regularized convolution matrix approach  (MathWorks Inc)

Journal: Cell reports

Article Title: Glioma-Induced Alterations in Neuronal Activity and Neurovascular Coupling during Disease Progression

doi: 10.1016/j.celrep.2020.03.064

Figure Lengend Snippet: (A) ROIs chosen using k-means clustering to correspond approximately to motor, forepaw, hindpaw, and whisker regions (1–4) overlaid on raw GCaMP images from between 11 and 32 DPI (mouse 2). Insets show GCaMP- and HbT-averaged whisker response maps to right tactile whisker stimuli, averaged after exclusion of trials in which the mouse ran (see ). (B) Averaged neural and hemodynamic responses in the ROIs indicated in (A) for each DPI (mouse 2). Note differing amplitude scales for each ROI. Shaded error bounds show SEM. (C) Hemodynamic response function (HRF) deconvolution results for each ROI and DPI (mouse 2). Here, all plots are shown on the same y axis scale, in most cases demonstrating a consistent relationship between %GCaMP signal change and micron ΔHb changes, despite the more variable amplitudes of the raw responses in (B). Notable exceptions are seen in tumor-infiltrated regions, indicated by black arrows. The numbers in color indicate the correlation coefficient between the original data and the HRF convolution fit. (D) Summary metric calculated as the integral of the first 1.8 s of the HRF (relative to t = 0) across days for each mouse (columns) for ROIs in the unaffected whisker regions (inset image, regions a and c). (E) Results for frontal ROIs (regions c and d), with “d” corresponding to the tumor in each case. A progressive trend of increasing [HbR] and decreasing [HbO] within the tumor HRF is seen in all mice (arrows). See and for further results in mice 1 and 3.

Article Snippet: Deconvolution was performed using a regularized convolution matrix approach in MATLAB ( ).

Techniques: Whisker Assay

Journal: Cell reports

Article Title: Glioma-Induced Alterations in Neuronal Activity and Neurovascular Coupling during Disease Progression

doi: 10.1016/j.celrep.2020.03.064

Figure Lengend Snippet: (A) Raw fluorescence image marked with ROIs. Bar, 2 mm. (B) Time series of seizure activity for both GCaMP6f and hemodynamics in three regions indicated in (A). Vertical axes are consistent between plots. (C and D) Time series of seizure activity for both GCaMP6f and hemodynamics for non-tumor (i) and tumor (ii) ROIs indicated in (A). Green dashed lines in (Ci) and (Cii) show predicted change in HbT using convolution of the GCaMP signal with HRFs shown in (Di) and (Dii), derived from the four initial interictal events (indicated with asterisks) for the non-tumor and tumor regions, respectively. Vertical axes are scaled differently to show detail. The measured HbT response in non-tumor regions (black arrow) is significantly lower than predicted by the intense neural seizure activity, suggesting saturation of the hemodynamic response. In the tumor region, the predicted impaired HbT is similar to the measured HbT response (purple arrow), suggesting that the response seen results from active tumor-evoked constriction of vessels within the tumor.

Article Snippet: Deconvolution was performed using a regularized convolution matrix approach in MATLAB ( ).

Techniques: Fluorescence, Activity Assay, Derivative Assay

Journal: Cell reports

Article Title: Glioma-Induced Alterations in Neuronal Activity and Neurovascular Coupling during Disease Progression

doi: 10.1016/j.celrep.2020.03.064

Figure Lengend Snippet:

Article Snippet: Deconvolution was performed using a regularized convolution matrix approach in MATLAB ( ).

Techniques: Recombinant, Software, Modification