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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 Project. These data have been further integrated and augmented by a number of evolutionary and computational analyses. Together, our results advance the collective knowledge about(More)
—Network-on-Chips (NoCs) are becoming integral parts of modern microprocessors as the number of cores and modules integrated on a single chip continues to increase. Research and development of future NoC technology relies on accurate modeling and simulations to evaluate the performance impact and analyze the cost of novel NoC architectures. In this work, we(More)
Classic cadherins, comprising multiple subtypes, mediate selective cell-cell adhesion based on their subtype-specific binding nature. Each subtype in the brain is expressed by restricted groups of functionally connected nuclei and laminas. However, whether each subtype has any specific role in neural circuitry remains largely unknown. Here, we show that(More)
Antimicrobial peptides (AMPs) represent a class of natural peptides that form a part of the innate immune system, and this kind of 'nature's antibiotics' is quite promising for solving the problem of increasing antibiotic resistance. In view of this, it is highly desired to develop an effective computational method for accurately predicting novel AMPs(More)
The most widely used method for detecting genome-wide protein-DNA interactions is chromatin immunoprecipitation on tiling microarrays, commonly known as ChIP-chip. Here, we conducted the first objective analysis of tiling array platforms, amplification procedures, and signal detection algorithms in a simulated ChIP-chip experiment. Mixtures of human genomic(More)
Recently proposed high-radix interconnection networks [10] require global adaptive routing to achieve optimum performance. Existing direct adaptive routing methods are slow to sense congestion remote from the source router and hence misroute many packets before such congestion is detected. This paper introduces indirect global adaptive routing (IAR) in(More)
Insulator elements play a role in gene regulation that is potentially linked to nuclear organization. Boundary element-associated factors (BEAFs) 32A and 32B associate with hundreds of sites on Drosophila polytene chromosomes. We hybridized DNA isolated by chromatin immunoprecipitation to genome tiling microarrays to construct a genome-wide map of BEAF(More)
The L-type Ca(2+) channel (LTCC) is the major mediator of Ca(2+) influx in cardiomyocytes, leading to both mechanical contraction and activation of signaling cascades. Among these Ca(2+)-activated cascades is calcineurin, a protein phosphatase that promotes hypertrophic growth of the heart. Coimmunoprecipitations from heart extracts and pulldowns using(More)