Hilbert-Huang Transform: biosignal analysis and practical implementation

Any system, however trivial, is subjected to data analysis on the signals it produces. Over the last 50 years the influx of new techniques and expansions of older ones have allowed a number of new applications, in a variety of fields, to be analysed and to some degree understood. One of the industries that is benefiting from this growth is the medical field and has been further progressed with the growth of interdisciplinary collaboration. From a signal processing perspective, the challenge comes from the complex and sometimes chaotic nature of the signals that we measure from the body, such as those from the brain and to some degree the heart. In this work we will make a contribution to dealing with such systems, in the form of a recent time-frequency data analysis method, the Hilbert-Huang Transform (HHT), and extensions to it. This thesis presents an analysis of the state of the art in seizure and heart arrhythmia detection and prediction methods. We then present a novel real-time implementation of the algorithm both in software and hardware and the motivations for doing so. First, we present our software implementation, encompassing realtime capabilities and identifying elements that need to be considered for practical use. We then translated this software into hardware to aid real-time implementation and integration. With these implementations in place we apply the HHT method to the topic of epilepsy (seizures) and additionally make contributions to heart arrhythmias and neonate brain dynamics. We use the HHT and some additional algorithms to quantify features associated with each application for detection and prediction. We also quantify significance of activity in such a way as to merge prediction and detection into one framework. Finally, we assess the real-time capabilities of our methods for practical use as a biosignal analysis tool

Band-edge Bilayer Plasmonic Nanostructure for Surface Enhanced Raman Spectroscopy

Spectroscopic analysis of large biomolecules is critical in a number of applications, including medical diagnostics and label-free biosensing. Recently, it has been shown that Raman spectroscopy of proteins can be used to diagnose some diseases, including a few types of cancer. These experiments have however been performed using traditional Raman spectroscopy and the development of the Surface enhanced Raman spectroscopy (SERS) assays suitable for large biomolecules could lead to a substantial decrease in the amount of specimen necessary for these experiments. We present a new method to achieve high local field enhancement in surface enhanced Raman spectroscopy through the simultaneous adjustment of the lattice plasmons and localized surface plasmon polaritons, in a periodic bilayer nanoantenna array resulting in a high enhancement factor over the sensing area, with relatively high uniformity. The proposed plasmonic nanostructure is comprised of two interacting nanoantenna layers, providing a sharp band-edge lattice plasmon mode and a wide-band localized surface plasmon for the separate enhancement of the pump and emitted Raman signals. We demonstrate the application of the proposed nanostructure for the spectral analysis of large biomolecules by binding a protein (streptavidin) selectively on the hot-spots between the two stacked layers, using a low concentration solution (100 nM) and we successfully acquire its SERS spectrum

Sub-microsecond thermal reconfiguration of silicon photonic devices

© 2009 IEEE. Personal use of this material is permitted. Permission from IEEE must be obtained for all other uses, in any current or future media, including reprinting/republishing this material for advertising or promotional purposes, creating new collective works, for resale or redistribution to servers or lists, or reuse of any copyrighted component of this work in other works.DOI: 10.1109/LEOS.2009.5343159Using the experimental data we show the possibility of sub-microsecond reconfiguration of silicon photonics microresonators through pulse shaping of micro-heater excitation. Also, a novel heater structure based on small microdisk resonators with sub-hundred-nanosecond reconfiguration speed is proposed and investigated theoretically

Sustained GHz oscillations in ultra-high Q silicon microresonators

© 2009 IEEE. Personal use of this material is permitted. Permission from IEEE must be obtained for all other uses, in any current or future media, including reprinting/republishing this material for advertising or promotional purposes, creating new collective works, for resale or redistribution to servers or lists, or reuse of any copyrighted component of this work in other works.DOI: 10.1109/LEOS.2009.5343287We report the experimental observation of long-sustained GHz electronic oscillations resulting from coupled electron-photon dynamics in ultra-high-Q Si microdisk resonators with CW pumping. Theoretical analysis identifies conditions for steady-state GHz oscillations while suppressing thermal oscillations

Influence of Cholecystokinin-8 on compound nerve action potentials from ventral gastric vagus in rats

