Genome Biology: Functional genomics analyses of RNA-binding proteins reveal the splicing regulator SNRPB as an oncogenic candidate in glioblastoma

December 1, 2016

Bruna R Correa, Patricia Rosa de Araujo, Mei Qiao, Suzanne C Burns, Chen Chen, Richard Schlegel, Seema Agarwal, Pedro AF Galante, Luiz OF Penalva Background Glioblastoma (GBM) is the most common and aggressive type of brain tumor. Currently, GBM has an extremely poor outcome and there is no effective treatment. In this context, genomic and […]

Molecular Cancer Therapeutics: Alkylating Agent–Induced NRF2 Blocks Endoplasmic Reticulum Stress–Mediated Apoptosis via Control of Glutathione Pools and Protein Thiol Homeostasis

December 1, 2016

Alfeu Zanotto-Filho, V. Pragathi Masamsetti, Eva Loranc, Sonal S. Tonapi, Aparna Gorthi, Xavier Bernard, Rosângela Mayer Gonçalves, José C.F. Moreira, Yidong Chen and Alexander J.R. Bishop Abstract Alkylating agents are a commonly used cytotoxic class of anticancer drugs. Understanding the mechanisms whereby cells respond to these drugs is key to identify means to improve therapy while reducing toxicity. By integrating genome-wide gene expression profiling, protein analysis, and functional cell validation, we herein demonstrated a direct […]

Aging: Aging is associated with an expansion of CD49fhi mammary stem cells that show a decline in function and increased transformation potential

November 15, 2016

Qiaoxiang Dong1,2 , Hui Gao1,2 , Yuanshuo Shi1,3 , Fuchuang Zhang1,3 , Xiang Gu1 , Anqi Wu3 , Danhan Wang3 , Yuanhong Chen3 , Abhik Bandyopadhyay1 , I-Tien Yeh4 , Benjamin J. Daniel5 , Yidong Chen6,8 , Yi Zou8 , Vivienne L. Rebel1,7,8 , Christi A. Walter1 , Jianxin Lu2 , Changjiang Huang3 , Lu-Zhe Sun1,7 Abstract Breast cancer incidence increases during aging, yet the mechanism of age-associated mammary tumorigenesis is unclear. Mammary stem cells are believed to play an important role in breast tumorigenesis, but how their function changes with age are unknown. We compared mammary epithelial cells isolated from young and old mammary glands of […]

Scientific Reports: Differential network analysis reveals the genome-wide landscape of estrogen receptor modulation in hormonal cancers

November 12, 2016

Tzu-Hung Hsiao, Yu-Chiao Chiu, Pei-Yin Hsu, Tzu-Pin Lu, Liang-Chuan Lai, Mong-Hsun Tsai, Tim H.-M. Huang, Eric Y. Chuang Yidong Chen Abstract Several mutual information (MI)-based algorithms have been developed to identify dynamic gene-gene and function-function interactions governed by key modulators (genes, proteins, etc.). Due to intensive computation, however, these methods rely heavily on prior knowledge […]

JoVE: Methyl-binding DNA capture Sequencing for Patient Tissues

October 31, 2016

Rohit R Jadhav 1, Yao V Wang 1, Ya-Ting Hsu 1, Joseph Liu 1, Dawn Garcia 2, Zhao Lai 2, Tim H M Huang 1, Victor X Jin 3 Abstract Methylation is one of the essential epigenetic modifications to the DNA, which is responsible for the precise regulation of genes required for stable development and differentiation of different tissue types. Dysregulation of this process is often the hallmark of various […]

Hepatology: Genomic analysis of hepatoblastoma identifies distinct molecular and prognostic subgroups

October 24, 2016

Pavel Sumazin, Yidong Chen, Lisa R. Treviño Stephen F. Sarabia Oliver A. Hampton Kayuri Patel Toni‐Ann Mistretta Barry Zorman Patrick Thompson Andras Heczey Sarah Comerford David A. Wheeler Murali Chintagumpala Rebecka Meyers Dinesh Rakheja Milton J. Finegold Gail Tomlinson D. Williams Parsons Dolores López‐Terrada Abstract Despite being the most common liver cancer in children, hepatoblastoma (HB) is a rare neoplasm. Consequently, few pretreatment tumors have been molecularly profiled, and there are no validated […]

Oncotarget: A combined gene expression and functional study reveals the crosstalk between N-Myc and differentiation-inducing microRNAs in neuroblastoma cells

October 15, 2016

Zhenze Zhao1, Xiuye Ma2, Spencer D. Shelton1, Derek C. Sung3, Monica Li4, Daniel Hernandez5, Maggie Zhang6, Michael D. Losiewicz7, Yidong Chen8, Alexander Pertsemlidis2,9,10, Xiaojie Yu11, Yuanhang Liu11, Liqin Du1 ABSTRACT MYCN amplification is the most common genetic alteration in neuroblastoma and plays a critical role in neuroblastoma tumorigenesis. MYCN regulates neuroblastoma cell differentiation, which is […]

Cancer Research: Evaluation of Alternative In Vivo Drug Screening Methodology: A Single Mouse Analysis

October 1, 2016

Brendan Murphy 1, Han Yin 1, John M Maris 2, E Anders Kolb 3, Richard Gorlick 4, C Patrick Reynolds 5, Min H Kang 6, Stephen T Keir 7, Raushan T Kurmasheva 8, Igor Dvorchik 9, Jianrong Wu 10, Catherine A Billups 10, Nana Boateng 10, Malcolm A Smith 11, Richard B Lock 12, Peter J Houghton 13 Abstract Traditional approaches to evaluating antitumor agents using human tumor xenograft models have generally used cohorts of 8 to 10 mice against a limited panel of tumor models. […]

Pediatric Blood & Cancer: Initial testing (stage 1) of the curaxin CBL0137 by the pediatric preclinical testing program

September 21, 2016

Richard Lock 1, Hernan Carol 1, John M Maris 2, E Anders Kolb 3, Richard Gorlick 4, C Patrick Reynolds 5, Min H Kang 5, Stephen T Keir 6, Jianrong Wu 7, Andrei Purmal 8, Andrei Gudkov 9, Dias Kurmashev 10, Raushan T Kurmasheva 10, Peter J Houghton 10, Malcolm A Smith 11 Abstract Background: CBL0137 is a novel drug that modulates Facilitates Chromatin Transcription (FACT), resulting in simultaneous nuclear factor-κB suppression, heat shock factor 1 suppression, and p53 activation. CBL0137 has demonstrated antitumor effects […]