… Do and Serafim Batzoglou are in the Computer Science Department, Stanford University, 318
Campus Drive, Stanford, California 94305-5428, USA., … Serafim Batzoglou … Do, C., Batzoglou …

… A new truly local method, ProDA (P Tu-Minh, CB Do, RC Edgar, S Batzoglou, unpublished),
has recently been made available online (http://proda.stanford.edu/ ); the tool, which is still …

We report the generation and analysis of functional data from multiple, diverse experiments
performed on a targeted 1% of the human genome as part of the pilot phase of the ENCODE …

The ENCyclopedia Of DNA Elements (ENCODE) Project aims to identify all functional elements
in the human genome sequence. The pilot phase of the Project is focused on a specified …

Starting with the sequencing of the mouse genome in 2002, we have entered a period where
the main focus of genomics will be to compare multiple genomes in order to learn about …

Comparative analysis of multiple genomes in a phylogenetic framework dramatically improves
the precision and sensitivity of evolutionary inference, producing more robust results than …

… studies using the same antibody lot, (2) the signal in the band(s) is reduced by siRNA
knockdown or mutation, or (3) the factor can be identified in all band(s) by mass spectrometry. …

The aspergilli comprise a diverse group of filamentous fungi spanning over 200 million
years of evolution. Here we report the genome sequence of the model organism Aspergillus …

… We derived nonlinear, combinatorial models of each focus-factor’s co-binding map relative
to randomized control maps (Supplementary Information, section C.2, and Supplementary Fig…

… ), we also examined whether the network’s prediction scores correlate with the fraction of
reads … of each nucleotide near annotated exons, measuring the effects on the network’s predic- …