ProbeInterface: a unified framework for probe handling in extracellular electrophysiology

Recording neuronal activity with penetrating extracellular multi-channel electrode arrays, more commonly known as neural probes, is one of the most widespread approaches to probe neuronal activity. Despite a plethora of available extracellular probe designs, the time-consuming process of mapping of electrode channel order and relative geometries, as required by spike-sorting software is invariably left to the end-user. Consequently, this manual process is prone to mis-mapping mistakes, which in turn lead to undesirable spike-sorting errors and inefficiencies.Here we introduce ProbeInterface, an open-source project that aims to unify neural probe metadata descriptions by removing the manual step of probe mapping prior to spike-sorting for the analysis of extracellular neural recordings. ProbeInterface is first of all a Python API, which enables users to create and visualize probes and probe groups at any required complexity level. Second, ProbeInterface facilitates the generation of comprehensive wiring description ina reproducible fashion for any specific data-acquisition setup, which usually involves the use of a recording probe, a headstage, adapters, and an acquisition system. Third, we collaborate with probe manufacturers to compile an open library of available probes, which can be downloaded at run time using our Python API. Finally, with ProbeInterface we define a file format for probe handling which includes all necessary information for a FAIR probe description and is compatiblewith and complementary to other open standards in neuroscience.

Assessment of the Use of Multi-Channel Organic Electrodes to Record ENG on Small Nerves: Application to Phrenic Nerve Burst Detection

Effective closed-loop neuromodulation relies on the acquisition of appropriate physiological control variables and the delivery of an appropriate stimulation signal. In particular, electroneurogram (ENG) data acquired from a set of electrodes applied at the surface of the nerve may be used as a potential control variable in this field. Improved electrode technologies and data processing methods are clearly needed in this context. In this work, we evaluated a new electrode technology based on multichannel organic electrodes (OE) and applied a signal processing chain in order to detect respiratory-related bursts from the phrenic nerve. Phrenic ENG (pENG) were acquired from nine Long Evans rats in situ preparations. For each preparation, a 16-channel OE was applied around the phrenic nerve’s surface and a suction electrode was applied to the cut end of the same nerve. The former electrode provided input multivariate pENG signals while the latter electrode provided the gold standard for data analysis. Correlations between OE signals and that from the gold standard were estimated. Signal to noise ratio (SNR) and ROC curves were built to quantify phrenic bursts detection performance. Correlation score showed the ability of the OE to record high-quality pENG. Our methods allowed good phrenic bursts detection. However, we failed to demonstrate a spatial selectivity from the multiple pENG recorded with our OE matrix. Altogether, our results suggest that highly flexible and biocompatible multi-channel electrode may represent an interesting alternative to metallic cuff electrodes to perform nerve bursts detection and/or closed-loop neuromodulation.

Current Stimulation of the Midbrain Nucleus in Pigeons for Avian Flight Control

A number of research attempts to understand and modulate sensory and motor skills that are beyond the capability of humans have been underway. They have mainly been expounded in rodent models, where numerous reports of controlling movement to reach target locations by brain stimulation have been achieved. However, in the case of birds, although basic research on movement control has been conducted, the brain nuclei that are triggering these movements have yet to be established. In order to fully control flight navigation in birds, the basic central nervous system involved in flight behavior should be understood comprehensively, and functional maps of the birds’ brains to study the possibility of flight control need to be clarified. Here, we established a stable stereotactic surgery to implant multi-wire electrode arrays and electrically stimulated several nuclei of the pigeon’s brain. A multi-channel electrode array and a wireless stimulation system were implanted in thirteen pigeons. The pigeons' flight trajectories on electrical stimulation of the cerebral nuclei were monitored and analyzed by a 3D motion tracking program to evaluate the behavioral change, and the exact stimulation site in the brain was confirmed by the postmortem histological examination. Among them, five pigeons were able to induce right and left body turns by stimulating the nuclei of the tractus occipito-mesencephalicus (OM), nucleus taeniae (TN), or nucleus rotundus (RT); the nuclei of tractus septo-mesencephalicus (TSM) or archistriatum ventrale (AV) were stimulated to induce flight aviation for flapping and take-off with five pigeons.

