cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25549/usctheses-c3-1913
title: Techniques to reduce off-resonance image artifacts in rapid MRI

description: Among modern medical imaging modalities, magnetic resonance imaging (MRI) is one of the slowest.  Although restricted in part by natural properties of atomic nuclei, MRI scanning speed is limited by its inherent serial sampling paradigm and inefficiencies in the sampling trajectory, the path through frequency space along which the spectral data are acquired.  Most MRI studies employ trajectories that under-utilize the scanner hardware and prolong the scan. ❧ Fast trajectories such as spirals and echo planar patterns can reduce scan time several fold.  Compared to other acceleration methods, rapid MRI trajectories more generally applicable and can be implemented without additional hardware or signal modeling assumptions.  However, they are sensitive to the signal phase errors generated by off-resonance, the inevitable variation in resonance frequency across the imaging volume.  Images they produce tend to contain corruptive artifacts which have mostly limited their usage to niche research applications.  Yet they remain relevant to the future of MRI.  With high field imaging comes the promise of finer resolutions and faster scans, which may not be realizable without fast trajectories. ❧ This work introduces new techniques for robust off-resonance artifact reduction and correction.  We present an improved outer volume suppression (OVS) sequence to suppress signal and allow imaging with a reduced field-of-view (rFOV).  Our OVS design is tolerant of field inhomogeneity and has short duration, unlike other methods.  The rFOV mitigates the image blurring artifacts characteristic of spiral trajectories.  We derive a new solution to the Bloch equations with an interesting property that is utilized in the design. ❧ We also present a new algorithm for automatic deblurring of images acquired with spiral trajectories.  This is the first autofocus method for MRI that does not optimize a focus metric.  Instead, it estimates the underlying off-resonance using signal physics and a piecewise linear processing framework.  Evaluations using fine-resolution spiral imaging show that our method can outperform current automatic methods, and is comparable to non-automatic approaches wherein the off-resonance is known. ❧ We also show how the automatic off-resonance correction algorithm can be modified to accommodate alternate trajectories.  We investigate its application to reduce the geometric distortion artifacts caused by off-resonance in echo planar imaging.   Initial tests show the reduction in distortion using our approach is similar to non-automatic methods. ❧ Ironically, rapid trajectories may be the tortoise in the long race to improve MRI.  Their immediate potential to shorten scans has kept them in the running, but they are encumbered by the need for robust mitigation of off-resonance artifacts.  Using the proposed techniques, rapid trajectories may become the front-runner in more MRI protocols.
DOI: 10.23725/0858-d881
title: NWD496530.recab.cram.crai

description: TOPMed: NWD496530 <br>HapMap_1000G: NA12878 <br>Seq Ctr: Broad <br>File:  CRAI index file
DOI: 10.23725/42qh-ak79
title: NWD490850.recab.cram.crai

description: TOPMed: NWD490850 <br>HapMap_1000G: NA19238 <br>Seq Ctr: UW <br>File:  CRAI index file
DOI: 10.23725/c5g5-x551
title: NWD496530.recab.cram

description: TOPMed: NWD496530 <br>HapMap_1000G: NA12878 <br>Seq Ctr: Broad <br>File:  CRAM file
DOI: 10.23725/cr56-ym73
title: NWD495157.recab.cram

description: TOPMed: NWD495157 <br>HapMap_1000G: HG01111 <br>Seq Ctr: Broad <br>File:  CRAM file
DOI: 10.23725/d2fk-b987
title: NWD492101.recab.cram

description: TOPMed: NWD492101 <br>HapMap_1000G: HG01249 <br>Seq Ctr: Baylor <br>File:  CRAM file
DOI: 10.23725/q0hw-x818
title: NWD492101.recab.cram.crai

description: TOPMed: NWD492101 <br>HapMap_1000G: HG01249 <br>Seq Ctr: Baylor <br>File:  CRAI index file
DOI: 10.23725/w5kh-1k41
title: NWD495157.recab.cram.crai

description: TOPMed: NWD495157 <br>HapMap_1000G: HG01111 <br>Seq Ctr: Broad <br>File:  CRAI index file
DOI: 10.25549/usctheses-c3-175039
title: From the molecule to the mind: what Fragile X Syndrome tells us about mental conditions, community and the self

