Physical Sciences and Mathematics Commons^™

Development And Implementation Of High-Throughput Snpgenotyping In Barley, Serdar Bozdag, Timothy J. Close, Prasanna R. Bhat, Stefano Lonardi, Yonghui Wu, Nils Rostoks, Luke Ramsay, Arnis Druka, Nils Stein, Jan T. Svensson, Steve Wanamaker, Mikeal L. Roose, Matthew J. Moscou, Shiaoman Chao, Rajeev K. Varshney, Peter Szucs, Kazuhiro Sato, Patrick M. Hayes, David E. Matthews, Andris Kleinhofs, Gary J. Muehlbauer, Joseph Deyoung, David F. Marshall, Kavitha Madishetty, Raymond D. Fenton, Pascal Condamine, Andreas Graner, Robbie Waugh

Mathematics, Statistics and Computer Science Faculty Research and Publications

Background

High density genetic maps of plants have, nearly without exception, made use of marker datasets containing missing or questionable genotype calls derived from a variety of genic and non-genic or anonymous markers, and been presented as a single linear order of genetic loci for each linkage group. The consequences of missing or erroneous data include falsely separated markers, expansion of cM distances and incorrect marker order. These imperfections are amplified in consensus maps and problematic when fine resolution is critical including comparative genome analyses and map-based cloning. Here we provide a new paradigm, a high-density consensus genetic map of …

Design And Implementation Of S-Marks: A Secure Middleware For Pervasive Computing Applications, Sheikh Iqbal Ahamed, Haifeng Li, Nilothpal Talukder, Mehrab Monjur, Chowdhury Sharif Hasan

Mathematics, Statistics and Computer Science Faculty Research and Publications

As portable devices have become a part of our everyday life, more people are unknowingly participating in a pervasive computing environment. People engage with not a single device for a specific purpose but many devices interacting with each other in the course of ordinary activity. With such prevalence of pervasive technology, the interaction between portable devices needs to be continuous and imperceptible to device users. Pervasive computing requires a small, scalable and robust network which relies heavily on the middleware to resolve communication and security issues. In this paper, we present the design and implementation of S-MARKS which incorporates device …

Development And Implementation Of High-Throughput Snp Genotyping In Barley, Timothy J. Close, Prasanna R. Bhat, Stefano Lonardi, Yonghui Wu, Nils Rostoks, Luke Ramsay, Arnis Druka, Nils Stein, Jan T. Svensson, Steve Wanamaker, Serdar Bozdag, Mikeal L. Roose, Matthew J. Moscou, Shiaoman Chao, Rajeev K. Varshney, Peter Szucs, Kazuhiro Sato, Patrick M. Hayes, David E. Matthews, Andris Kleinhofs, Gary J. Muehlbauer, Joseph Deyoung, David F. Marshall, Kavitha Madishetty, Raymond D. Fenton, Pascal Condamine, Andreas Graner, Robbie Waugh

Mathematics, Statistics and Computer Science Faculty Research and Publications

Background

High density genetic maps of plants have, nearly without exception, made use of marker datasets containing missing or questionable genotype calls derived from a variety of genic and non-genic or anonymous markers, and been presented as a single linear order of genetic loci for each linkage group. The consequences of missing or erroneous data include falsely separated markers, expansion of cM distances and incorrect marker order. These imperfections are amplified in consensus maps and problematic when fine resolution is critical including comparative genome analyses and map-based cloning. Here we provide a new paradigm, a high-density consensus genetic map of …

Dendrites, Topological Graphs, And 2-Dominance, Paul Bankston

Mathematics, Statistics and Computer Science Faculty Research and Publications

For each positive ordinal α, the reflexive and transitive binary relation of α-dominance between compacta was first defined in our paper [Mapping properties of co-existentially closed continua, Houston J. Math., 31 (2005), 1047-1063] using the ultracopower construction. Here we consider the important special case α =2, and show that any Peano compactum 2-dominated by a dendrite is itself a dendrite (with the same being true for topological graphs and trees). We also characterize the topological graphs that 2-dominate arcs (resp., simple closed curves) as those that have cut points of order 2 (resp., those that are not trees).

Preferential Utilization Of Nadph As The Endogenous Electron Donor For Nad(P)H:Quinone Oxidoreductase 1 (Nqo1) In Intact Pulmonary Arterial Endothelial Cells, Robert D. Bongard, Brian J. Lindemer, Gary S. Krenz, Marilyn P. Merker

Mathematics, Statistics and Computer Science Faculty Research and Publications

The goal was to determine whether endogenous cytosolic NAD(P)H:quinone oxidoreductase 1 (NQO1) preferentially uses NADPH or NADH in intact pulmonary arterial endothelial cells in culture. The approach was to manipulate the redox status of the NADH/NAD⁺ and NADPH/NADP⁺ redox pairs in the cytosolic compartment using treatment conditions targeting glycolysis and the pentose phosphate pathway alone or with lactate, and to evaluate the impact on the intact cell NQO1 activity. Cells were treated with 2-deoxyglucose, iodoacetate, or epiandrosterone in the absence or presence of lactate, NQO1 activity was measured in intact cells using duroquinone as the electron acceptor, and …

Compartmentalized Approach To The Assembly Of Physical Maps, Serdar Bozdag, Timothy J. Close, Stefano Lonardi

Mathematics, Statistics and Computer Science Faculty Research and Publications

Background

Physical maps have been historically one of the cornerstones of genome sequencing and map-based cloning strategies. They also support marker assisted breeding and EST mapping. The problem of building a high quality physical map is computationally challenging due to unavoidable noise in the input fingerprint data.

Results

We propose a novel compartmentalized method for the assembly of high quality physical maps from fingerprinted clones. The knowledge of genetic markers enables us to group clones into clusters so that clones in the same cluster are more likely to overlap. For each cluster of clones, a local physical map is first …

A Compartmentalized Approach To The Assembly Of Physical Maps, Serdar Bozdag, Timothy J. Close, Stefano Lonardi

Mathematics, Statistics and Computer Science Faculty Research and Publications

Background: Physical maps have been historically one of the cornerstones of genome sequencing and map-based cloning strategies. They also support marker assisted breeding and EST mapping. The problem of building a high quality physical map is computationally challenging due to unavoidable noise in the input fingerprint data. Results: We propose a novel compartmentalized method for the assembly of high quality physical maps from fingerprinted clones. The knowledge of genetic markers enables us to group clones into clusters so that clones in the same cluster are more likely to overlap. For each cluster of clones, a local physical map is first …