, Q. Nguyen, S. Signoretti, J. Losman, W. Kaelin (2018)
Autochthonous tumors driven by Rb1 loss have an ongoing requirement for the RBP2 histone demethylaseProceedings of the National Academy of Sciences, 115
X. Wan, Aihua Wang, Jian Cao, Z. Dong, Ning Li, Sen Yang, Miao-miao Sun, Zhi Li, S. Luo (2019)
Relationships among KRAS mutation status, expression of RAS pathway signaling molecules, and clinicopathological features and prognosis of patients with colorectal cancerWorld Journal of Gastroenterology, 25
P. Gopie, Lin Mei, A. Faber, S. Grossman, Steven Smith, S. Boikos (2018)
Classification of gastrointestinal stromal tumor syndromes.Endocrine-related cancer, 25 2
S. Huss, S. Elges, M. Trautmann, J. Sperveslage, W. Hartmann, E. Wardelmann (2015)
Classification of KIT/PDGFRA wild-type gastrointestinal stromal tumors: implications for therapyExpert Review of Anticancer Therapy, 15
Shuang Han, Ying Chen, Yanlin Gao, Bei Sun, Yichun Kong (2019)
MicroRNA‐218–5p inhibit the migration and proliferation of pterygium epithelial cells by targeting EGFR via PI3K/Akt/mTOR signaling pathwayExperimental Eye Research, 178
F. Gleeson, S. Kerr, B. Kipp, Jesse Voss, Douglas Minot, Z. Tu, M. Henry, G. Vasmatzis, J. Cheville, K. Lazaridis, M. Levy (2016)
Molecular cytology genotyping of primary and metastatic GI stromal tumors by using a custom two-gene targeted next-generation sequencing panel with therapeutic intent.Gastrointestinal endoscopy, 84 6
Xing Chen, Gang Cai, Caini Liu, Junjie Zhao, Chunfang Gu, Ling Wu, T. Hamilton, Cun-Jin Zhang, J. Ko, Liang Zhu, J. Qin, A. Vidimos, S. Koyfman, B. Gastman, K. Jensen, Xiaoxia Li (2018)
IL-17R–EGFR axis links wound healing to tumorigenesis in Lrig1+ stem cellsThe Journal of Experimental Medicine, 216
James Robinson, H. Thorvaldsdóttir, W. Winckler, M. Guttman, E. Lander, G. Getz, J. Mesirov (2011)
Integrative Genomics ViewerNature biotechnology, 29
Leili Ran, Devan Murphy, Jessica Sher, Z. Cao, Shangqian Wang, Edward Walczak, Y. Guan, Yuanyuan Xie, S. Shukla, Yuhong Zhan, C. Antonescu, Yu Chen, P. Chi (2017)
ETV1-Positive Cells Give Rise to BRAFV600E -Mutant Gastrointestinal Stromal Tumors.Cancer research, 77 14
Prajish Iyer, S. Shrikhande, Malika Ranjan, Asim Joshi, Ratnam Prasad, N. Gardi, R. Thorat, S. Salunkhe, Bhasker Dharavath, Bikram Sahoo, P. Chandrani, Hitesh Kore, B. Mohanty, V. Chaudhari, A. Choughule, D. Kawle, P. Chaudhari, A. Ingle, S. Banavali, M. Ramadwar, K. Prabhash, S. Barreto, S. Dutt, A. Dutt (2018)
ERBB2 and KRAS alterations mediate response to EGFR inhibitors in early stage gallbladder cancerInternational Journal of Cancer, 144
Anthony Bolger, M. Lohse, B. Usadel (2014)
Trimmomatic: a flexible trimmer for Illumina sequence dataBioinformatics, 30
Kaushalya Amarasinghe, Jason Li, S. Hunter, G. Ryland, P. Cowin, I. Campbell, S. Halgamuge (2014)
Inferring copy number and genotype in tumour exome dataBMC Genomics, 15
Clément Bonamy, E. Séchet, A. Amiot, A. Alam, M. Mourez, L. Fraisse, P. Sansonetti, B. Sperandio (2018)
Expression of the human antimicrobial peptide β-defensin-1 is repressed by the EGFR-ERK-MYC axis in colonic epithelial cellsScientific Reports, 8
Hao Xu, Liang Chen, Yang Shao, Dongqin Zhu, X. Zhi, Qiang Zhang, Fengyuan Li, Jianghao Xu, Xisheng Liu, Zekuan Xu (2017)
Clinical Application of Circulating Tumor DNA in the Genetic Analysis of Patients with Advanced GISTMolecular Cancer Therapeutics, 17
R. Rebello, C. Oing, S. Gillessen, R. Bristow (2019)
TP53 and Prognosis in mCRPC Survival: Biology or Coincidence?Clinical Cancer Research, 25
M. Nannini, M. Urbini, A. Astolfi, G. Biasco, M. Pantaleo (2017)
