Fast Radiative-Transfer-Equation-Based Image Reconstruction Algorithms for Non-Contact Diffuse Optical Tomography Systems

It is well known that the radiative transfer equation (RTE) is the most accurate deterministic light propagation model employed in diffuse optical tomography (DOT). RTE-based algorithms provide more accurate tomographic results than codes that rely on the diffusion equation (DE), which is an approximation to the RTE, in scattering dominant media. However, RTE based DOT (RTE-DOT) has limited utility in practice due to its high computational cost and lack of support for general non-contact imaging systems. In this dissertation, I developed fast reconstruction algorithms for RTE-based DOT (RTE-DOT), which consists of three independent components: an efficient linear solver for forward problems, an improved optimization solver for inverse problem, and the first light propagation model in free space that fully considers the angular dependency, which can provide a suitable measurement operator for RTE-DOT. This algorithm is validated and evaluated with numerical experiments and clinical data. According to these studies, the novel reconstruction algorithm is up to 30 times faster than traditional reconstruction techniques, while achieving comparable reconstruction accuracy

Deep Learning for Automatic Detection and Segmentation from CT Angiography of Deep Inferior Epigastric Vascular Structures for Preoperative Planning of TRAM Flap Surgeries

https://openworks.mdanderson.org/sumexp23/1131/thumbnail.jp

Using Dempster-Shafer’s evidence theory for query expansion based on freebase knowledge

Query expansion is generally a useful technique in improving search performance. However, some expanded query terms obtained by traditional statistical methods (e.g., pseudo-relevance feedback) may not be relevant to the user's information need, while some relevant terms may not be contained in the feedback documents at all. Recent studies utilize external resources to detect terms that are related to the query, and then adopt these terms in query expansion. In this paper, we present a study in the use of Freebase, which is an open source general-purpose ontology, as a source for deriving expansion terms. FreeBase provides a graph-based model of human knowledge, from which a rich and multi-step structure of instances related to the query concept can be extracted, as a complement to the traditional statistical approaches to query expansion. We propose a novel method, based on the well-principled Dempster-Shafer's (D-S) evidence theory, to measure the certainty of expansion terms from the Freebase structure. The expanded query model is then combined with a state of the art statistical query expansion model - the Relevance Model (RM3). Experiments show that the proposed method achieves significant improvements over RM3

A Fast full-body fluorescence/bioluminescence imaging system for small animals

ABSTRACT Whole body in vivo optical imaging of small animals has widened its applications and increased the capabilities for preclinical researches. However, most commercial and prototype optical imaging systems are camera-based systems using epi-or trans-illumination mode, with limited views of small animals. And for more accurate tomographic image reconstruction, additional data and information of a target animal is necessary. To overcome these issues, researchers have suggested several approaches such as maximizing the detection area or using the information of other highresolution modalities such as CT, MRI or Ultrasound, or using multi-spectral signals. As one of ways to maximizing the detection area of a target animal, we present a new fluorescence and bioluminescence imaging system for small animals, which can image entire surface of a target animal simultaneously. This system uses double mirror reflection scheme and it consists of input unit, imaging unit with two conical mirrors, the source illumination part and the surface scanner, and the detection unit with an intensified CCD camera system. Two conical mirrors are configured that a larger size mirror captures a target animal surface, and a smaller size mirror projects this captured image onto a CCD camera with one acquisition. With this scheme, we could capture entire surface of a target animal simultaneously and improve back reflection issue between a mirror and an animal surface of a single conical mirror scheme. Additionally, we could increase accessibility to an animal for multi-modality integration by providing unobstructed space around a target animal

From carbon nanotubes and silicate layers to graphene platelets for polymer nanocomposites

In spite of extensive studies conducted on carbon nanotubes and silicate layers for their polymer-based nanocomposites, the rise of graphene now provides a more promising candidate due to its exceptionally high mechanical performance and electrical and thermal conductivities. The present study developed a facile approach to fabricate epoxy–graphene nanocomposites by thermally expanding a commercial product followed by ultrasonication and solution-compounding with epoxy, and investigated their morphologies, mechanical properties, electrical conductivity and thermal mechanical behaviour. Graphene platelets (GnPs) of 3.5

Nicotinamide mononucleotide adenylyltransferase uses its NAD+ substrate-binding site to chaperone phosphorylated Tau.

Funder: Science and Technology Commission of Shanghai Municipality; FundRef: http://dx.doi.org/10.13039/501100003399Funder: Dr. John T. MacDonald Foundation; FundRef: http://dx.doi.org/10.13039/100010239Tau hyper-phosphorylation and deposition into neurofibrillary tangles have been found in brains of patients with Alzheimer's disease (AD) and other tauopathies. Molecular chaperones are involved in regulating the pathological aggregation of phosphorylated Tau (pTau) and modulating disease progression. Here, we report that nicotinamide mononucleotide adenylyltransferase (NMNAT), a well-known NAD+ synthase, serves as a chaperone of pTau to prevent its amyloid aggregation in vitro as well as mitigate its pathology in a fly tauopathy model. By combining NMR spectroscopy, crystallography, single-molecule and computational approaches, we revealed that NMNAT adopts its enzymatic pocket to specifically bind the phosphorylated sites of pTau, which can be competitively disrupted by the enzymatic substrates of NMNAT. Moreover, we found that NMNAT serves as a co-chaperone of Hsp90 for the specific recognition of pTau over Tau. Our work uncovers a dedicated chaperone of pTau and suggests NMNAT as a key node between NAD+ metabolism and Tau homeostasis in aging and neurodegeneration

Finishing the euchromatic sequence of the human genome

The sequence of the human genome encodes the genetic instructions for human physiology, as well as rich information about human evolution. In 2001, the International Human Genome Sequencing Consortium reported a draft sequence of the euchromatic portion of the human genome. Since then, the international collaboration has worked to convert this draft into a genome sequence with high accuracy and nearly complete coverage. Here, we report the result of this finishing process. The current genome sequence (Build 35) contains 2.85 billion nucleotides interrupted by only 341 gaps. It covers ∼99% of the euchromatic genome and is accurate to an error rate of ∼1 event per 100,000 bases. Many of the remaining euchromatic gaps are associated with segmental duplications and will require focused work with new methods. The near-complete sequence, the first for a vertebrate, greatly improves the precision of biological analyses of the human genome including studies of gene number, birth and death. Notably, the human enome seems to encode only 20,000-25,000 protein-coding genes. The genome sequence reported here should serve as a firm foundation for biomedical research in the decades ahead

Self-Assembled TiO2 Nanotube Arrays with U-Shaped Profile by Controlling Anodization Temperature

TiO2 nanotube arrays with uniform diameter from top to bottom were fabricated. The synthesizing approach is based on the investigation of the influence of electrolyte temperature on the tube diameter. We found that the inner diameter of the tubes increased with the electrolyte temperature. Accordingly, we improved the tube profile from the general V shape to U shape by raising the electrolyte temperature gradually. This is a simple and fast approach to fabricate uniform TiO2 nanotubes in diameter. The improved TiO2 nanotube arrays may show better properties and have broad potential applications