Ultra-Wideband Transceiver Design And Optimization

University of Minnesota Ph.D. dissertation. July 2015. Major: Electrical Engineering. Advisor: Ramesh Harjani. 1 computer file (PDF); xiii, 128 pages.The technology landscape has quickly changed over the last few years. Developments in personal area networks, IC technology, DSP processing and bio-medical devices have enabled the integration of short range communication into low cost personal health care solutions. Newer technologies and solutions are being developed to cater to the personal operating space(POS) and body area networks(BAN). Health care is driving towards using multiple sensor and therapeutic nodes inside the POS. Technology has enabled remote patient care where the patient has low cost on-body wearables that allow the patient/physician to access vital signs without the patient physically visiting the clinic. Big semiconductor giants want to move into the wearable health monitor space. Along with the developments in fitness based health wearables, there has been a lot of interest towards developing BAN devices catering to the 'mission-critical' wearables and implants. Hearing aids, EKG monitors, neurostimulators are some examples. This work explores the use of the 802.15 ulta wideband (UWB) standard for designing a radio to operate in the a wireless sensor network in the BAN. The specific application targeted is a hearing aid. However, the design in this work is capable of working in a low power low range application with the ability to have multiple data rates ranging from a few kHz to 10's of MHz. The first radio designed by Marconi using spark-gap transmitters was an impulse radio (IR). The IR UWB technology boasts of low power, low cost, high data rates, multiple channels, simultaneous networking, the ability to carry information through obstacles that more limited bandwidths cannot, and also potentially lower complexity hardware design. The inherent timing accuracy associated with the technology gives UWB transmissions immunity to multipath fading and are hence make them more suitable for a cluttered indoor environment. The key difference with the traditional narrowband transceiver is that instead of using continuous wave (CW) transmission, impulses in time are used. The timing accuracy associated with these impulses require synchronization in time, rather than synchronization in frequency for carrier-based CW systems. A complete fully integrated system is presented in thesis. This work presents a low-power noncoherent IR UWB transceiver operating at 5GHz in 0.13um CMOS. A fully-digital transmitter generates a shaped output pulse of 1GHz 3-dB bandwidth. DLLs provide a PVT-tolerant time-step resolution of 1ns over the entire symbol period and regulate the pulse generator center frequency. The transmitter outputs -31dBm (0.88pJ/pulse at 1Mpulse/s) with a dynamic (energy) efficiency of 16pJ/pulse. The transmit out pulse is FCC part 15 compliant over process voltage and temperature (PVT) variations. The transmitter is semi-compliant with IEEE 802.15.6 and IEEE 802.15.4 standards and will become completely compliant with minor modifications. The receiver presented in this work is a non-coherent energy detect IR UWB receiver. The receiver has an on-chip transformer preceding the LNA, which is followed by a super-regenerative amplifier (SRA), envelope detector, sample-and-holds, and a bank of comparators. The design is SRA based energy-detection receiver. Measured results show a receiver efficiency of 0.32nJ/bit at 20.8Mb/s and operation with inputs as low as -70dBm. The SRA based energy-detection receiver utilizes early/late detection for a two-step baseband synchronization algorithm. An integrated solution to the issue of synchronization is also proposed. The system proposed is capable of synchronization and tracking control. The system in this work utilizes early/late detection for a two-step baseband synchronization algorithm. The algorithm is implemented in Matlab and the time to synchronization is observed to be between 250us to a few couple of ms. Measurements have also been made using the receiver and manually implementing the algorithm. This work addresses all aspects time synchronization in an IR transceiver. The initial mismatch is addressed by two methods. Beyond the initial synchronization, the system presented in this system is also capable of tracking. This would mean that once the transceiver has been synchronized, the timing generation would continue to track the phase and the frequency changes depending upon crystal drift over time or movement between the receiver and the transmitter. A test was also performed on the complete transceiver system with two radios talking to each other over a highly attenuated wired channel

Understanding photothermal interactions will help expand production range and increase genetic diversity of lentil (Lens culinaris Medik.)