The progressive fragmentation of the KIT/PDGFRA wild-type (WT) gastrointestinal stromal tumors (GIST)Journal of Translational Medicine, 15
J. Sánchez-Hidalgo, M. Durán-Martínez, Rafael Molero-Payan, S. Rufián-Peña, Á. Arjona-Sánchez, Á. Casado-Adam, A. Cosano-Álvarez, J. Briceño-Delgado (2018)
Gastrointestinal stromal tumors: A multidisciplinary challengeWorld Journal of Gastroenterology, 24
Hardeep Singh, Sijia Wang, Kevin Stachelek, Sunhye Lee, Mark Reid, M. Thornton, C. Craft, B. Grubbs, D. Cobrinik (2018)
Developmental stage-specific proliferation and retinoblastoma genesis in RB-deficient human but not mouse cone precursorsProceedings of the National Academy of Sciences, 115
D. Koboldt, Qunyuan Zhang, D. Larson, D. Shen, M. McLellan, Ling Lin, Christopher Miller, E. Mardis, L. Ding, R. Wilson (2012)
VarScan 2: somatic mutation and copy number alteration discovery in cancer by exome sequencing.Genome research, 22 3
Ren-jie Wei, Wen-Ren Wu, Cheng-Tang Pan, Chun-Yen Yu, Chien-Feng Li, Lih-Ren Chen, Shih-Shin Liang, Y. Shiue (2018)
Inhibition of the formation of autophagosome but not autolysosome augments ABT‐751‐induced apoptosis in TP53‐deficient Hep‐3B cellsJournal of Cellular Physiology, 234
E. Serrano-Candelas, E. Ainsua-Enrich, A. Navinés-Ferrer, Paulo Rodrigues, Alfonso García-Valverde, Sarah Bazzocco, I. Macaya, J. Arribas, C. Serrano, J. Sayós, D. Arango, Margarita Martín (2018)
Silencing of adaptor protein SH3BP2 reduces KIT/PDGFRA receptors expression and impairs gastrointestinal stromal tumors growthMolecular Oncology, 12
Lin Mei, Steven Smith, A. Faber, J. Trent, S. Grossman, C. Stratakis, S. Boikos (2018)
Gastrointestinal Stromal Tumors: The GIST of Precision Medicine.Trends in cancer, 4 1
Olli-Pekka Pulkka, Y. Gebreyohannes, A. Wozniak, J. Mpindi, O. Tynninen, Katherine Icay, A. Cervera, S. Keskitalo, A. Murumägi, Evgeny Kulesskiy, M. Laaksonen, K. Wennerberg, M. Varjosalo, Pirjo Laakkonen, R. Lehtonen, S. Hautaniemi, O. Kallioniemi, P. Schöffski, H. Sihto, H. Joensuu (2018)
Anagrelide for Gastrointestinal Stromal TumorClinical Cancer Research, 25
Chien-Feng Li, Ting-Ting Liu, Jui‐Chu Wang, Shih‐Chen Yu, Yen-Yang Chen, F. Fang, Wan-Shan Li, Hsuan-Ying Huang (2018)
Hydroxysteroid 11-Beta Dehydrogenase 1 Overexpression with Copy-Number Gain and Missense Mutations in Primary Gastrointestinal Stromal TumorsJournal of Clinical Medicine, 7
A. McKenna, M. Hanna, E. Banks, A. Sivachenko, K. Cibulskis, A. Kernytsky, K. Garimella, D. Altshuler, S. Gabriel, M. Daly, M. DePristo (2010)
The Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data.Genome research, 20 9
Xinhui Fu, Y. Huang, Xinjuan Fan, Y. Deng, Huanliang Liu, Hongzhi Zou, Peihuang Wu, Zhiting Chen, Jinglin Huang, Jingxuan Wang, Hanjie Lin, Shuhui Huang, Xiaoli Tan, P. Lan, Lei Wang, Jian-ping Wang (2019)
Demographic trends and KRAS/BRAFV600E mutations in colorectal cancer patients of South China: A single‐site reportInternational Journal of Cancer, 144
Parisa Malekzadeh, A. Pasetto, P. Robbins, M. Parkhurst, B. Paria, Li Jia, J. Gartner, V. Hill, Zhiya Yu, N. Restifo, Abraham Sachs, E. Tran, Winifred Lo, R. Somerville, S. Rosenberg, D. Deniger (2019)
Neoantigen screening identifies broad TP53 mutant immunogenicity in patients with epithelial cancersJournal of Clinical Investigation, 129
N. Wong, J. Wingate, E. Gradhand (2015)
An immunohistochemical study of potential diagnostic and therapeutic biomarkers of wild‐type gastrointestinal stromal tumoursHistopathology, 67
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Applied Immunohistochemistry & Molecular Morphology – Wolters Kluwer Health
Published: Jan 29, 2021
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