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2021 ◽  
Author(s):  
Ying-Wooi Wan ◽  
Alexander Jonathan Trostle ◽  
Lucian Li ◽  
Seon-Youn Kim ◽  
Jiasheng Wan ◽  
...  

Mutations in MeCP2 result in a crippling neurological disease, but we lack a lucid picture of MeCP2s molecular role. Focusing on individual transcriptomic studies yields inconsistent differentially expressed genes. We have aggregated and homogeneously processed modern public MeCP2 transcriptome data, which we present in a web portal. With this big data, we discovered a commonly perturbed core set of genes that transcends the limitations of any individual study. We then found distinct consistently up and downregulated subsets within these genes. We observe enrichment for this mouse core in other species MeCP2 models and see overlap between this core and ASD models. Analysis of signal to noise finds that many studies lack enough biological replicates. By integrating and examining transcriptomic data at scale, we have generated a valuable resource and insight on MeCP2 function.


Author(s):  
W. X. Er ◽  
W. J. Lim ◽  
Y. Dwihapsari ◽  
M. N. A. Awang ◽  
A. N. Yusoff

Abstract Background Agar has been commonly used as one of the materials to fabricate magnetic resonance imaging phantoms in the past few decades. In this study, eleven agar gel phantoms with different iron (III) oxide (Fe2O3) masses were prepared. This study was aimed to evaluate the signal-to-noise ratio (SNR) uniformity and stability of agar gel phantoms with and without the addition of Fe2O3 at two different time points (TPs). Fe2O3 powder was used as a relaxation modifier to manipulate and produce various SNR, T1 and T2 values. These phantoms were scanned using turbo spin echo pulse sequence to produce T1- and T2-measurement images. The SNR was then computed by plotting 1, 3 and 25 regions of interest on the images using ImageJ software. The T1 and T2 relaxation equations were then fitted to the experimental results of SNR versus TR and SNR versus TE curves for the determination of saturation (SNRo), T1 and T2 values. Results The results demonstrated that the agar gel phantoms were able to maintain SNR uniformity but not SNR stability after 4 weeks of phantom preparation. The change in the water content and microstructure of the phantoms have no significant effect on T2 relaxation but on T1 relaxation. The T1 and T2 of the agar gel phantoms were minimally affected although there was a systemic increase in the content of the Fe2O3 powder. Conclusions It can be concluded that the agar gel phantoms exhibited the characteristics of SNR uniformity, but they showed instability of SNR at TP2. The Fe2O3 in powder form is not an effective relaxation modifier to reduce the T1 and T2 when it is introduced into the agar gel phantoms. Dissolved nanosized particles should be the focus of future studies.


2021 ◽  
Vol 922 (2) ◽  
pp. 153
Author(s):  
Adam Broussard ◽  
Eric Gawiser

Abstract The Vera C. Rubin Observatory Legacy Survey of Space and Time (LSST) will produce several billion photometric redshifts (photo-z's), enabling cosmological analyses to select a subset of galaxies with the most accurate photo-z. We perform initial redshift fits on Subaru Strategic Program galaxies with deep grizy photometry using Trees for Photo-Z (TPZ) before applying a custom neural network classifier (NNC) tuned to select galaxies with (z phot − z spec)/(1 + z spec) < 0.10. We consider four cases of training and test sets ranging from an idealized case to using data augmentation to increase the representation of dim galaxies in the training set. Selections made using the NNC yield significant further improvements in outlier fraction and photo-z scatter (σ z ) over those made with typical photo-z uncertainties. As an example, when selecting the best third of the galaxy sample, the NNC achieves a 35% improvement in outlier rate and a 23% improvement in σ z compared to using uncertainties from TPZ. For cosmology and galaxy evolution studies, this method can be tuned to retain a particular sample size or to achieve a desired photo-z accuracy; our results show that it is possible to retain more than a third of an LSST-like galaxy sample while reducing σ z by a factor of 2 compared to the full sample, with one-fifth as many photo-z outliers. For surveys like LSST that are not limited by shot noise, this method enables a larger number of tomographic redshift bins and hence a significant increase in the total signal to noise of galaxy angular power spectra.


2021 ◽  
Vol 19 (1) ◽  
pp. 015101
Author(s):  
H Ahmad ◽  
N H Abdul Kahar ◽  
N F Norisham ◽  
S A Reduan ◽  
L Bayang

Abstract For the first time, this research proposed a copper telluride (Cu2Te)-polyvinyl alcohol thin film as a saturable absorber (SA) in an erbium-doped fiber laser (EDFL) operating in the long-wavelength band (L-band). The nonlinear optical absorption measurement of Cu2Te thin film revealed a saturation intensity of 3.26 kW cm−2 and a modulation depth of 2.7%. Furthermore, the mode-locked pulse was successfully generated by integrating a Cu2Te thin film into the L-band cavity at a threshold pump power of 135.61 mW with a center wavelength and pulse duration of 1565.48 nm and 770 fs, respectively. When observing the output mode-locked pulse, the pump power for the EDFL ranged from 135.61 mW to 201.28 mW, with the fundamental mode having a repetition rate 10.28 MHz. Furthermore, the magnitude of the signal-to-noise ratio was approximately 61.3 dB, indicating that the laser was stable with no significant fluctuations during the stability test. Overall, the findings showed that Cu2Te thin film has an excellent output and a promising candidate for an SA, implying that it could have a lot of potentials in pulsed laser application.


