Biostatistical analysis of quantitative immunofluorescence microscopy images

Giles, Corey; Albrecht, Matthew A.; Lam, Virginie; Takechi, Ryusuke; Mamo, John

doi:10.1111/jmi.12446

Cited by 5 publications

(4 citation statements)

References 27 publications

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“…The analysis is also able to explicitly take into the heterogeneity of variance by allowing for different variances to be fit to each condition. The measure possesses an excellent Type I error rate when used for multi-channel data as shown using permutation testing [ 20 , 42 , 43 ]. For the analysis of power and phase-amplitude coupling, treatment time (baseline, 6h, 24h) was treated as a within-subjects factor, while for connectivity, treatment and hemisphere (left, right) were treated as within-subjects factors.…”

Section: Methodsmentioning

confidence: 99%

Time and frequency dependent changes in resting state EEG functional connectivity following lipopolysaccharide challenge in rats

et al. 2018

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Research has shown that inflammatory processes affect brain function and behavior through several neuroimmune pathways. However, high order brain functions affected by inflammation largely remain to be defined. Resting state functional connectivity of synchronized oscillatory activity is a valid approach to understand network processing and high order brain function under different experimental conditions. In the present study multi-electrode EEG recording in awake, freely moving rats was used to study resting state connectivity after administration of lipopolysaccharides (LPS). Male Wistar rats were implanted with 10 cortical surface electrodes and administered with LPS (2 mg/kg) and monitored for symptoms of sickness at 3, 6 and 24 h. Resting state connectivity and power were computed at baseline, 6 and 24 h. Three prominent connectivity bands were identified using a method resistant to spurious correlation: alpha (5–15 Hz), beta-gamma (20–80 Hz), and high frequency oscillation (150–200 Hz). The most prominent connectivity band, alpha, was strongly reduced 6 h after LPS administration, and returned to baseline at 24 h. Beta-gamma connectivity was also reduced at 6 h and remained reduced at 24 h. Interestingly, high frequency oscillation connectivity remained unchanged at 6 h and was impaired 24 h after LPS challenge. Expected elevations in delta and theta power were observed at 6 h after LPS administration, when behavioral symptoms of sickness were maximal. Notably, gamma and high frequency power were reduced 6 h after LPS and returned to baseline by 24 h, when the effects on connectivity were more evident. Finally, increases in cross-frequency coupling elicited by LPS were detected at 6 h for theta-gamma and at 24 h for theta-high frequency oscillations. These studies show that LPS challenge profoundly affects EEG connectivity across all identified bands in a time-dependent manner indicating that inflammatory processes disrupt both bottom-up and top-down communication across the cortex during the peak and resolution of inflammation.

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Section: Methodsmentioning

confidence: 99%

Time and frequency dependent changes in resting state EEG functional connectivity following lipopolysaccharide challenge in rats

et al. 2018

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“…Dot blots were analyzed using factorial analysis of variance (ANOVA) to compare the main effects of temperature regime and lectins and the interaction of temperature regime and lectin type on lectin expression. Values from microscopy images were analyzed using the mean value of images from individual samples as replicates (four to five images per sample, n = 12–15 images per lectin) and quantified image values were log‐transformed according to Giles et al (2016). Microscopy image values were analyzed using factorial ANOVA to compare the main effects of temperature regime and lectin type and the interaction of temperature and lectin type on the log‐transformed normalized density.…”

Section: Methodsmentioning

confidence: 99%

Lectin binding to pectoral fin of neonate little skates reared under ambient and projected‐end‐of‐century temperature regimes

