Force measurements provide new fundamental and complementary information on biomolecular interactions, particularly in the high and low affi nity regimes, which may hardly be obtained otherwise. [ 1 ] We introduce a label free parallel format assay to quantify the binding forces in protein–DNA complexes on a chip in crowded environments. It employs arrays of molecular force balances with fl uor...

FACT (facilitates chromatin transcription) is a chromatin-reorganizing complex that swaps nucleosomes around the RNA polymerase during transcription elongation and has a role in replication that is not fully understood yet. Here we show that recombination factors are required for the survival of yeast FACT mutants, consistent with an accumulation of DNA breaks that we detected by Rad52 foci and...

Chromatin immunoprecipitation followed by DNA microarray analysis (ChIP-chip methodology) is an efficient way of mapping genome-wide protein-DNA interactions. Data from tiling arrays encompass DNA-protein interaction measurements on thousands or millions of short oligonucleotides (probes) tiling a whole chromosome or genome. We propose a new model-based method for analyzing ChIP-chip data. The ...

in recent years, sexed semen has been commercially available. due to its lower fertility and higher price compared to conventional semen, economic evaluation should be undertaken before recommending the technology to dairy producers in each country. the objectives of the present study were to evaluate the advantages and disadvantages of the sexed semen usage at farm level in economic conditions...

MOTIVATION Building an accurate binding model for a transcription factor (TF) is essential to differentiate its true binding targets from those spurious ones. This is an important step toward understanding gene regulation. RESULTS This paper describes a boosting approach to modeling TF-DNA binding. Different from the widely used weight matrix model, which predicts TF-DNA binding based on a li...

Chromatin immunoprecipitation (ChIP) assay can be used to easily visualize information about proteins, DNA, and RNA on chromosomes and is widely used for analysis of genomes, epigenomes, mRNAs, and non-coding RNAs. The ChIP assay can detect, not only DNA-binding proteins of various organisms, but also the temporal and spatial regulating mechanisms of RNA-binding proteins. Because of these featu...

There are some parallels to be drawn between the data used in computer vision applications and DNA or gene chip data increasingly used in Bioinformatics. So much so that, it has been suggested modern computer vision techniques (such as used in face recognition) might be good starting points for creating algorithms to process DNA chip data. In sections 2 and 3 we contrast the two types of data, ...

In this paper we present a modular lab-on-a-chip system for integrated sample pre-treatment (PT) by magnetophoresis and DNA amplification by polymerase chain reaction (PCR). It consists of a polymer-based microfluidic chip mounted on a custom-made thermocycler (Figure 1) and includes a simple and efficient method for switching the liquid flow between the PT and PCR chamber. Purification of huma...

the transformation of biochemical information into a physical or chemical signal is the basic idea behind a biosensor. the efficient detection of charged biomolecules by biosensor with appropriate device has caught tremendous research interest in the present decade. the present work is related to the simulation study of the performance of a functionalized surface of a biologically sensitive fie...