2021 ◽  
Vol 73 (1) ◽  
Author(s):  
Hiroyuki Nakata ◽  
Kenro Nozaki ◽  
Yuhei Oki ◽  
Keisuke Hosokawa ◽  
Kumiko K. Hashimoto ◽  
...  

AbstractHigh-frequency Doppler (HFD) sounding is one of the major remote sensing techniques used for monitoring the ionosphere. Conventional systems for HFDs mainly utilize analog circuits. However, existing analog systems have become difficult to maintain as the number of people capable of working with analog circuits has declined. To solve this problem, we developed an alternate HFD receiver system based on digital signal processing. The software-defined radio (SDR) technique enables the receiver to be set up without the knowledge of analog circuit devices. This approach also downsizes the system and reduces costs. A highly stabilized radio system for both the transmitter and receiver is necessary for stable long-term observations of various phenomena in the ionosphere. The global positioning system disciplined oscillator with an accuracy of $${10}^{-11}$$ 10 - 11 compensates for the frequency stability required by the new receiving system. In the new system, four frequencies are received and signal-processed simultaneously. The dynamic range of the new system is wider (> 130 dB) than that of the conventional system used in HFD observations conducted by the University of Electro-Communications in Japan. The signal-to-noise ratio significantly improved by 20 dB. The new digital system enables radio waves to be received with much smaller amplitudes at four different frequencies. The new digital receivers have been installed at some of the stations in the HFD observation network in Japan and have already captured various ionospheric phenomena, including medium-scale traveling ionospheric disturbances and sudden commencement induced electric field fluctuations, which indicates the feasibility of SDR for actual ionospheric observations. The new digital receiver is simple, inexpensive, and small in size, which makes it easy to deploy new receiving stations in Japan and elsewhere. These advantages of the new system will help drive the construction of a wide HFD observation network. Graphical Abstract


2021 ◽  
Vol 922 (2) ◽  
pp. 116
Author(s):  
Brian DiGiorgio ◽  
Kevin Bundy ◽  
Kyle B. Westfall ◽  
Alexie Leauthaud ◽  
David Stark

Abstract Kinematic weak lensing describes the distortion of a galaxy’s projected velocity field due to lensing shear, an effect recently reported for the first time by Gurri et al. based on a sample of 18 galaxies at z ∼ 0.1. In this paper, we develop a new formalism that combines the shape information from imaging surveys with the kinematic information from resolved spectroscopy to better constrain the lensing distortion of source galaxies and to potentially address systematic errors that affect conventional weak-lensing analyses. Using a Bayesian forward model applied to mock galaxy observations, we model distortions in the source galaxy’s velocity field simultaneously with the apparent shear-induced offset between the kinematic and photometric major axes. We show that this combination dramatically reduces the statistical uncertainty on the inferred shear, yielding statistical error gains of a factor of 2–6 compared to kinematics alone. While we have not accounted for errors from intrinsic kinematic irregularities, our approach opens kinematic lensing studies to higher redshifts where resolved spectroscopy is more challenging. For example, we show that ground-based integral-field spectroscopy of background galaxies at z ∼ 0.7 can deliver gravitational shear measurements with signal-to-noise ratio of ∼1 per source galaxy at 1 arcminute separations from a galaxy cluster at z ∼ 0.3. This suggests that even modest samples observed with existing instruments could deliver improved galaxy cluster mass measurements and well-sampled probes of their halo mass profiles to large radii.


Laser Physics ◽  
2021 ◽  
Vol 32 (1) ◽  
pp. 015101
Author(s):  
Gangxiao Yan ◽  
Weihua Zhang ◽  
Peng Li ◽  
Qiuhao Jiang ◽  
Meng Wu ◽  
...  

Abstract A switchable and tunable erbium-doped fiber laser with a linear cavity based on fiber Bragg gratings embedded in Sagnac rings is proposed and experimentally verified. Due to the stress birefringence effect and the polarized hole burning effect, which are introduced into the single-mode fiber in the polarization controllers (PCs) by the PCs, the designed laser can achieve seven kinds of laser-states output including three kinds of single-wavelength laser states, three kinds of dual-wavelength laser states and one kind of triple-wavelength laser state. The optical signal-to-noise ratios of the output wavelengths are all higher than 52 dB, and the wavelength shifts are all less than 0.04 nm. Furthermore, the temperature tuning of the wavelength range is also researched, which is about 1.2 nm. Due to advantages, such as low cost, simple structure, easy switching and multiple laser states, the designed laser has great application potential in laser radar, optical fiber sensing and so on.


