Engineering Commons^™

Transcriptome Analysis Identifies Novel Responses And Potential Regulatory Genes Involved In Seasonal Dormancy Transitions Of Leafy Spurge (Euphorbia Esula L.), David P. Horvath, Wun S. Chao, Jeffrey C. Suttle, Jyothi Thimmapuram, James V. Anderson

Cyber Center Publications

Dormancy of buds is a critical developmental process that allows perennial plants to survive extreme seasonal variations in climate. Dormancy transitions in underground crown buds of the model herbaceous perennial weed leafy spurge were investigated using a 23 K element cDNA microarray. These data represent the first large-scale transcriptome analysis of dormancy in underground buds of an herbaceous perennial species. Crown buds collected monthly from August through December, over a five year period, were used to monitor the changes in the transcriptome during dormancy transitions.

2008 Scholars And Artists Bibliography, Rajshehkar G. Javalgi Dr., Michael Schwartz Library, Cleveland State University, Friends Of The Michael Schwartz Library

Scholars and Artists Bibliographies

This bibliography was created for the annual Friends of the Michael Schwartz Library Scholars and Artists Reception, recognizing scholarly and creative achievements of Cleveland State University faculty, staff and emeriti. Dr. Rajshekhar Javalgi was the guest speaker.

Methodology Development For Three-Dimensional Mr-Guided Near Infrared Spectroscopy Of Breast Tumors, Colin M. Carpenter, Subhadra Srinivasan, Brian W. Pogue, Keith D. Paulsen

Dartmouth Scholarship

Combined Magnetic Resonance (MR) and Near Infrared Spectroscopy (NIRS) has been proposed as a unique method to quantify hemodynamics, water content, and cellular size and packing density of breast tumors, as these tissue constituents can be quantified with increased resolution and overlaid on the structural features identified by the MR. However, the choices in how to reconstruct and visualize this information can have a dramatic impact on the feasibility of implementing this modality in the clinic. This is especially true in 3 dimensions, as there is often limited optical sampling of the breast tissue, and methods need to accurately reflect …

Development And Annotation Of Perennial Triticeae Ests And Ssr Markers., B.S. Bushman, S R Larson, I W Mott, P F Cliften, R R Wang, N J Chatterton, A G Hernandez, S Ali, R W Kim, Jyothi Thimmapuram, G Gong, L Liu, M A Mikel

Cyber Center Publications

Triticeae contains hundreds of species of both annual and perennial types. Although substantial genomic tools are available for annual Triticeae cereals such as wheat and barley, the perennial Triticeae lack sufficient genomic resources for genetic mapping or diversity research. To increase the amount of sequence information available in the perennial Triticeae, three expressed sequence tag (EST) libraries were developed and annotated for Pseudoroegneria spicata, a mixture of both Elymus wawawaiensis and E. lanceolatus, and a Leymus cinereus x L. triticoides interspecific hybrid. The ESTs were combined into unigene sets of 8 780 unigenes for P. spicata, 11 281 unigenes for …

Image-Guided Raman Spectroscopic Recovery Of Canine Cortical Bone Contrast In Situ, Subhadra Srinivasan, Matthew Schulmerich, Jacqueline H. Cole, Kathryn Dooley, Jaclynn M. Kreider, Brian W. Pogue

Dartmouth Scholarship

Raman scattering provides valuable biochemical and molecular markers for studying bone tissue composition with use in predicting fracture risk in osteoporosis. Raman tomography can image through a few centimeters of tissue but is limited by low spatial resolution. X-ray computed tomography (CT) imaging can provide high-resolution image-guidance of the Raman spectroscopic characterization, which enhances the quantitative recovery of the Raman signals, and this technique provides additional information to standard imaging methods. This hypothesis was tested in data measured from Teflon tissue phantoms and from a canine limb. Image-guided Raman spectroscopy (IG-RS) of the canine limb using CT images of the …

Genes Controlling Plant Growth Habit In Leymus (Triticeae): Maize Barren Stalk1 (Ba1), Rice Lax Panicle, And Wheat Tiller Inhibition (Tin3) Genes As Possible Candidates., Paraminder Kaur, Steven R. Larson, B.S. Bushman, Richard R. Wang, Ivan W. Mott, Jyothi Thimmapuram, George Gong, Lei Liu