Lentil is a staple in many diets around the world and growing in popularity as a quick-cooking, nutritious, plant-based source of protein in the human diet. Lentil varieties are usually grown close to where they were bred. Future climate change scenarios will result in increased temperatures and shifts in lentil crop production areas, necessitating expanded breeding efforts. We show how we can use a daylength and temperature model to identify varieties most likely to succeed in these new environments, expand genetic diversity, and give plant breeders additional knowledge and tools to help mitigate these changes for lentil producers.This research was conducted as part of the ‘Application of Genomics to Innovation in the Lentil Economy (AGILE)' project funded by Genome Canada and managed by Genome Prairie. We are grateful for the matching financial support from the Saskatchewan Pulse Growers, Western Grains Research Foundation, the Government of Saskatchewan, and the University of Saskatchewan. We acknowledge the support from our international partners: University of Basilicata (UNIBAS) in Italy; Institute for Sustainable Agriculture (IAS) in Spain; Center for Agriculture Research in the Dry Areas (ICARDA) in Morocco, India and Bangladesh; Local Initiatives for Biodiversity, Research and Development (LI-BIRD) in Nepal; and United States Department of Agriculture (USDA CRIS Project 5348-21000-017-00D) in the USA, for conducting field experiments in their respective countries

Agro-morphological characterization of lentil germplasm of Indian National Genebank and Development of a core set for efficient utilization in lentil improvement programs

Lentil (Lens culinaris Medik.) is one of the major cool-season pulse crops worldwide. Its increasing demand as a staple pulse has led to the unlocking of diverse germplasm collections conserved in the genebanks to develop its superior varieties. The Indian National Genebank, housed at the Indian Council of Agricultural Research (ICAR)-National Bureau of Plant Genetic Resources, New Delhi, India, currently has 2,324 accessions comprising 1,796 indigenous and 528 exotic collections. This study was conducted to unveil the potential of lentil germplasm by assessing its agro-morphological characteristics and diversity, identifying trait-specific germplasm, and developing a core set. The complete germplasm set was characterized for two years, i.e., 2017-2018 and 2018-2019, and data were recorded on 26 agro-morphological traits. High phenotypic variability was observed for nine quantitative and 17 qualitative traits. A core set comprising 170 accessions (137 Indian and 33 exotic) was derived based on the characterization data as well as geographical origin using a heuristic method and PowerCore software. This core set was found to be sufficiently diverse and representative of the entire collection based on the comparison made using Shannon-Weaver diversity indices and χ2 test. These results were further validated by summary statistics. The core set displayed high genetic diversity as evident from a higher coefficient of variance in comparison to the entire set for individual traits and overall Shannon-Weaver diversity indices (entire: 1.054; core: 1.361). In addition, the total variation explained by the first three principal components was higher in the core set (70.69%) than in the entire collection (68.03%). Further, the conservation of pairwise correlation values among descriptors in the entire and core set reflected the maintenance of the structure of the whole set. Based on the results, this core set is believed to represent the entire collection, completely. Therefore, it constitutes a potential set of germplasm that can be used in the genetic enhancement of lentils

Testing mutual exclusivity of ETS rearranged prostate cancer

Prostate cancer is a clinically heterogeneous and multifocal disease. More than 80% of patients with prostate cancer harbor multiple geographically discrete cancer foci at the time of diagnosis. Emerging data suggest that these foci are molecularly distinct consistent with the hypothesis that they arise as independent clones. One of the strongest arguments is the heterogeneity observed in the status of E26 transformation specific (ETS) rearrangements between discrete tumor foci. The clonal evolution of individual prostate cancer foci based on recent studies demonstrates intertumoral heterogeneity with intratumoral homogeneity. The issue of multifocality and interfocal heterogeneity is important and has not been fully elucidated due to lack of the systematic evaluation of ETS rearrangements in multiple tumor sites. The current study investigates the frequency of multiple gene rearrangements within the same focus and between different cancer foci. Fluorescence in situ hybridization (FISH) assays were designed to detect the four most common recurrent ETS gene rearrangements. In a cohort of 88 men with localized prostate cancer, we found ERG, ETV1, and ETV5 rearrangements in 51% (44/86), 6% (5/85), and 1% (1/86), respectively. None of the cases demonstrated ETV4 rearrangements. Mutual exclusiveness of ETS rearrangements was observed in the majority of cases; however, in six cases, we discovered multiple ETS or 5′ fusion partner rearrangements within the same tumor focus. In conclusion, we provide further evidence for prostate cancer tumor heterogeneity with the identification of multiple concurrent gene rearrangements

HER2-enriched subtype and novel molecular subgroups drive aromatase inhibitor resistance and an increased risk of relapse in early ER+/HER2+ breast cancer