description: Fragile X Syndrome is the most common inherited form of mental impairment and the most common known form of autism. The condition, a mutation on the X chromosome, has been well-known for decades, but only in the last few years has a more complete picture of its functioning at a genetic, neurological and behavioral level really emerged. Along with this understanding has come a potential means for treating and even potentially reversing the condition. The author, whose brother has Fragile X, considers how the condition has shaped his own understanding of family and responsibility while weighing the benefits of eliminating the condition against what might be lost to the human race in our march toward perfection -- or at least something we all agree to call “normal.”
DOI: 10.23725/220y-mw97
title: NWD535753.recab.cram.crai

description: TOPMed: NWD535753 <br>HapMap_1000G: NA12878 <br>Seq Ctr: Broad <br>File:  CRAI index file
DOI: 10.23725/3a4a-kc67
title: NWD502718.recab.cram

description: TOPMed: NWD502718 <br>HapMap_1000G: NA19238 <br>Seq Ctr: NYGC <br>File:  CRAM file
DOI: 10.23725/5xgy-7b46
title: NWD502718.recab.cram.crai

description: TOPMed: NWD502718 <br>HapMap_1000G: NA19238 <br>Seq Ctr: NYGC <br>File:  CRAI index file
DOI: 10.23725/9sf3-m822
title: NWD518110.recab.cram.crai

description: TOPMed: NWD518110 <br>HapMap_1000G: NA19238 <br>Seq Ctr: UW <br>File:  CRAI index file
DOI: 10.23725/b912-m528
title: NWD512755.recab.cram.crai

description: TOPMed: NWD512755 <br>HapMap_1000G: NA12878 <br>Seq Ctr: NYGC <br>File:  CRAI index file
DOI: 10.23725/hwm1-7d97
title: NWD518110.recab.cram

description: TOPMed: NWD518110 <br>HapMap_1000G: NA19238 <br>Seq Ctr: UW <br>File:  CRAM file
DOI: 10.23725/kcfp-gz75
title: NWD512755.recab.cram

description: TOPMed: NWD512755 <br>HapMap_1000G: NA12878 <br>Seq Ctr: NYGC <br>File:  CRAM file
DOI: 10.23725/qb1s-9z32
title: NWD524030.recab.cram

description: TOPMed: NWD524030 <br>HapMap_1000G: NA19238 <br>Seq Ctr: Baylor <br>File:  CRAM file
DOI: 10.23725/3he7-v332
title: NWD535753.recab.cram

description: TOPMed: NWD535753 <br>HapMap_1000G: NA12878 <br>Seq Ctr: Broad <br>File:  CRAM file
DOI: 10.23725/a32f-yb10
title: NWD578584.recab.cram

description: TOPMed: NWD578584 <br>HapMap_1000G: NA19238 <br>Seq Ctr: Broad <br>File:  CRAM file
DOI: 10.23725/cx26-6w64
title: NWD524030.recab.cram.crai

description: TOPMed: NWD524030 <br>HapMap_1000G: NA19238 <br>Seq Ctr: Baylor <br>File:  CRAI index file
DOI: 10.23725/fkbw-dk31
title: NWD578417.recab.cram.crai

description: TOPMed: NWD578417 <br>HapMap_1000G: NA12878 <br>Seq Ctr: UW <br>File:  CRAI index file
DOI: 10.23725/k9y2-x502
title: NWD548310.recab.cram

description: TOPMed: NWD548310 <br>HapMap_1000G: NA12878 <br>Seq Ctr: Baylor <br>File:  CRAM file
DOI: 10.23725/rb5f-7a92
title: NWD548310.recab.cram.crai

description: TOPMed: NWD548310 <br>HapMap_1000G: NA12878 <br>Seq Ctr: Baylor <br>File:  CRAI index file
DOI: 10.23725/ttff-7p47
title: NWD580039.recab.cram

description: TOPMed: NWD580039 <br>HapMap_1000G: NA12878 <br>Seq Ctr: Broad <br>File:  CRAM file
DOI: 10.23725/yp3r-ey57
title: NWD578417.recab.cram

