Hepatology: Astrocyte elevated gene‐1 and c‐Myc cooperate to promote hepatocarcinogenesis in mice

July 28, 2014

Jyoti Srivastava Ayesha Siddiq Rachel Gredler Xue‐Ning Shen Devaraja Rajasekaran  Chadia L. Robertson  Mark A. Subler  Jolene J. Windle  Catherine I. Dumur  Nitai D. Mukhopadhyay  Dawn Garcia  Zhao Lai  Yidong Chen  Uthra Balaji  Paul B. Fisher  Devanand Sarkar Abstract Astrocyte elevated gene‐1 (AEG‐1) and c‐Myc are overexpressed in human hepatocellular carcinoma (HCC) functioning as oncogenes. AEG‐1 is transcriptionally regulated by c‐Myc, and AEG‐1 itself induces c‐Myc by activating the […]

PNAS: Targeting RPL39 and MLF2 reduces tumor initiation and metastasis in breast cancer by inhibiting nitric oxide synthase signaling

June 17, 2014

Bhuvanesh Dave, Sergio Granados-Principal, Rui Zhu, Stephen Benz, Shahrooz Rabizadeh, Patrick Soon-Shiong, Ke-Da Yu, Zhimin Shao, Xiaoxian Li, Michael Gilcrease, Zhao Lai, Yidong Chen, Tim H.-M. Huang, Haifa Shen, Xuewu Liu, Mauro Ferrari, Ming Zhan, Stephen T. C. Wong, Muthiah Kumaraswami, Vivek Mittal, Xi Chen, Steven S. Gross, and Jenny C. Chang Abstract We previously described a gene signature for breast cancer stem cells (BCSCs) derived from patient biopsies. Selective shRNA knockdown identified ribosomal protein L39 (RPL39) […]

Molecular Ecology Resources: Genomics of Compositae crops: reference transcriptome assemblies and evidence of hybridization with wild relatives

January 1, 2014

Kathryn A Hodgins 1, Zhao Lai, Luiz O Oliveira, David W Still, Moira Scascitelli, Michael S Barker, Nolan C Kane, Hannes Dempewolf, Alex Kozik, Richard V Kesseli, John M Burke, Richard W Michelmore, Loren H Rieseberg Abstract Although the Compositae harbors only two major food crops, sunflower, and lettuce, many other species in this family are utilized by humans and have experienced various levels of domestication. Here, we […]

BMC Systems Biology: BRCA-Monet: a breast cancer specific drug treatment mode-of-action network for treatment effective prediction using large scale microarray database

December 9, 2013

Chifeng Ma, Hung-I Harry Chen, Mario Flores, Yufei Huang & Yidong Chen Abstract Background Connectivity map (cMap) is a recently developed dataset and algorithm for uncovering and understanding the treatment effect of small molecules on different cancer cell lines. It is widely used but there are still remaining challenges for accurate predictions. Method Here, we propose BRCA-MoNet, a network of […]

Echocardiography: Cardiac Assessment in Pediatric Mice: Strain Analysis as a Diagnostic Measurement

June 7, 2013

Thomas G. Andrews, M.Sc.,* Merry L. Lindsey, PhD,† Richard A. Lange, MD, M.B.A,‡ and Gregory J. Aune, MD, PhD§ Echocardiography is a robust tool for assessing cardiac function in both humans and laboratory animals. Conventional echocardiographic measurements, including chamber dimensions, wall thickness, and ejection fraction are routinely obtained to assess cardiac function in mice. Recently, […]

Translational Cancer Research: Utilizing signature-score to identify oncogenic pathways of cholangiocarcinoma

February 1, 2013

Tzu-Hung Hsiao, Hung-I Harry Chen, Jo-Yang Lu, Pei-Ying Lin, Charles Keller, Sarah Comerford, Gail E. Tomlinson, Yidong Chen Abstract Extracting maximal information from gene signature sets (GSSs) via microarray-based transcriptional profiling involves assigning function to up and down-regulated genes. Here we present a novel sample scoring method called Signature-score (S-score) which can be used to […]

Journal of Clinical Investigation: ZEB1 drives prometastatic actin cytoskeletal remodeling by downregulating miR-34a expression

August 1, 2012

Young-Ho Ahn,1 Don L. Gibbons,1,2 Deepavali Chakravarti,3 Chad J. Creighton,4 Zain H. Rizvi,1 Henry P. Adams,5 Alexander Pertsemlidis,6 Philip A. Gregory,7,8 Josephine A. Wright,7,8 Gregory J. Goodall,7,8,9 Elsa R. Flores,3 and Jonathan M. Kurie1 Abstract Metastatic cancer is extremely difficult to treat, and the presence of metastases greatly reduces a cancer patient’s likelihood of long-term survival. The ZEB1 transcriptional repressor promotes metastasis through downregulation of microRNAs (miRs) […]