Proteome Science: Fully automated protein complex prediction based on topological similarity and community structure

November 7, 2013

Chengwei Lei, Saleh Tamim,  Alexander JR Bishop & Jianhua Ruan  Abstract To understand the function of protein complexes and their association with biological processes, a lot of studies have been done towards analyzing the protein-protein interaction (PPI) networks. However, the advancement in high-throughput technology has resulted in a humongous amount of data for analysis. Moreover, a […]

DNA Repair: Induction of homologous recombination following in utero exposure to DNA-damaging agents

November 1, 2013

Bijal Kariaab, Jo Ann Martinez, Alexander J.R.Bishop  Abstract Much of our understanding of homologous recombination, as well as the development of the working models for these processes, has been derived from extensive work in model organisms, such as yeast and fruit flies, and mammalian systems by studying the repair of induced double-strand breaks or repair […]

EURASIP Journal on Bioinformatics and Systems Biology: Identification of genomic functional hotspots with copy number alteration in liver cancer

October 25, 2013

Tzu-Hung Hsiao, Hung-I Harry Chen, Stephanie Roessler, Xin Wei Wang & Yidong Chen Abstract Copy number alterations (CNAs) can be observed in most cancer patients. Several oncogenes and tumor suppressor genes with CNAs have been identified in different kinds of tumors. However, the systematic survey of CNA-affected functions is still lack. By employing systems biology approaches, instead of examining individual […]

Cancer Epidemiology Biomarkers & Preventinon: Parental tobacco and alcohol use and risk of hepatoblastoma in offspring: a report from the children’s oncology group

October 15, 2013

Kimberly J Johnson 1, Katherine S Williams, Julie A Ross, Mark D Krailo, Gail E Tomlinson, Marcio H Malogolowkin, James H Feusner, Logan G Spector Abstract Background: Hepatoblastoma is a rare pediatric liver tumor that has significantly increased in incidence over the last several decades. The International Agency for Research on Cancer (IARC) recently classified hepatoblastoma as tobacco-related cancer. Parental alcohol use has shown […]

Taylor Francis: A high-throughput screen identifies miRNA inhibitors regulating lung cancer cell survival and response to paclitaxel

September 30, 2013

Liqin Du, Robert Borkowski, Zhenze Zhao, Xiuye Ma, Xiaojie Yu, Xian-Jin Xie &Alexander Pertsemlidis microRNAs (miRNAs) are small RNAs endogenously expressed in multiple organisms that regulate gene expression largely by decreasing levels of target messenger RNAs (mRNAs). Over the past few years, numerous studies have demonstrated critical roles for miRNAs in the pathogenesis of many cancers, […]

Frontiers in Psychiatry: The CHRNA3 rs578776 Variant is Associated with an Intrinsic Reward Sensitivity Deficit in Smokers

September 23, 2013

Jason D Robinson 1, Francesco Versace, Cho Y Lam, Jennifer A Minnix, Jeffrey M Engelmann, Yong Cui, Maher Karam-Hage, Sanjay S Shete, Gail E Tomlinson, Tina T-L Chen, David W Wetter, Charles E Green, Paul M Cinciripini Abstract A compromised brain reward system has been postulated as a key feature of drug dependence. We examined whether several polymorphisms of genes found to regulate nicotinic acetylcholine receptor (nAChR) and […]

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

September 19, 2013

Thomas G. Andrews M.Sc.,  Merry L. Lindsey PhD, Richard A. Lange MD, M.B.A, Gregory J. Aune MD, PhD Abstract 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, […]

Oncogene:miR-93-directed downregulation of DAB2 defines a novel oncogenic pathway in lung cancer

September 16, 2013

L Du, Z Zhao, X Ma, T-H Hsiao, Y Chen, E Young, M Suraokar, I Wistuba, J D Minna & A Pertsemlidis Abstract The disabled homolog 2 (DAB2) gene was recently identified as a tumor suppressor gene with its expression downregulated in multiple cancer types. The role of DAB2 in lung tumorigenesis, however, is not fully […]

Modern Pathology: Towards an international pediatric liver tumor consensus classification: proceedings of the Los Angeles COG liver tumors symposium

September 6, 2013

Dolores López-Terrada 1, Rita Alaggio 2, Maria T de Dávila 3, Piotr Czauderna 4, Eiso Hiyama 5, Howard Katzenstein 6, Ivo Leuschner 7, Marcio Malogolowkin 8, Rebecka Meyers 9, Sarangarajan Ranganathan 10, Yukichi Tanaka 11, Gail Tomlinson 12, Monique Fabrè 13, Arthur Zimmermann 14, Milton J Finegold 1, Children’s Oncology Group Liver Tumor Committee Abstract Liver tumors are rare in children, and their diagnoses may be challenging particularly because of the lack of a current consensus classification system. Systematic central histopathological review of these tumors […]

Oncogene: Significance of PELP1/HDAC2/miR-200 regulatory network in EMT and metastasis of breast cancer

August 26, 2013

S S Roy 1, V K Gonugunta 1, A Bandyopadhyay 2, M K Rao 3, G J Goodall 4, L-Z Sun 3, R R Tekmal 5, R K Vadlamudi 5 Abstract Tumor metastasis is the leading cause of death among breast cancer patients. PELP1 (proline, glutamic acid, and leucine-rich protein 1) is a nuclear receptor coregulator that is upregulated during breast cancer progression to metastasis and is an independent prognostic […]