BACKGROUND: Oestrogen receptor positive/ human epidermal growth factor receptor positive (ER+/HER2+) breast cancers (BCs) are less responsive to endocrine therapy than ER+/HER2- tumours. Mechanisms underpinning the differential behaviour of ER+HER2+ tumours are poorly characterised. Our aim was to identify biomarkers of response to 2 weeks’ presurgical AI treatment in ER+/HER2+ BCs. METHODS: All available ER+/HER2+ BC baseline tumours (n=342) in the POETIC trial were gene expression profiled using BC360™ (NanoString) covering intrinsic subtypes and 46 key biological signatures. Early response to AI was assessed by changes in Ki67 expression and residual Ki67 at 2 weeks (Ki672wk). Time-To-Recurrence (TTR) was estimated using Kaplan-Meier methods and Cox models adjusted for standard clinicopathological variables. New molecular subgroups (MS) were identified using consensus clustering. FINDINGS: HER2-enriched (HER2-E) subtype BCs (44.7% of the total) showed poorer Ki67 response and higher Ki672wk (p<0.0001) than non-HER2-E BCs. High expression of ERBB2 expression, homologous recombination deficiency (HRD) and TP53 mutational score were associated with poor response and immune-related signatures with High Ki672wk. Five new MS that were associated with differential response to AI were identified. HER2-E had significantly poorer TTR compared to Luminal BCs (HR 2.55, 95% CI 1.14–5.69; p=0.0222). The new MS were independent predictors of TTR, adding significant value beyond intrinsic subtypes. INTERPRETATION: Our results show HER2-E as a standardised biomarker associated with poor response to AI and worse outcome in ER+/HER2+. HRD, TP53 mutational score and immune-tumour tolerance are predictive biomarkers for poor response to AI. Lastly, novel MS identify additional non-HER2-E tumours not responding to AI with an increased risk of relapse

Complexation of NAC-Derived Peptide Ligands with the C‑Terminus of α‑Synuclein Accelerates Its Aggregation

Aggregation of α-synuclein (α-Syn) into neurotoxic oligomers and amyloid fibrils is suggested to be the pathogenic mechanism for Parkinson’s disease (PD). Recent studies have indicated that oligomeric species of α-Syn are more cytotoxic than their mature fibrillar counterparts, which are responsible for dopaminergic neuronal cell death in PD. Therefore, the effective therapeutic strategies for tackling aggregation-associated diseases would be either to prevent aggregation or to modulate the aggregation process to minimize the formation of toxic oligomers during aggregation. In this work, we showed that arginine-substituted α-Syn ligands, based on the most aggregation-prone sequence of α-Syn, accelerate the protein aggregation in a concentration-dependent manner. To elucidate the mechanism by which Arg-substituted peptides could modulate α-Syn aggregation kinetics, we performed surface plasmon resonance (SPR) spectroscopy, nuclear magnetic resonance (NMR) studies, and all-atom molecular dynamics (MD) simulation. The SPR analysis showed a high binding potency of these peptides with α-Syn but one that was nonspecific in nature. The two-dimensional NMR studies suggest that a large stretch within the C-terminus of α-Syn displays a chemical shift perturbation upon interacting with Arg-substituted peptides, indicating C-terminal residues of α-Syn might be responsible for this class of peptide binding. This is further supported by MD simulation studies in which the Arg-substituted peptide showed the strongest interaction with the C-terminus of α-Syn. Overall, our results suggest that the binding of Arg-substituted ligands to the highly acidic C-terminus of α-Syn leads to reduced charge density and flexibility, resulting in accelerated aggregation kinetics. This may be a potentially useful strategy while designing peptides, which act as α-Syn aggregation modulators

Not Available

Not AvailableLentil (Lens culinaris Medik.) is one of the major cool-season pulse crops worldwide. Its increasing demand as a staple pulse has led to the unlocking of diverse germplasm collections conserved in the genebanks to develop its superior varieties. The Indian National Genebank, housed at the Indian Council of Agricultural Research (ICAR)-National Bureau of Plant Genetic Resources, New Delhi, India, currently has 2,324 accessions comprising 1,796 indigenous and 528 exotic collections. This study was conducted to unveil the potential of lentil germplasm by assessing its agro-morphological characteristics and diversity, identifying trait-specific germplasm, and developing a core set. The complete germplasm set was characterized for two years, i.e., 2017–2018 and 2018–2019, and data were recorded on 26 agro-morphological traits. High phenotypic variability was observed for nine quantitative and 17 qualitative traits. A core set comprising 170 accessions (137 Indian and 33 exotic) was derived based on the characterization data as well as geographical origin using a heuristic method and PowerCore software. This core set was found to be sufficiently diverse and representative of the entire collection based on the comparison made using Shannon–Weaver diversity indices and χ2 test. These results were further validated by summary statistics. The core set displayed high genetic diversity as evident from a higher coefficient of variance in comparison to the entire set for individual traits and overall Shannon–Weaver diversity indices (entire: 1.054; core: 1.361). In addition, the total variation explained by the first three principal components was higher in the core set (70.69%) than in the entire collection (68.03%). Further, the conservation of pairwise correlation values among descriptors in the entire and core set reflected the maintenance of the structure of the whole set. Based on the results, this core set is believed to represent the entire collection, completely. Therefore, it constitutes a potential set of germplasm that can be used in the genetic enhancement of lentils.Not Availabl