Latest Bioinformatics News

Detection of discriminating patterns in gene expression data can be accomplished by using various methods of statistical learning. It has been proposed that sample pooling in this context would have negative effects; however, pooling cannot always be avoided. We propose a simulation framework to explicitly investigate the parameters of patterns, experimental... 

We present a comprehensive study of cytogenetic alterations that occur during the progression of clear cell renal cell carcinoma (ccRCC). We used high-density high-throughput Affymetrix 100 K SNP arrays to obtain the whole genome SNP copy number information from 71 pretreatment tissue samples with RCC tumors; of those, 42 samples were of human... 

Publication Date: 2010 Jun 2 PMID: 20519284Authors: Parmentier, G. – Bastian, F. B. – Robinson-Rechavi, M.Journal: BioinformaticsMOTIVATION: The anatomy of model species is described in ontologies, which are used to standardize the annotations of experimental data, such as gene expression patterns. To compare such data between species, we... 

Publication Date: 2010 Jun 2 PMID: 20519285Authors: Kislyuk, A. O. – Katz, L. S. – Agrawal, S. – Hagen, M. S. – Conley, A. B. – Jayaraman, P. – Nelakuditi, V. – Humphrey, J. C. – Sammons, S. A. – Govil, D. – Mair, R. D. – Tatti, K. M. – Tondella, M. L. – Harcourt, B. H. –... 

Publication Date: 2010 Jun 2 PMID: 20519286Authors: Lagani, V. – Tsamardinos, I.Journal: BioinformaticsMOTIVATION: Variable selection is a typical approach used for molecular-signature and biomarker discovery, however, its application to survival data is often complicated by censored samples. We propose a new algorithm for variable selection suitable... 

Publication Date: 2010 Jun 2 PMID: 20519287Authors: Raineri, E. – Ribeca, P. – Serrano, L. – Maier, T.Journal: BioinformaticsMOTIVATION: Molecular chaperones prevent the aggregation of their substrate proteins and thereby ensure that they reach their functional native state. The bacterial GroEL/ES chaperonin system is understood in...