Greehey CCRI News & Events Archive

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Cancer Cell: Amplification of Distant Estrogen Response Elements Deregulates Target Genes Associated with Tamoxifen Resistance in Breast Cancer

August 12, 2013

Pei-YinHsu1  Hang-KaiHsu1  XunLan6  LiranJuan9  Pearlly S.Yan7  JadwigaLabanowska8  NylaHeerema8  Tzu-HungHsiao4  Yu-ChiaoChiu5  YidongChen34  YunlongLiu9  LangLi9RongLi1I  an M.Thompson2  Kenneth P.Nephew10  Zelton D.Sharp  1 Nameer B.Kirma1  Victor X …


Experimental Hematology: Myelodysplastic syndrome: An inability to appropriately respond to damaged DNA?

August 1, 2013

Author links open overlay panelTingZhouab PaulHastycde Christi A.Walterbdef Alexander J.R.Bishopabde Linda M.Scottg Vivienne I.Rebelabde Myelodysplastic syndrome (MDS) is considered a hematopoietic stem cell disease that is characterized by abnormal he …


Bioinformatics: Exome-based analysis for RNA epigenome sequencing data

June 15, 2013

Jia Meng, Xiaodong Cui, Manjeet K. Rao, Yidong Chen, Yufei Huang Abstract Motivation: Fragmented RNA immunoprecipitation combined with RNA sequencing enabled the unbiased study of RNA epigenome at a near single-base resolution; however, unique features …


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

June 7, 2013

Thomas G. Andrews, M.Sc.,* Merry L. Lindsey, Ph.D.,† Richard A. Lange, M.D., M.B.A,‡ and Gregory J. Aune, M.D., Ph.D.§ Echocardiography is a robust tool for assessing cardiac function in both humans and laboratory animals. Conventional echocardiographi …


IEEE: Estimating Conditional Probabilities for the Detection of Unfavorable Copy Number Alterations in a Targeted Therapy

June 5, 2013

Fang-Han Hsu; Edward R. Dougherty; Yidong Chen; Erchin Serpedin Abstract: Emerging targeted therapies have shown benefits such as less toxicity and higher effectiveness in specific types of cancer treatment; however, the accessibility of these advantag …


Diabetes Journal: Enhanced NF-κB Activity Impairs Vascular Function Through PARP-1–, SP-1–, and COX-2–Dependent Mechanisms in Type 2 Diabetes

June 1, 2013

Modar Kassan1,2, Soo-Kyoung Choi1,  Maria Galán1,2, Alexander Bishop3, Kazuo Umezawa4, Mohamed Trebak5, Souad Belmadani2⇑ , and Khalid Matrougui1,2⇑ Abstract Type 2 diabetes (T2D) is associated with vascular dysfunction. We hypothesized that increased …


PLOS One: CMS: A Web-Based System for Visualization and Analysis of Genome-Wide Methylation Data of Human Cancers

April 22, 2013

Fei Gu ,Mark S. Doderer ,Yi-Wen Huang,Juan C. Roa,Paul J. Goodfellow,E. Lynette Kizer,Tim H. M. Huang ,Yidong Chen  Abstract Background DNA methylation of promoter CpG islands is associated with gene suppression, and its unique genome-wide profiles hav …


The New Phytologist: Transcriptome divergence between introduced and native populations of Canada thistle, Cirsium arvense

April 13, 2013

Alessia Guggisberg 1, Zhao Lai, Jie Huang, Loren H Rieseberg Abstract Introduced plants may quickly evolve new adaptive traits upon their introduction. Canada thistle (Cirsium arvense – Cardueae, Asteraceae) is one of the worst invasive weeds worldwide …


Proteomics Clinical Applications: Using proteomics to uncover extracellular matrix interactions during cardiac remodeling

March 23, 2013

Nicolle L. Patterson, Rugmani Padmanabhan Iyer,  Lisandra E. de Castro Brás, Yaojun Li, Thomas G. Andrews, Gregory J. Aune, Richard A. Lange, Merry L. Lindsey Abstract The left ventricle (LV) responds to myocardial infarction with an orchestrated seque …


Advances in Bioinformatics: Computational and Statistical Approaches for Modeling of Proteomic and Genomic Networks

March 13, 2013

Mario Flores,1 Tzu-Hung Hsiao,2 Yu-Chiao Chiu,3 Eric Y. Chuang,3 Yufei Huang,1 and Yidong Chen2,4 Abstract Common microarray and next-generation sequencing data analysis concentrate on tumor subtype classification, marker detection, and transcriptional …