description: TOPMed: NWD578417 <br>HapMap_1000G: NA12878 <br>Seq Ctr: UW <br>File:  CRAM file
DOI: 10.25549/usctheses-c3-141458
title: Page 191
DOI: 10.25549/usctheses-c3-160539
title: Page 21
DOI: 10.25549/usctheses-c3-198137
title: Implications of constitutively active bone morphogenetic protein (BMP) signaling in skin morphogenesis and skin postnatal homeostasis

description: The skin and its array of epidermal appendages with their complex 3-dimensional structure provide an excellent model in which to study morphogenesis, pattern formation, and homeostasis. The biochemical signals that govern these biological processes continue to be unraveled. Bone Morphogenetic Proteins (BMP) play an integral role in both morphogenesis and homeostasis of the epidermis, however the precise details of this role remains a source of inquiry. ❧ To further study the role of BMP signaling in the epidermis and its appendages both in morphogenesis and homeostasis we have generated transgenic mice harboring a constitutively active form of the BMPR1A receptor under a Keratin 14 (K14) promoter. This will drive expression of the transgene in the basal layer of the epidermis as well as the Outer Root Sheath (ORS) of the hair follicle. ❧ At strong levels of transgene expression hair follicle morphogenesis is markedly impaired. Epidermal morphogenesis appeared normal, though the balance of differentiation and proliferation was perturbed. Interestingly, in the animals which expressed low levels of the K14Alk3 transgene, there was a progressive loss hair with age. This loss of hair follicle homeostasis implicates BMP as not only a crucial player in morphogenesis, but important in finely balancing proliferation and quiescence in the hair follicle stem cells.
DOI: 10.25549/usctheses-c3-249436
title: A capstone gap analysis project of English learners' achievement at a suburban high school: a focus on goal alignment and systemic support

description: Long-term English learners (LTEL) are students who have attended U.S. schools 6 or more years, but have failed to attain academic and language proficiency.  The LTELs of Rigor High School (RHS) significantly trail their English-only and redesignated English Learners (EL) counterparts.  To close this achievement gap, a modified gap analysis framework was used to identify the causes of LTEL underachievement at RHS and recommend research-based solutions. ❧ The inquiry team first considered the goals of RHS and identified the gaps between their desired results and their current performance.  The team then reviewed relevant literature, analyzed school data, and conducted interviews of school personnel to investigate the causes of the gaps.  Next, the team hypothesized knowledge, motivation, and organizational causes for the gaps.  The following six primary causes were identified: 1) need for improved goal alignment, 2) need for increased teacher collaboration, 3) lack of varied teaching strategies targeting LTELs, 4) placement options not meeting the needs of LTELs, 5) need for systemic support for LTELs, and 6) need to increase cultural capital.  In order to validate these causes, the team conducted a second round of interviews that looked to not only affirm the causes, but to gain a deeper understanding of each of them. ❧ The dissertations of the inquiry team collectively offer solutions to the six causes identified by each member focusing on two of them.  This dissertation focuses on solutions for only goal setting and systemic support.  The first set of solutions offers various ways to better set, align, and communicate goals.  The second set of solutions focuses on different structures that the school can establish in order to better support and serve LTELs at RHS.
DOI: 10.23725/31ww-z209
title: NWD611564.recab.cram.crai

description: TOPMed: NWD611564 <br>HapMap_1000G: NA19238 <br>Seq Ctr: Baylor <br>File:  CRAI index file
DOI: 10.23725/6d1t-jt47
title: NWD585842.recab.cram.crai

description: TOPMed: NWD585842 <br>HapMap_1000G: HG01110 <br>Seq Ctr: Baylor <br>File:  CRAI index file
DOI: 10.23725/6skp-j559
title: NWD580039.recab.cram.crai

description: TOPMed: NWD580039 <br>HapMap_1000G: NA12878 <br>Seq Ctr: Broad <br>File:  CRAI index file
DOI: 10.23725/cred-c049
title: NWD614349.recab.cram.crai

description: TOPMed: NWD614349 <br>HapMap_1000G: HG01111 <br>Seq Ctr: WashU <br>File:  CRAI index file
DOI: 10.23725/cx4x-v625
title: NWD585842.recab.cram

description: TOPMed: NWD585842 <br>HapMap_1000G: HG01110 <br>Seq Ctr: Baylor <br>File:  CRAM file
DOI: 10.23725/t3kc-f170
title: NWD626020.recab.cram

