Journal: Frontiers in Neuroscience

Article Title: A Versatile Hermetically Sealed Microelectronic Implant for Peripheral Nerve Stimulation Applications

doi: 10.3389/fnins.2021.681021

Figure Lengend Snippet: Stimulation control protocol: (A) Graphical user interface; (B) Four procedures for operating the implant from a host computer, with flowcharts on the wearable transmitter in each procedure; (C) Overall communication procedure between the host computer and the implant for establishing connection and setting stimulation parameters; (D) Structure of the data frames over the inductive link; (E) Block diagram of the stimulation control logic in the implant, with an example of changing stimulation parameters on-the-fly.

Article Snippet: Control interface , Matlab-based GUI for real-time stimulation control.

Techniques: Control, Blocking Assay

Journal: Frontiers in Neuroscience

Article Title: A Versatile Hermetically Sealed Microelectronic Implant for Peripheral Nerve Stimulation Applications

doi: 10.3389/fnins.2021.681021

Figure Lengend Snippet: Features and performance of the implant system.

Article Snippet: Control interface , Matlab-based GUI for real-time stimulation control.

Techniques: Encapsulation, Battery, Control

Journal: BMC Bioinformatics

Article Title: Using flux theory in dynamic omics data sets to identify differentially changing signals using DPoP

doi: 10.1186/s12859-024-05938-9

Figure Lengend Snippet: MATLAB App Based GUI DPoP: the distribution of derivatives at a point, as well as the distribution of slopes, is represented in the GUI on the top left. The inputs/user controls are at the bottom left. The list of signals with significantly positive and negative derivatives is in the column in the middle. The column section on the right displays the results of the GO term enrichment analysis applied to the list of significant signals, with respect to the population of signals. Controls are included in the GUI to select the statistical significance, the normalization factor, the GO database file, GO database field identifier, the first and final timepoint of interest in the regression, the first and final time point of interest within the regression, and the threshold for filtering based on noise or number of consecutive non-zero signals

Article Snippet: Fig. 7 MATLAB App Based GUI DPoP: the distribution of derivatives at a point, as well as the distribution of slopes, is represented in the GUI on the top left.

Techniques:

Journal: eLife

Article Title: Sloppy morphological tuning in identified neurons of the crustacean stomatogastric ganglion

doi: 10.7554/eLife.22352

Figure Lengend Snippet: Neurons were identified physiologically and then filled with Lucifer yellow. Following fixation and immunohistochemical amplification with a rabbit anti-Lucifer yellow primary antibody and an Alexa Fluor 488-tagged secondary antibody, each dye-fill was imaged at 63x magnification as a series of z-stacks that tiled the neuronal structure across the x-y plane (z-stacks contained slices at increments of ~0.5 µm). These z-stacks were stitched together with custom software written in MATLAB. The image stack of each full three-dimensional neuronal structure was then manually traced (image shown is a screenshot from the KNOSSOS platform). The three-dimensional skeletal structures were then converted to hoc files that could be analyzed with a custom quantitative morphology toolbox composed in Python. All conversion and analytical scripts are freely available on the Marder Lab Github repository. DOI: http://dx.doi.org/10.7554/eLife.22352.024

Article Snippet: These tile stacks were aligned and stitched with a GUI-based MATLAB tool ( ) available at https://github.com/marderlab Confocal_Stitching.

Techniques: Immunohistochemical staining, Amplification, Software