Objective: Vagus Nerve Stimulation (VNS) has shown great promise as a potential therapy for a number of conditions, such as epilepsy, depression and for Neurometabolic Therapies, especially for treating obesity. The objective of this study was to characterize the left ventral subdiaphragmatic gastric trunk of vagus nerve (SubDiaGVN) and to analyze the influence of intravenous injection of gut hormone cholecystokinin octapeptide (CCK-8) on compound nerve action potential (CNAP) observed on the same branch, with the aim of understanding the impact of hormones on VNS and incorporating the methods and results into closed loop implant design. Methods: The cervical region of the left vagus nerve (CerVN) of male Wistar rats was stimulated with electric current and the elicited CNAPs were recorded on the SubDiaGVN under four different conditions: Control (no injection), Saline, CCK1 (100pmol/kg) and CCK2 (1000pmol/kg) injections. Results: We identified the presence of

Impact of RAS/RAF mutations on clinical and prognostic outcomes in metastatic colorectal cancer

Introduction: Early-activated RAS/RAF mutation status is a key molecular finding in colorectal cancer (CRC), while these mutations have been proposed as predictive and prognostic biomarkers. The present study has been designed as a longitudinal study to evaluate and summarize the different genotypes of metastatic CRC (mCRC), and assessing any association with the disease prognosis and clinicopathological characteristics. This study was performed in two main referral hospitals of Tabriz University of Medical Sciences, over three years (2016-2018). Methods: Mutations were detected by Idylla tests of KRAS/NRAS/BRAF among a total of 173 mCRCs, using surgically-resected specimens or biopsied samples. To evaluate the factors associated with overall survival (OS) and prognosis, the Cox proportional hazards model was used in two steps to estimate the outcome measures (hazard ratio, or HR) with a 95% confidence interval (CI). Results: The nominal 1 to 5-year OS rates were 78%, 65%, 55%, 46%, and 42%, respectively. KRAS mutations in codon 12 was an independent significant prognostic factor, as the patients with codon 12 mutations had a significantly lower OS (P Log-rank=0.049) and a higher hazard of mortality (HR=2.30; 95% CI: 0.95-5.58; P=0.066). Also, the mCRC patients with liver metastasis (HR=2.49; 95% CI: 1.49-12.52; P=0.002) and tumors of the distal colon (HR=3.36; 95% CI: 1.07-10.49; P=0.037) had a significantly worse prognosis. Conclusion: KRAS mutation in codon 12 was an independent significant poor prognostic factor, and patients with liver metastasis had a significantly worse prognosis. Routinely performing specific oncogenic tests may help improve the patients’ prognosis and life expectancy

Extracellular ph monitoring for use in closed-loop vagus nerve stimulation

Objective. Vagal nerve stimulation (VNS) has shown potential benefits for obesity treatment; however, current devices lack physiological feedback, which limit their efficacy. Changes in extracellular pH (pHe) have shown to be correlated with neural activity, but have traditionally been measured with glass microelectrodes, which limit their in vivo applicability. Approach. Iridium oxide has previously been shown to be sensitive to fluctuations in pH and is biocompatible. Iridium oxide microelectrodes were inserted into the subdiaphragmatic vagus nerve of anaesthetised rats. Introduction of the gut hormone cholecystokinin (CCK) or distension of the stomach was used to elicit vagal nerve activity. Main results. Iridium oxide microelectrodes have sufficient pH sensitivity to readily detect changes in pHe associated with both CCK and gastric distension. Furthermore, a custom-made Matlab script was able to use these changes in pHe to automatically trigger an implanted VNS device. Significance. This is the first study to show pHe changes in peripheral nerves in vivo. In addition, the demonstration that iridium oxide microelectrodes are sufficiently pH sensitive as to measure changes in pHe associated with physiological stimuli means they have the potential to be integrated into closed-loop neurostimulating devices

Effects of Sesame Seed Supplementation on Lipid Profile and Oxidative Stress Biomarkers in Patients with Knee Osteoarthritis

Background: This study was designed to assess the effect of sesame seed on lipid profile and oxidative stress biomarkers in knee osteoarthritis (OA) patients. Methods: Fifty patients with knee OA were allocated into two groups receiving 40 g of sesame seed daily along with standard medical therapy (n=25) or standard treatment (n=25) for two months. Serum total antioxidant capacity, malondialdehyde (MDA) and lipid profile (total cholesterol (TC), HDL-cholesterol, LDL-cholesterol, triglycerides) were measured. Results: After the intervention period two months of study, serum TC, LDL-cholesterol and MDA decreased significantly in the sesame group (P0.05). There was no significant difference in pre and post-treatment values of lipid profile and oxidative parameters between the two groups (P>0.05). Conclusion: Current study showed a positive effect of sesame seed in improving lipid profile and oxidative stress in patients with knee OA and indicated the fact that sesame seed might be of help to reduce oxidative stress in OA patients