description: TOPMed: NWD626020 <br>HapMap_1000G: NA19238 <br>Seq Ctr: UW <br>File:  CRAM file
DOI: 10.23725/x79k-2v94
title: NWD578584.recab.cram.crai

description: TOPMed: NWD578584 <br>HapMap_1000G: NA19238 <br>Seq Ctr: Broad <br>File:  CRAI index file
DOI: 10.23725/xqrg-nt57
title: NWD611564.recab.cram

description: TOPMed: NWD611564 <br>HapMap_1000G: NA19238 <br>Seq Ctr: Baylor <br>File:  CRAM file
DOI: 10.25549/usctheses-c3-170648
title: Page 138
DOI: 10.25549/usctheses-c3-170664
title: Page 154
DOI: 10.25549/usctheses-c3-177078
title: Page 83
DOI: 10.25549/usctheses-c3-196036
title: Cal-Earth comes

description: Bob Lien, Mark Reppert, and Lisa Starr are building earth domes using Super Adobe technology in San Bernardino County’s Mojave Desert. It’s a building method that uses only earth, bags, and barbed wire. The Super Adobe technique was developed by the California Institute of Earth Art and Architecture, a non-profit organization in the City of Hesperia. The organization’s original focus was to develop a way to build emergency and semi-permanent shelters in third world countries for people who have little access to resources. But it has now become a recent trend for alternative housing in Southern California. ❧ The documentary will explore the economic and environmental incentives that drove these three southern Californian residents to build residential domes. Interviews with experts such as the San Bernardino County Official from the Building and Safety Department and a professor and structural engineer from the University of Southern California describe how the owners must first comply with California’s rigorous building seismic codes for the construction to even begin. ❧ The purpose of this piece is to document the first Super Adobe domes builders in the United States who have been successful in complying with the United States and California’s building codes. It also touches upon the economic hardships that caused these American owners to build an earthen home that’s intended to be used for third world refugees.
DOI: 10.25549/usctheses-c3-89098
title: Stability of a stochastic predator prey model

description: We consider a stochastic analog of the Lotka-Volterra model for the population dynamics of two interacting species, predator and prey.  We investigate the long time behavior of the system, and show that, under certain conditions on the model parameters, asymptotic stability obtains.  We provide a novel proof of the existing result of Rudnicki, emphasizing the use of the critical conditions.  We split the first quadrant into regions, and through separate analyses, demonstrate that the predator prey process recurs to a compact set.  Then a construction of Khasminskii and others provides for the existence of an invariant measure.
DOI: 10.23725/0db7-tw42
title: NWD626736.recab.cram.crai

description: TOPMed: NWD626736 <br>HapMap_1000G: NA19238 <br>Seq Ctr: Broad <br>File:  CRAI index file
DOI: 10.23725/3xh6-bq64
title: NWD626020.recab.cram.crai

description: TOPMed: NWD626020 <br>HapMap_1000G: NA19238 <br>Seq Ctr: UW <br>File:  CRAI index file
DOI: 10.23725/978d-np53
title: NWD635737.recab.cram

description: TOPMed: NWD635737 <br>HapMap_1000G: HG01111 <br>Seq Ctr: NYGC <br>File:  CRAM file
DOI: 10.23725/cen9-b575
title: NWD651125.recab.cram.crai

description: TOPMed: NWD651125 <br>HapMap_1000G: NA19238 <br>Seq Ctr: Baylor <br>File:  CRAI index file
DOI: 10.23725/ekv0-1426
title: NWD635737.recab.cram.crai

description: TOPMed: NWD635737 <br>HapMap_1000G: HG01111 <br>Seq Ctr: NYGC <br>File:  CRAI index file
DOI: 10.23725/rt69-c980
title: NWD626736.recab.cram

description: TOPMed: NWD626736 <br>HapMap_1000G: NA19238 <br>Seq Ctr: Broad <br>File:  CRAM file
DOI: 10.23725/vscr-hf34
title: NWD614349.recab.cram

description: TOPMed: NWD614349 <br>HapMap_1000G: HG01111 <br>Seq Ctr: WashU <br>File:  CRAM file
DOI: 10.25549/usctheses-c3-160584
title: Page 66
DOI: 10.25549/usctheses-c3-176792
title: Page 10
DOI: 10.25549/usctheses-c3-203899
title: Effects of course experiences on self-efficacy in teaching math: a case study of preservice elementary teachers

