Comparison of confidence intervals for the Poisson mean

Patil, Dipak D.; Rajarshi, M. B.

doi:10.3233/mas-2010-0145

Cited by 26 publications

(38 citation statements)

References 12 publications

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“…Last, the accuracy level of the shear-induced [Ca 2ϩ ]i oscillation frequency measurements was determined based on a statistical formula that calculates the confidence interval for the mean of a Poisson distribution (central limit theorem; Ref. 60). For 20 -30 cells in the microscope field of view (assuming that a peak in a cell does not affect the peaks in another cell, an assumption that can be challenged; Ref.…”

Section: Methodsmentioning

confidence: 99%

Endothelial mitochondria regulate the intracellular Ca²⁺ response to fluid shear stress

Scheitlin

Julian

Shanmughapriya

et al. 2016

American Journal of Physiology-Cell Physiology

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Shear stress is known to stimulate an intracellular free calcium concentration ([Ca(2+)]i) response in vascular endothelial cells (ECs). [Ca(2+)]i is a key second messenger for signaling that leads to vasodilation and EC survival. Although it is accepted that the shear-induced [Ca(2+)]i response is, in part, due to Ca(2+) release from the endoplasmic reticulum (ER), the role of mitochondria (second largest Ca(2+) store) is unknown. We hypothesized that the mitochondria play a role in regulating [Ca(2+)]i in sheared ECs. Cultured ECs, loaded with a Ca(2+)-sensitive fluorophore, were exposed to physiological levels of shear stress. Shear stress elicited [Ca(2+)]i transients in a percentage of cells with a fraction of them displaying oscillations. Peak magnitudes, percentage of oscillating ECs, and oscillation frequencies depended on the shear level. [Ca(2+)]i transients/oscillations were present when experiments were conducted in Ca(2+)-free solution (plus lanthanum) but absent when ECs were treated with a phospholipase C inhibitor, suggesting that the ER inositol 1,4,5-trisphosphate receptor is responsible for the [Ca(2+)]i response. Either a mitochondrial uncoupler or an electron transport chain inhibitor, but not a mitochondrial ATP synthase inhibitor, prevented the occurrence of transients and especially inhibited the oscillations. Knockdown of the mitochondrial Ca(2+) uniporter also inhibited the shear-induced [Ca(2+)]i transients/oscillations compared with controls. Hence, EC mitochondria, through Ca(2+) uptake/release, regulate the temporal profile of shear-induced ER Ca(2+) release. [Ca(2+)]i oscillation frequencies detected were within the range for activation of mechanoresponsive kinases and transcription factors, suggesting that dysfunctional EC mitochondria may contribute to cardiovascular disease by deregulating the shear-induced [Ca(2+)]i response.

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Section: Methodsmentioning

confidence: 99%

Endothelial mitochondria regulate the intracellular Ca²⁺ response to fluid shear stress

Scheitlin

Julian

Shanmughapriya

et al. 2016

American Journal of Physiology-Cell Physiology

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“…Error bars for mutations frequencies were calculated as 95% Poisson confidence intervals (CIs), 52 , 53 the significance of differences between obtained mutations rates was tested with Fisher’s Exact Test.…”

Section: Methodsmentioning

confidence: 99%

Artifactual mutations resulting from DNA lesions limit detection levels in ultrasensitive sequencing applications

Arbeithuber

Makova

Tiemann‐Boege

2016

DNA Res

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The need in cancer research or evolutionary biology to detect rare mutations or variants present at very low frequencies (<10−5) poses an increasing demand on lowering the detection limits of available methods. Here we demonstrated that amplifiable DNA lesions introduce important error sources in ultrasensitive technologies such as single molecule PCR (smPCR) applications (e.g. droplet-digital PCR), or next-generation sequencing (NGS) based methods. Using templates with known amplifiable lesions (8-oxoguanine, deaminated 5-methylcytosine, uracil, and DNA heteroduplexes), we assessed with smPCR and duplex sequencing that templates with these lesions were amplified very efficiently by proofreading polymerases (except uracil), leading to G->T, and to a lesser extent, to unreported G->C substitutions at 8-oxoguanine lesions, and C->T transitions in amplified uracil containing templates. Long heat incubations common in many DNA extraction protocols significantly increased the number of G->T substitutions. Moreover, in ∼50-80% smPCR reactions we observed the random amplification preference of only one of both DNA strands explaining the known ‘PCR jackpot effect’, with the result that a lesion became indistinguishable from a true mutation or variant. Finally, we showed that artifactual mutations derived from uracil and 8-oxoguanine could be significantly reduced by DNA repair enzymes.

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“…Technical issues resulted in surveillance cameras at the north transect comprising less than 4% (31 of 832) of the total camera triggers, so the north transect was omitted from the nutria activity analysis. Poisson count confidence intervals for nutria activity were calculated using the Garwood method (Patil and Kulkarni 2012). Effect sizes were assessed by measuring relative risk (RR), which calculates the ratio of two probabilities (Grimes and Schulz 2008), since odds ratios could not be calculated for extreme survival probabilities equaling 0.0 or 1.0.…”

Section: Discussionmentioning

confidence: 99%

Efficacy of Plastic Mesh Tubes in Reducing Herbivory Damage by the Invasive Nutria(Myocastor coypus)in an Urban Restoration Site

et al. 2014

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Comparison of confidence intervals for the Poisson mean

Cited by 26 publications

References 12 publications

Endothelial mitochondria regulate the intracellular Ca²⁺ response to fluid shear stress

Endothelial mitochondria regulate the intracellular Ca²⁺ response to fluid shear stress

Artifactual mutations resulting from DNA lesions limit detection levels in ultrasensitive sequencing applications

Efficacy of Plastic Mesh Tubes in Reducing Herbivory Damage by the Invasive Nutria(Myocastor coypus)in an Urban Restoration Site

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Comparison of confidence intervals for the Poisson mean

Cited by 26 publications

References 12 publications

Endothelial mitochondria regulate the intracellular Ca2+ response to fluid shear stress

Endothelial mitochondria regulate the intracellular Ca2+ response to fluid shear stress

Artifactual mutations resulting from DNA lesions limit detection levels in ultrasensitive sequencing applications

Efficacy of Plastic Mesh Tubes in Reducing Herbivory Damage by the Invasive Nutria(Myocastor coypus)in an Urban Restoration Site

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Endothelial mitochondria regulate the intracellular Ca²⁺ response to fluid shear stress

Endothelial mitochondria regulate the intracellular Ca²⁺ response to fluid shear stress