BMC Genomics: A Bayesian decision fusion approach for microRNA target prediction

December 17, 2012

Dong Yue, Maozu Guo, Yidong Chen & Yufei Huang Abstract MicroRNAs (miRNAs) are 19-25 nucleotides non-coding RNAs known to have important post-transcriptional regulatory functions. The computational target prediction algorithm is vital to effective experimental testing. However, since different existing algorithms rely on different features and classifiers, there is a poor agreement among the results of different algorithms. To benefit […]

BMC Genomics: Reducing confounding and suppression effects in TCGA data: an integrated analysis of chemotherapy response in ovarian cancer

October 26, 2012

Fang-Han Hsu, Erchin Serpedin, Tzu-Hung Hsiao, Alexander JR Bishop, Edward R Dougherty & Yidong Chen Abstract Background Despite initial response in adjuvant chemotherapy, ovarian cancer patients treated with the combination of paclitaxel and carboplatin frequently suffer from recurrence after a few cycles of treatment, and the underlying mechanisms causing the chemoresistance remain unclear. Recently, The Cancer Genome Atlas (TCGA) research network […]

BMC Genomics: Pathway Distiller – multisource biological pathway consolidation

October 26, 2012

Mark S Doderer, Zachry Anguiano, Uthra Suresh, Ravi Dashnamoorthy, Alexander JR Bishop & Yidong Chen  Abstract Background One method to understand and evaluate an experiment that produces a large set of genes, such as a gene expression microarray analysis, is to identify overrepresentation or enrichment for biological pathways. Because pathways are able to functionally describe the set of genes, much effort […]

BMC Genomics: Selected articles from the IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS’2011)

October 13, 2012

Ranadip Pal, Yufei Huang & Yidong Chen Introduction The 2011 IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS 2011) was organized in San Antonio, Texas from December 2-4th. GENSIPS’11 provided a forum for researchers in the signal processing community, other related computational experts, and biomedical scientists to exchange ideas and discuss signal processing challenges due to […]

Medical Express: New hope for taming triple-negative breast cancer

October 2, 2012

Disease-free survival is short-lived for women with triple-negative breast cancer—a form of the disease that doesn’t respond to hormone drugs and becomes resistant to chemotherapy. Thankfully, a promising line of study in the School of Medicine at The University of Texas Health Science Center San Antonio suggests it is possible to fine-tune the properties of […]

Annals of Diagnostic Pathology: Isolated vaginal myeloid sarcoma in a 16-year-old girl

October 1, 2012

Maria Luisa C, Policarpio-NicolasMDa, Philip T.ValenteMDa , Gregory J.Aune MD, PhDb , Russell A.HigginsMDa Abstract Involvement of the female genital tract by myeloid sarcoma as the initial presentation is extremely uncommon, especially in the vagina. The lack of specific histologic features and the unusual location can be a diagnostic challenge to both the surgical pathologist and the […]

Journal of Biological Chemistry: The transcription factor Wilms tumor 1 confers resistance in myeloid leukemia cells against the proapoptotic therapeutic agent TRAIL (tumor necrosis factor α-related apoptosis-inducing ligand) by regulating the antiapoptotic protein Bcl-xL

September 21, 2012

Hima Bansal 1, Theresea Seifert, Carlos Bachier, Manjeet Rao, Gail Tomlinson, Swaminathan Padmanabhan Iyer, Sanjay Bansal Abstract Tumor necrosis factor α-related apoptosis-inducing ligand (TRAIL) is considered a promising cancer therapeutic agent due to its ability to induce apoptosis in a variety of cancer cells while sparing normal cells. However, many human tumors including acute myeloid leukemia (AML) are partially or completely resistant […]