Effective discrimination of non-complementary nucleotides is an important factor to ensure the accuracy of hybridization-based nucleic acid analyses. The current study investigates the effects of the chemical nature, the positions, the numbers, and the cooperative behavior of mismatches as well as insertions on 20-mer and 30-mer duplexes. We observed the hybridization stability trend affected b...

The type II restriction endonuclease TseI recognizes the DNA target sequence 5'-G^CWGC-3' (where W = A or T) and cleaves after the first G to produce fragments with three-base 5'-overhangs. We have determined that it is a dimeric protein capable of cleaving not only its target sequence but also one containing A:A or T:T mismatches at the central base pair in the target sequence. The cleavage of...

Web services are inherently heterogeneous at both data and behavioral levels because of the nature of the Web, which is the main obstacle to the usability of Web services. The heterogeneity at a behavioral level is generally addressed by process mediation, in which the message flow is adjusted to suit the behavior of Web services involved in a given interaction. In this paper, we present a nove...

BACKGROUND HLAMatchmaker is a computer algorithm that determines human leukocyte antigen (HLA) compatibility at the level of polymorphic amino acid triplets in antibody-accessible sequence positions. Recent studies have shown that HLA-DR-matched kidney transplant recipients with zero to two triplet mismatches had almost identical graft survival rates as those with zero HLA-A,B,DR antigen mismat...

Thermodynamics of 23 oligonucleotides with internal single C.T mismatches were obtained by measuring UV absorbance as a function of temperature. Results from these 23 duplexes were combined with three measurements from the literature to derive nearest-neighbor thermodynamic parameters for seven linearly independent trimer sequences with internal C.T mismatches. The data show that the nearest-ne...

Organizations facing the difficulties and costs associated with the development of their information systems from scratch turn to use commercial off-the-shelf (COTS) products to build their systems. A crucial factor in the success of such project is to perform a good COTS decision-making process, a process that aims at defining the organizations’ requirements, evaluating existing products and s...

AIMS This study assessed the predictive validity of the level of matching and mismatching between patients' personal attributes and aspects of outpatient psychotherapy they received. DESIGN AND PARTICIPANTS On the basis of patient-by-treatment interactions observed for this sample in previous research, patients with alcohol abuse or dependence (n = 137) were designated retrospectively as bein...

Mismatches in DNA occur naturally during replication and as a result of endogenous DNA damaging agents, but the mismatch repair (MMR) pathway acts to correct mismatches before subsequent rounds of replication. Rhodium metalloinsertors bind to DNA mismatches with high affinity and specificity and represent a promising strategy to target mismatches in cells. Here we examine the biological fate of...

The structure and dynamics of all the transversion and transition mismatches in three different DNA environments have been characterized by molecular dynamics simulations and NMR spectroscopy. We found that the presence of mismatches produced significant local structural alterations, especially in the case of purine transversions. Mismatched pairs often show promiscuous hydrogen bonding pattern...

We describe and analyze three simple and fast algorithms on the average for solving the problem of string matching with a bounded number of mismatches. These are the naive algorithm, an algorithm based on the Boyer-Moore approach, and ad-hoc deterministic nite automata searching. We include simulation results that compare these algorithms to previous works.