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BIOINFORMATICS
2008
97views more  BIOINFORMATICS 2008»
13 years 7 months ago
An integrated system for studying residue coevolution in proteins
Residue coevolution has recently emerged as an important concept, especially in the context of protein structures. While a multitude of different functions for quantifying it have...
Kevin Y. Yip, Prianka Patel, Philip M. Kim, Donald...
BMCBI
2010
118views more  BMCBI 2010»
13 years 7 months ago
Bacillus anthracis genome organization in light of whole transcriptome sequencing
Emerging knowledge of whole prokaryotic transcriptomes could validate a number of theoretical concepts introduced in the early days of genomics. What are the rules connecting gene...
Jeffrey Martin, Wenhan Zhu, Karla D. Passalacqua, ...
BMCBI
2010
167views more  BMCBI 2010»
13 years 7 months ago
Bi-directional gene set enrichment and canonical correlation analysis identify key diet-sensitive pathways and biomarkers of met
Background: Currently, a number of bioinformatics methods are available to generate appropriate lists of genes from a microarray experiment. While these lists represent an accurat...
Melissa J. Morine, Jolene McMonagle, Sinead Toomey...
BMCBI
2007
183views more  BMCBI 2007»
13 years 7 months ago
Considerations in the identification of functional RNA structural elements in genomic alignments
Background: Accurate identification of novel, functional noncoding (nc) RNA features in genome sequence has proven more difficult than for exons. Current algorithms identify and s...
Tomas Babak, Benjamin J. Blencowe, Timothy R. Hugh...
BMCBI
2007
158views more  BMCBI 2007»
13 years 7 months ago
Penalized likelihood for sparse contingency tables with an application to full-length cDNA libraries
Background: The joint analysis of several categorical variables is a common task in many areas of biology, and is becoming central to systems biology investigations whose goal is ...
Corinne Dahinden, Giovanni Parmigiani, Mark C. Eme...