description: Elementary students’ math achievement in the United States is mediocre in comparison to that of students in other countries. Students in California perform below the national average on standardized tests. Reform efforts in mathematics education aim at proficiency in fact fluency, procedural knowledge, conceptual knowledge, and application of skills in problem solving. Teacher education programs have the responsibility of aligning goals of reform efforts and preservice teacher beliefs to current reforms in mathematics and preparing them to teach mathematics to students in grades K-6. This dissertation studies preservice teachers’ perceptions of self-efficacy in teaching math procedurally and conceptually. Participants were students at the University of Southern California enrolled in EDUC 566 – Pedagogy A, K-6 Mathematics and Science Teaching from a Sociocultural Perspective during the spring 2011 semester. A mixed-methods design was implemented. Instruments included pre- and post-condition surveys and two written reflection tasks. Despite reports of learning math through procedural methods in childhood, the course successfully increased preservice teachers’ self-efficacy to teach procedural and conceptual math in elementary classrooms. Sixteen percent more preservice teachers preferred teaching math procedurally than conceptually and 50% more preferred teaching math in a K-2 classroom than in a 3-6 classroom. Preservice teachers found watching Integrating Mathematics and Pedagogy (IMAP) videos and using Mediated Learning Experiences to be most valued in preparation to teach conceptual math. All participants felt more prepared to teach math and expressed a value and responsibility for teaching conceptual math.
DOI: 10.23725/08qw-td42
title: NWD651283.recab.cram

description: TOPMed: NWD651283 <br>HapMap_1000G: NA19238 <br>Seq Ctr: Baylor <br>File:  CRAM file
DOI: 10.23725/0eqs-8441
title: NWD651359.recab.cram

description: TOPMed: NWD651359 <br>HapMap_1000G: NA19238 <br>Seq Ctr: NYGC <br>File:  CRAM file
DOI: 10.23725/6tk5-ze65
title: NWD652050.recab.cram.crai

description: TOPMed: NWD652050 <br>HapMap_1000G: NA12878 <br>Seq Ctr: Broad <br>File:  CRAI index file
DOI: 10.23725/c7s8-9z14
title: NWD651359.recab.cram.crai

description: TOPMed: NWD651359 <br>HapMap_1000G: NA19238 <br>Seq Ctr: NYGC <br>File:  CRAI index file
DOI: 10.23725/k9g8-kx35
title: NWD651283.recab.cram.crai

description: TOPMed: NWD651283 <br>HapMap_1000G: NA19238 <br>Seq Ctr: Baylor <br>File:  CRAI index file
DOI: 10.23725/tehp-7g31
title: NWD652050.recab.cram

description: TOPMed: NWD652050 <br>HapMap_1000G: NA12878 <br>Seq Ctr: Broad <br>File:  CRAM file
DOI: 10.23725/xpm2-3n87
title: NWD672633.recab.cram.crai

description: TOPMed: NWD672633 <br>HapMap_1000G: NA19238 <br>Seq Ctr: UW <br>File:  CRAI index file
DOI: 10.23725/zzsc-fp51
title: NWD651125.recab.cram

description: TOPMed: NWD651125 <br>HapMap_1000G: NA19238 <br>Seq Ctr: Baylor <br>File:  CRAM file
DOI: 10.25549/usctheses-c3-217271
title: Fidelity approach to topological quantum phase transitions

description: This dissertation puts forward the concept of fidelity as a way to understand and characterize quantum phase transitions involving topological phases. It lies at the interphase between Condensed Matter and Quantum Phase Transitions. ❧ We find that the fidelity metric, which characterizes the degree of distinghuishability between two quantum states, can serve as a useful tool in the understanding of transitions involving topological phases. ❧ The methodology does not require a complete knowledge of the physical mechanism involved in the occurrence of the critical point, such as the identification of a local order parameter and a symmetry breaking mechanism, the fundamental pillars of critical phenomena. Topological phases are unique in that they cannot be classified under these methodologies, due to their lack of local order parameters. It is one of the purposes of this thesis to understand how well we can characterize the phase boundaries between these phases using fidelity concepts. ❧ In the first part, we introduce two quantum models that exhibit a phase transition between an ordered and a topological phase, as quantified by the topological entanglement entropy. In the thermodynamic limit, the different components of the fidelity metric exhibit a divergence, signalling the occurrence of the critical point. ❧ In the second part, we introduce models that have phase boundaries between two distinct topological phases, and we show that the fidelity is successful at identifying the occurrence of a critical region. Moreover, a finite size scaling analysis is carried out, from which we determine the value of critical exponents.
DOI: 10.23725/1tmd-yz02
title: NWD684137.recab.cram.crai

