Boulay, Gaylor Broye, Liliane Dong, Rui Iyer, Sowmya Sanalkumar, Rajendran Xing, Yu-Hang Buisson, Rémi Rengarajan, Shruthi Naigles, Beverly Duc, Benoît
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EWS fusion oncoproteins underlie several human malignancies including Desmoplastic Small Round Cell Tumor (DSRCT), an aggressive cancer driven by EWS-WT1 fusion proteins. Here we combine chromatin occupancy and 3D profiles to identify EWS-WT1-dependent gene regulation networks and target genes. We show that EWS-WT1 is a powerful chromatin activator...
Zhao, Shuang Bootsma, Matthew Zhou, Stanley Shrestha, Raunak Moreno-Rodriguez, Thaidy Lundberg, Arian Pan, Chu Arlidge, Christopher Hawley, James Foye, Adam
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The impact of variations in the three-dimensional structure of the genome has been recognized, but solid cancer tissue studies are limited. Here, we performed integrated deep Hi-C sequencing with matched whole-genome sequencing, whole-genome bisulfite sequencing, 5-hydroxymethylcytosine (5hmC) sequencing and RNA sequencing across a cohort of 80 bio...
Willis, Connor Au, Trang Hejazi, Andre Griswold, Cassia Schabath, Matthew Thompson, Jonathan Malhotra, Jyoti Federman, Noah Ko, Gilbert Appukkuttan, Sreevalsa
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BACKGROUND: Neurotrophic tyrosine receptor kinase (NTRK) gene fusions are rare oncogenic drivers prevalent in 0.3% of solid tumors. They are most common in salivary gland cancer (2.6%), thyroid cancer (1.6%), and soft-tissue sarcoma (1.5%). Currently, there are 2 US Food and Drug Administration-approved targeted therapies for NTRK gene fusions: lar...
Goto, Yusuke Koshizuka, Keiichi Ando, Toshinori Izumi, Hiroki Wu, Xingyu Sato, Kuniaki Ishikawa, Tomohiko Ford, Kyle Feng, Xiaodong Wang, Zhiyong
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UNLABELLED: The comprehensive genomic analysis of the head and neck squamous cell carcinoma (HNSCC) oncogenome revealed the frequent loss of p16INK4A (CDKN2A) and amplification of cyclin D1 genes in most human papillomavirus-negative HNSCC lesions. However, cyclin-dependent kinase 4 and 6 (CDK4/6) inhibitors have shown modest effects in the clinic....
Lee, Joanna Asgharzadeh, Shahab Khan, Ranjha Zhang, Meng Weisbrod, Julia Choi, Youn-Jeong Puri, Latika Aguilar, Ana Zhao, Piming Saba, Julie
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Neuroblastoma is the most common extracranial malignant tumor of childhood, accounting for 15% of all pediatric cancer deaths. Despite significant advances in our understanding of neuroblastoma biology, five-year survival rates for high-risk disease remain less than 50%, highlighting the importance of identifying novel therapeutic targets to combat...
Ruzanov, Peter Evdokimova, Valentina Pachva, Manideep Minkovich, Alon Zhang, Zhenbo Langman, Sofya Gassmann, Hendrik Thiel, Uwe Orlic-Milacic, Marija Zaidi, Syed
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Aberrant expression of the E26 transformation-specific (ETS) transcription factors characterizes numerous human malignancies. Many of these proteins, including EWS:FLI1 and EWS:ERG fusions in Ewing sarcoma (EwS) and TMPRSS2:ERG in prostate cancer (PCa), drive oncogenic programs via binding to GGAA repeats. We report here that both EWS:FLI1 and ERG ...
Zhitkevich, Alla Bayurova, Ekaterina Avdoshina, Darya Zakirova, Natalia Frolova, Galina Jansons, Juris Chowdhury, Sona Ivanov, Alexander Gordeychuk, Ilya Palefsky, Joel
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The high incidence of epithelial malignancies in HIV-1 infected individuals is associated with co-infection with oncogenic viruses, such as high-risk human papillomaviruses (HR HPVs), mostly HPV16. The molecular mechanisms underlying the HIV-1-associated increase in epithelial malignancies are not fully understood. A collaboration between HIV-1 and...
Lin, Tasha L Jaiswal, Amit K Ritter, Alexander J Reppas, Jenna Tran, Tiffany M Neeb, Zachary T Katzman, Sol Thaxton, Michelle L Cohen, Amanda Sanford, Jeremy R
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AbstractRNA-binding proteins (RBPs) are emerging as a novel class of therapeutic targets in cancer, including in leukemia, given their important role in posttranscriptional gene regulation, and have the unexplored potential to be combined with existing therapies. The RBP insulin-like growth factor 2 messenger RNA-binding protein 3 (IGF2BP3) has bee...
Yang, Wei Meyer, April Jiang, Zian Jiang, Xuan Donoghue, Daniel
Neurotrophic receptor tyrosine kinases (NTRKs) belong to the receptor tyrosine kinase (RTK) family. NTRKs are responsible for the activation of multiple downstream signaling pathways that regulate cell growth, proliferation, differentiation, and apoptosis. NTRK-associated mutations often result in oncogenesis and lead to aberrant activation of down...
Yan, Ming Liu, Mengdan Davis, Amanda G Stoner, Samuel A Zhang, Dong-Er
T(8;21)(q22;q22), which generates the AML1-ETO fusion oncoprotein, is a common chromosomal abnormality in acute myeloid leukemia (AML) patients. Despite having favorable prognosis, 40% of patients will relapse, highlighting the need for innovative models and application of the newest technologies to study t(8;21) leukemogenesis. Currently, availabl...