Thomas,

Peele,

Yopak

et al. 2024

Journal of Morphology

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The glycosylation of macromolecules can vary both among tissue structural components and by adverse conditions, potentially providing an alternative marker of stress in organisms. Lectins are proteins that bind carbohydrate moieties and lectin histochemistry is a common method to visualize microstructures in biological specimens and diagnose pathophysiological states in human tissues known to alter glycan profiles. However, this technique is not commonly used to assess broad‐spectrum changes in cellular glycosylation in response to environmental stressors. In addition, the binding of various lectins has not been studied in elasmobranchs (sharks, skates, and rays). We surveyed the binding tissue structure specificity of 14 plant‐derived lectins, using both immunoblotting and immunofluorescence, in the pectoral fins of neonate little skates (Leucoraja erinacea). Skates were reared under present‐day or elevated (+5°C above ambient) temperature regimes and evaluated for lectin binding as an indicator of changing cellular glycosylation and tissue structure. Lectin labeling was highly tissue and microstructure specific. Dot blots revealed no significant changes in lectin binding between temperature regimes. In addition, lectins only detected in the elevated temperature treatment were Canavalia ensiformis lectin (Concanavalin A) in spindle cells of muscle and Ricinus communis agglutinin in muscle capillaries. These results provide a reference for lectin labeling in elasmobranch tissue that may aid future investigations.

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“…To obtain a reliable measure of statistical significance for wavelet bicoherence, a surrogate method is employed [40]. First, generating a random variable θ ∈ [−π, π]and…”

Section: Wavelet Bicoherence and Qpcmentioning

confidence: 99%

“…Specifically, the gamma-band LFPs play a critical role in the visual information processing. For example, the higher gamma rhythms are mostly linked to the fastspiking visual neurons [22]; the orientation selectivity in V1 of awake monkey is modulated by gammaband LFPs [23]; the distinct bands (30)(31)(32)(33)(34)(35)(36)(37)(38)(39)(40) Hz for low gamma and 60-80 Hz for high gamma) of stimulustriggered gamma oscillations are systematically linked to the orientation selectivity index of neurons in the cat primary visual cortex [24]. Therefore, studying the gamma-band LFPs is of great significance to understand the mechanism for generating the orientation selectivity.…”

Section: Introductionmentioning

confidence: 99%

Characterizing the orientation selectivity in V1 and V4 of macaques by quadratic phase coupling

Li¹,

Dong²,

Bai³

et al. 2020

J. Neural Eng.

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Objective. Orientation selectivity is one of the significant characteristics of neurons in the primary visual cortex (V1). Some neurons in extrastriate visual cortical areas also exhibit certain orientation selectivity. But it is still not well understood that how the orientation selectivity generates. Most previous studies about the orientation selectivity are based on the spike firing rate. However, the spikes are prone to be biased by the detection and sorting algorithms. Then, in this paper, the local field potential (LFP) is adopted to investigate the mechanism of orientation selectivity. Approach. We used the quadratic phase coupling (QPC), which was calculated by wavelet bicoherence, to describe the characteristics of orientation selectivity available in V1 and V4. The raw wideband neural signals were recorded by two chronically implanted multi-electrode arrays, which were placed in V1 and V4 respectively in two macaques performing a selective visual attention task. Main results. There is a strong correlation between the total bicoherence (TotalBic), which is a quantization for the overall QPC of frequency pairs in gamma band, and the grating orientation. Furthermore, the QPC distribution at the non-preferred orientation is mainly concentrated in the low frequencies (30–40 Hz) of gamma; while the QPC distribution at the preferred orientation concentrates in both the low frequencies and high frequencies (60–80 Hz) of gamma. In addition, the TotalBic of the gamma-band LFP between V1 and V4 varies with the grating orientations, indicating that the QPC is available in the feedforward link and the gamma-band LFP in V1 modulates the QPC in V4. Significance. The QPC reflects the orientations of the sinusoidal grating and describes the interaction of gamma-band LFP between different brain regions. Our results suggest that the QPC is an alternative avenue to explore the mechanism for generating orientation selectivity of visual neurons effectively.

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Biostatistical analysis of quantitative immunofluorescence microscopy images

Cited by 5 publications

References 27 publications

Time and frequency dependent changes in resting state EEG functional connectivity following lipopolysaccharide challenge in rats

Time and frequency dependent changes in resting state EEG functional connectivity following lipopolysaccharide challenge in rats

Lectin binding to pectoral fin of neonate little skates reared under ambient and projected‐end‐of‐century temperature regimes

Characterizing the orientation selectivity in V1 and V4 of macaques by quadratic phase coupling

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