Manufacturable 32-Channel Cochlear Electrode Array and Preliminary Assessment of Its Feasibility for Clinical Use

(1) Background: In this study, we introduce a manufacturable 32-channel cochlear electrode array. In contrast to conventional cochlear electrode arrays manufactured by manual processes that consist of electrode-wire welding, the placement of each electrode, and silicone molding over wired structures, the proposed cochlear electrode array is manufactured by semi-automated laser micro-structuring and a mass-produced layer-by-layer silicone deposition scheme similar to the semiconductor fabrication process. (2) Methods: The proposed 32-channel electrode array has 32 electrode contacts with a length of 24 mm and 0.75 mm spacing between contacts. The width of the electrode array is 0.45 mm at its apex and 0.8 mm at its base, and it has a three-layered arrangement consisting of a 32-channel electrode layer and two 16-lead wire layers. To assess its feasibility, we conducted an electrochemical evaluation, stiffness measurements, and insertion force measurements. (3) Results: The electrochemical impedance and charge storage capacity are 3.11 ± 0.89 kOhm at 1 kHz and 5.09 mC/cm2, respectively. The V/H ratio, which indicates how large the vertical stiffness is compared to the horizontal stiffness, is 1.26. The insertion force is 17.4 mN at 8 mm from the round window, and the maximum extraction force is 61.4 mN. (4) Conclusions: The results of the preliminary feasibility assessment of the proposed 32-channel cochlear electrode array are presented. After further assessments are performed, a 32-channel cochlear implant system consisting of the proposed 32-channel electrode array, 32-channel neural stimulation and recording IC, titanium-based hermetic package, and sound processor with wireless power and signal transmission coil will be completed.

Advancing Directional Deep Brain Stimulation Array Technology

The degree to which deep brain stimulation (DBS) therapy can effectively treat various brain disorders depends on how well one can selectively stimulate one or more axonal pathways within the brain. There is rapidly growing clinical interest in DBS lead implant designs with electrode arrangements that can better target axonal pathways of interest, especially in cases where the optimal target is immediately adjacent to a pathway that when stimulated will elicit adverse side effects. Numerical modeling has demonstrated that DBS leads with four radially segmented electrodes provide the best balance of directional targeting capability while minimizing the overall number of electrode contacts [1]. Here, we present a novel 4×4 DBS lead (16-channel electrode array) with the same form factor and materials as current 4 or 8-channel FDA-approved DBS leads. Electrode impedance spectroscopy was performed for three of these 4×4 DBS leads showing reliable electrode impedances before and after implantation within the brain.

Multichannel Surface EMG Decomposition Based on Measurement Correlation and LMMSE

A method based on measurement correlation (MC) and linear minimum mean square error (LMMSE) for multichannel surface electromyography (sEMG) signal decomposition was developed in this study. This MC-LMMSE method gradually and iteratively increases the correlation between an optimized vector and a reconstructed matrix that is correlated with the measurement matrix. The performance of the proposed MC-LMMSE method was evaluated with both simulated and experimental sEMG signals. Simulation results show that the MC-LMMSE method can successfully reconstruct up to 53 innervation pulse trains with a true positive rate greater than 95%. The performance of the MC-LMMSE method was also evaluated using experimental sEMG signals collected with a 64-channel electrode array from the first dorsal interosseous muscles of three subjects at different contraction levels. A maximum of 16 motor units were successfully extracted from these multichannel experimental sEMG signals. The performance of the MC-LMMSE method was further evaluated with multichannel experimental sEMG data by using the “two sources” method. The large population of common MUs extracted from the two independent subgroups of sEMG signals demonstrates the reliability of the MC-LMMSE method in multichannel sEMG decomposition.

Development LVG GLS Geolectrical Instrument for Monitoring Near Surface Geohazard

This paper was presented in The 3rd Padjadjaran International Physics Symposium 2017, Holiday-Inn Hotel, Bandung , 14-15 November 2017, Department of Physics Universitas Padjadjaran. Authors: Prihadi Sumintadireja1, Ihsan Imaduddin2,4, Wahyu Srigutomo2, Enjang Jaenal Mustopa2, Diky Irawan3, Ihsanuddin A. Lubis3. Abstract: This paper demonstrated a new geolectrical equipment of LVG GLS multi channel , which as part of Laboratory of Application and Geosciences Modeling research, which funded by Institut Teknologi Bandung. Initially, the LVG GLS equipment is designed for delineating geothermal area by mise a la masse configuration. Furthermore, the application is plan to modify for geohazard study, since many landslide occurrence without clear explanation about the involving process due to lack data measurement. The ability of equipment is able to measure resistivity of subsurface condition in real time and continuous. Therefore, spatial and temporal data for monitoring vulnerable landslide area, which identified by geological mapping can be visualized to mitigate the geohazard area more precisely. The simultaneous 80 channel electrode measurement can reduced inhomogeneity of spontaneous potential value, which change by time interval.