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BMCBI
2010
139views more  BMCBI 2010»
13 years 9 months ago
RNAstructure: software for RNA secondary structure prediction and analysis
Background: To understand an RNA sequence's mechanism of action, the structure must be known. Furthermore, target RNA structure is an important consideration in the design of...
Jessica S. Reuter, David H. Mathews
BMCBI
2010
105views more  BMCBI 2010»
13 years 9 months ago
Effects of scanning sensitivity and multiple scan algorithms on microarray data quality
Background: Maximizing the utility of DNA microarray data requires optimization of data acquisition through selection of an appropriate scanner setting. To increase the amount of ...
Andrew Williams, Errol M. Thomson
BMCBI
2010
111views more  BMCBI 2010»
13 years 9 months ago
Dynamic probe selection for studying microbial transcriptome with high-density genomic tiling microarrays
Background: Current commercial high-density oligonucleotide microarrays can hold millions of probe spots on a single microscopic glass slide and are ideal for studying the transcr...
Hedda Høvik, Tsute Chen
BMCBI
2010
136views more  BMCBI 2010»
13 years 9 months ago
The IronChip evaluation package: a package of perl modules for robust analysis of custom microarrays
Background: Gene expression studies greatly contribute to our understanding of complex relationships in gene regulatory networks. However, the complexity of array design, producti...
Yevhen Vainshtein, Mayka Sanchez, Alvis Brazma, Ma...
BMCBI
2010
109views more  BMCBI 2010»
13 years 9 months ago
Pripper: prediction of caspase cleavage sites from whole proteomes
Background: Caspases are a family of proteases that have central functions in programmed cell death (apoptosis) and inflammation. Caspases mediate their effects through aspartate-...
Mirva Piippo, Niina Lietzén, Olli Nevalaine...