Cyber Center Publications

Leymus cinereus and L. triticoides are large caespitose and rhizomatous perennial grasses, respectively. Previous studies detected quantitative trait loci (QTL) controlling rhizome spreading near the viviparous1 (vp1) gene markers on linkage groups LG3a and LG3b in two families, TTC1 and TTC2, derived from Leymus triticoides x Leymus cinereus hybrids. The wheat tiller inhibition gene (tin3) is located on Triticum monococcum chromosome 3 A(m)L near vp1. Triticeae group 3 is reportedly collinear with rice chromosome 1, which also contains the maize barren stalk1 and rice lax branching orthogene near vp1. However, previous studies lacked cross-species markers for comparative mapping and showed …

Fluorescence Tomography Characterization For Sub-Surface Imaging With Protoporphyrin Ix, Dax Kepshire, Scott C. Davis, Hamid Dehghani, Keith D. Paulsen, Brian W. Pogue

Dartmouth Scholarship

Optical imaging of fluorescent objects embedded in a tissue simulating medium was characterized using non-contact based approaches to fluorescence remittance imaging (FRI) and sub-surface fluorescence diffuse optical tomography (FDOT). Using Protoporphyrin IX as a fluorescent agent, experiments were performed on tissue phantoms comprised of typical in-vivo tumor to normal tissue contrast ratios, ranging from 3.5:1 up to 10:1. It was found that tomographic imaging was able to recover interior inclusions with high contrast relative to the background; however, simple planar fluorescence imaging provided a superior contrast to noise ratio. Overall, FRI performed optimally when the object was located on or …

The Draft Genome Of The Transgenic Tropical Fruit Tree Papaya ( Carica Papaya Linnaeus), Ray Ming, Shaobin Hou, Yun Feng, Qinguyi Yu, Jyothi Thimmapuram

Cyber Center Publications

Papaya, a fruit crop cultivated in tropical and subtropical regions, is known for its nutritional benefits and medicinal applications. Here we report a 3 draft genome sequence of 'SunUp' papaya, the first commercial virus-resistant transgenic fruit tree¹ to be sequenced. The papaya genome is three times the size of the Arabidopsis genome, but contains fewer genes, including significantly fewer disease-resistance gene analogues. Comparison of the five sequenced genomes suggests a minimal angiosperm gene set of 13,311. A lack of recent genome duplication, atypical of other angiosperm genomes sequenced so far may account for the smaller papaya gene number in …

Non-Invasive Raman Tomographic Imaging Of Canine Bone Tissue, Matthew V. Schulmerich, Jacqueline H. Cole, Kathryn A. Dooley, Michael D. Morris, Jaclynn M. Kreider, Steven A. Goldstein, Subhadra Srinivasan, Brian W. Pogue

Dartmouth Scholarship

Raman spectroscopic diffuse tomographic imaging has been demonstrated for the first time. It provides a noninvasive, label-free modality to image the chemical composition of human and animal tissue and other turbid media. This technique has been applied to image the composition of bone tissue within an intact section of a canine limb. Spatially distributed 785-nm laser excitation was employed to prevent thermal damage to the tissue. Diffuse emission tomography reconstruction was used, and the location that was recovered has been confirmed by micro-computed tomography (micro-CT) images.

With recent advances, diffuse tomography shows promise for in vivo clinical imaging.^{1, …}

Data Management And Whistle-Blowing, Michael C. Loui

Ethics in Science and Engineering National Clearinghouse

No abstract provided.

In Situ Measurement Of Three-Dimensional Ion Densities In Focused Femtosecond Pulses, James Strohaber, Cornelis J. Uiterwaal

Department of Physics and Astronomy: Dissertations, Theses, and Student Research

We image spatial distribution of xenon ions in the focus of a laser beam of ultrashort, intense pulses in all three dimensions, with a resolution of three by twelve microns in the two transverse directions. This allows for studying ionization processes without spatially averaging ion yields. Our in situ ion imaging is also useful to analyze focal intensity profiles and to investigate the transverse modal purity of tightly focused beams of complex light. As an example, the intensity profile of a Hermite-Gaussian beam mode HG recorded with ions is found to be in good agreement with optical images.