description: TOPMed: NWD684137 <br>HapMap_1000G: HG01249 <br>Seq Ctr: Broad <br>File:  CRAI index file
DOI: 10.23725/237k-6e36
title: NWD704221.recab.cram

description: TOPMed: NWD704221 <br>HapMap_1000G: NA12878 <br>Seq Ctr: Broad <br>File:  CRAM file
DOI: 10.23725/2d90-ab48
title: NWD684137.recab.cram

description: TOPMed: NWD684137 <br>HapMap_1000G: HG01249 <br>Seq Ctr: Broad <br>File:  CRAM file
DOI: 10.23725/8n90-3e21
title: NWD697767.recab.cram

description: TOPMed: NWD697767 <br>HapMap_1000G: NA12878 <br>Seq Ctr: Baylor <br>File:  CRAM file
DOI: 10.23725/fxsb-2w25
title: NWD704221.recab.cram.crai

description: TOPMed: NWD704221 <br>HapMap_1000G: NA12878 <br>Seq Ctr: Broad <br>File:  CRAI index file
DOI: 10.23725/mtsf-4c93
title: NWD677194.recab.cram

description: TOPMed: NWD677194 <br>HapMap_1000G: NA12878 <br>Seq Ctr: Broad <br>File:  CRAM file
DOI: 10.23725/xmxs-kk09
title: NWD677194.recab.cram.crai

description: TOPMed: NWD677194 <br>HapMap_1000G: NA12878 <br>Seq Ctr: Broad <br>File:  CRAI index file
DOI: 10.23725/ysw9-tx15
title: NWD672633.recab.cram

description: TOPMed: NWD672633 <br>HapMap_1000G: NA19238 <br>Seq Ctr: UW <br>File:  CRAM file
DOI: 10.25549/usctheses-c3-141454
title: Page 187
DOI: 10.25549/usctheses-c3-204128
title: Comparison of cationic and amphipathic cell penetrating peptides in the internalization and intracellular localization of cytochrome c conjugates

description: In this project, we evaluated the cellular uptake, cytosolic and nuclear transport, and apoptotic function of cytochrome c following conjugation with the amphipathic peptide MAP, via a reducible disulfide or non-reducible thioether cross-linkage. Furthermore, the transport and biological effectiveness of the newly developed cytochrome c-MAP conjugates were compared with the previously studied cytochrome c- oligoarginine conjugates. The results in this project indicate that, similar to free MAP and R8, internalization of the MAP-cargo conjugate is significantly higher than that of the R8-cargo conjugate, and that cytochrome c-MAP retains high vesicular and nuclear localization in both HEK293 and HeLa cell lines. Moreover, preservation of the intact MAP-cargo structure, either by using a stable thioether linkage or by inhibiting disulfide reduction, results in increased nuclear delivery through a vesicle-dependent MAP- mediated pathway, while conjugation with a reducible disulfide linkage results in delivery to the cytosol. ❧ The reducible cytochrome c-MAP conjugate initiates apoptosis in proteasome- inhibited HeLa cells. The non-reducible cytochrome c-MAP conjugate is not biologically active. These results suggest that reduction of the disulfide-linked conjugate at the cell surface and/or in the endosomes is necessary for cytochrome c transport to the cytoplasm. However, the proteasome degradation pathway regulates protein accumulation and apoptosis. Presumably, the initiation of apoptosis is mediated by cytosolic cytochrome c. These cytochrome c-MAP and cytochrome c-R8 apoptosis data reveal that although the fraction of cytosolic delivery of MAP is lower than R8, it may still be a more effective CPP carrier for cytosolic cargo since the total internalization of MAP is significantly higher. However, cross-linker reduction of the MAP-cargo conjugates is an important consideration in using MAP for cytoplasmic and nuclear delivery.