2021 ◽  
Author(s):  
Alexander P Browning ◽  
Niloufar Ansari ◽  
Christopher Drovandi ◽  
Angus Johnston ◽  
Matthew J Simpson ◽  
...  

Biological heterogeneity is a primary contributor to the variation observed in experiments that probe dynamical processes, such as internalisation. Given that internalisation is the primary means by which cells absorb drugs, viruses and other material, quantifying cell-to-cell variability in internalisation is of high biological interest. Yet, it is common for studies of internalisation to neglect cell-to-cell variability. We develop a simple mathematical model of internalisation that captures the dynamical behaviour, cell-to-cell variation, and extrinsic noise introduced by flow cytometry. We calibrate our model through a novel distribution-matching approximate Bayesian computation algorithm to flow cytometry data collected from an experiment that probes the internalisation of antibody by transferrin receptors in C1R cells. Our model reproduces experimental observations, identifies cell-to-cell variability in the internalisation and recycling rates, and, importantly, provides information relating to inferential uncertainty. Given that our approach is agnostic to sample size and signal-to-noise ratio, our modelling framework is broadly applicable to identify biological variability in single-cell data from experiments that probe a range of dynamical processes.


2021 ◽  
Vol 2021 ◽  
pp. 1-11
Author(s):  
Yongze Liu ◽  
Yuehong Ma ◽  
Haiming Jing

This paper studies the optimal detection performance of the standard frequency diverse array (FDA) radar and FDA multi-input multioutput (FDA-MIMO) radar in Gaussian clutter and noise. Array signal processing scheme at the receiver is firstly designed to obtain the array steering vector containing range, azimuth, and frequency increment. For the two array configurations, namely, collocated transmit-receive and collocated transmit distributed receive, the likelihood ratio test statistics and the test statistic distributions are derived in the Neyman–Pearson sense. It is then investigated how the number of array elements influences the detection performance of various radar systems at low signal-to-noise ratio (SNR). Several numerical simulations are carried out to demonstrate that the performance improvement is hard for MIMO and FDA-MIMO by only increasing the number of transmit elements, while it is achievable for the FDA. The paper finally makes a comparative analysis for detection performances of five radar configurations under different SNRs.


2021 ◽  
Author(s):  
Jos van Geffen ◽  
Henk Eskes ◽  
Steven Compernolle ◽  
Gaia Pinardi ◽  
Tijl Verhoelst ◽  
...  

Abstract. Nitrogen dioxide (NO2) is one of the main data products measured by the Tropospheric Monitoring Instrument (TROPOMI) on the Sentinel-5 Precursor (S5P) satellite, which combines a high signal-to-noise ratio with daily global coverage and high spatial resolution. TROPOMI provides a valuable source of information to monitor emissions from local sources such as power plants, industry, cities, traffic and ships, and variability of these sources in time. Validation exercises of NO2 version v1.2-v1.3 data, however, have revealed that TROPOMI's tropospheric vertical columns (VCDs) are too low by up to 50 % over highly polluted areas. These findings are mainly attributed to biases in the cloud pressure retrieval, the surface albedo climatology and the low resolution of the a-priori profiles derived from global simulations of the TM5-MP chemistry model. This study describes improvements in the TROPOMI NO2 retrieval leading to version v2.2, operational since 1 July 2021. Compared to v1.x, the main changes are: (1) The NO2-v2.2 data is based on version 2 level-1B (ir)radiance spectra with improved calibration, which results in a small and fairly homogeneous increase of the NO2 slant columns of 3 to 4 %, most of which ends up as a small increase of the stratospheric columns; (2) The cloud pressures are derived with a new version of the FRESCO cloud retrieval already introduced in NO2-v1.4, which lead to a lowering of the cloud pressure, resulting in larger tropospheric NO2 columns over polluted scenes with a small but non-zero cloud coverage; (3) For cloud-free scenes a surface albedo correction is introduced based on the observed reflectance, which also leads to a general increase of the tropospheric NO2 columns over polluted scenes of order 15 %; (4) An outlier removal was implemented in the spectral fit, which increases the number of good quality retrievals over the South-Atlantic Anomaly region and over bright clouds where saturation may occur; (5) Snow-Ice information is now obtained from ECMWF weather data, increasing the number of valid retrievals at high latitudes. On average the NO2-v2.2 data have tropospheric VCDs that are between 10 and 40 % larger than the v1.x data, depending on the level of pollution and season; the largest impact is found at mid- and high-latitudes in wintertime. This has brought these tropospheric NO2 closer to OMI observations. Ground-based validation shows on average an improvement of the negative bias of the stratospheric (from −6 % to −3 %), tropospheric (from −32 % to −23 %) and total (from −12 % to −5 %) columns. For individual measurement stations, however, the picture is more complicated, in particular for the tropospheric and total columns.


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