Detailed Characterization Of The Mouse Embryonic Stem Cell Transcriptome Reveals Novel Genes And Intergenic Splicing Associated With Pluripotency, Galih Kunarso, Kee-Yew Wong, Lawrence W. Stanton, Leonard Lipovich

Wayne State University Associated BioMed Central Scholarship

Abstract

Background

Transcriptional control of embryonic stem (ES) cell pluripotency has been a subject of intense study. Transcriptional regulators including Oct4 (Oct3/4 index), Sox2 and Nanog are fundamental for maintaining the undifferentiated state. However, the ES cell transcriptome is not limited to their targets, and exhibits considerable complexity when assayed with microarray, MPSS, cDNA/EST sequencing, and SAGE technologies. To identify novel genes associated with pluripotency, we globally searched for ES transcripts not corresponding to known genes, validated their sequences, determined their expression profiles, and employed RNAi to test their function.

Results

Gene Identification Signature (GIS) analysis, a SAGE derivative distinguished …

Text As Property / Property As Text, Christopher Kelty, Alfred Housman, Scott Mcgill

Ethics in Science and Engineering National Clearinghouse

Ownership, authorship, plagiarism, intellectual property, parody, critique, re-use, credit, reputation, allusion, imitation, patronage, payment, piracy, creativity, originality, borrowing, lending, stealing, quoting, citing, lifting, re-writing, translating, acting, performing, impersonating, collaborating, re-creating, editing, sampling, sharing.

If you can distinguish between all these activities, legally, morally, culturally and historically, then you don't need our class. If on the other hand, you want to know why ancient Romans sampled Virgil so often, or why some plagiarism is art and some is crime, or what could happen to manuscripts in antiquity when they circulated, or why the RIAA is suing thousands of college students, or …

How To Get The Mentoring You Want: A Guide For Graduate Students At A Diverse University, Rackham Graduate School - University Of Michigan

Ethics in Science and Engineering National Clearinghouse

No abstract provided.

Object Detection And Classification With Applications To Skin Cancer Screening, Jonathan Blackledge, Dmitryi Dubovitskiy

Articles

This paper discusses a new approach to the processes of object detection, recognition and classification in a digital image. The classification method is based on the application of a set of features which include fractal parameters such as the Lacunarity and Fractal Dimension. Thus, the approach used, incorporates the characterisation of an object in terms of its texture.

The principal issues associated with object recognition are presented which includes two novel fast segmentation algorithms for which C++ code is provided. The self-learning procedure for designing a decision making engine using fuzzy logic and membership function theory is also presented and …

A Surface Inspection Machine Vision System That Includes Fractal Texture Analysis, Jonathan Blackledge, Dmitry Dubovitskiy

Articles

The detection, recognition and classification of features in a digital image is an important component of quality control systems in production and process engineering and industrial systems monitoring, in general. In this paper, a new pattern recognition system is presented that has been designed for the specific task of monitoring the quality of sheet-steel production in a rolling mill. The system is based on using both the Euclidean and Fractal geometric properties of an imaged object to develop training data that is used in conjunction with a supervised learning procedure based on the application of a fuzzy inference engine. Thus, …

University Of Texas At Tyler Catalog, 2008 - 2010, University Of Texas At Tyler

Catalogs

No abstract provided.

Patient-Centred Laboratory Validation Using Software Agents, John Mcgrory, Jane Grimson, Frank Clarke, Peter Gaffney

Conference Papers

Guidelines are self-contained documents which healthcare professionals reference to obtain knowledge about a specific condition or process. They interface with these documents and apply known facts about specific patients to gain useful supportive information to aid in developing a diagnosis or manage a condition. To automate this process a series of Standard Operating Procedures (SOP) and workflow processes are constructed using the contents of these documents in order to manage the validation flow of a patient sample. These processes decompose the guidelines into workflow plans, which are then called using condition triggers controlled by a centralised management engine. The software …

An Efficient Algorithm For Biomarker Identification, Jiang Li, Rick Mckenzie, Lisa Cazares, Richard Drake, John Semmens

Electrical & Computer Engineering Faculty Publications

No abstract provided.