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https://www.readbyqxmd.com/read/27897008/tracing-co-regulatory-network-dynamics-in-noisy-single-cell-transcriptome-trajectories
#1
Pablo Cordero, Joshua M Stuart
The availability of gene expression data at the single cell level makes it possible to probe the molecular underpinnings of complex biological processes such as differentiation and oncogenesis. Promising new methods have emerged for reconstructing a progression 'trajectory' from static single-cell transcriptome measurements. However, it remains unclear how to adequately model the appreciable level of noise in these data to elucidate gene regulatory network rewiring. Here, we present a framework called Single Cell Inference of MorphIng Trajectories and their Associated Regulation (SCIMITAR) that infers progressions from static single-cell transcriptomes by employing a continuous parametrization of Gaussian mixtures in high-dimensional curves...
2016: Pacific Symposium on Biocomputing
https://www.readbyqxmd.com/read/27891739/acardiac-twin-pregnancies-part-iv-acardiac-onset-from-unequal-embryonic-splitting-simulated-by-a-fetoplacental-resistance-model
#2
Martin J C van Gemert, Jeroen P H M van den Wijngaard, K Marieke Paarlberg, Helena M Gardiner, Peter G J Nikkels
BACKGROUND: Benirschke postulated that acardiac twinning occurs when markedly unequal embryonic splitting combines with arterioarterial (AA) and venovenous placental anastomoses. We tested this hypothesis by model simulations and by comparison of outcomes with 18 "pseudo-" (twin fetus with beating heart but otherwise with clear signs of an acardiac) and 3 "normal" acardiac cases. METHODS: The smaller/larger cell volume ratio at embryonic splitting becomes the smaller/larger embryonic/fetal blood volume ratio (a)...
November 28, 2016: Birth Defects Research. Part A, Clinical and Molecular Teratology
https://www.readbyqxmd.com/read/27884665/airway-management-for-cesarean-delivery-performed-under-general-anesthesia
#3
S Rajagopalan, M Suresh, S L Clark, B Serratos, S Chandrasekhar
BACKGROUND: With the increasing popularity of neuraxial anesthesia, there has been a decline in the use of general anesthesia for cesarean delivery. We sought to examine the incidence, outcome and characteristics associated with a failed airway in patients undergoing cesarean delivery under general anesthesia. METHODS: A retrospective review of airway management in women undergoing cesarean delivery under general anesthesia over an eight-year period from 2006-2013 at an academic medical center was conducted...
October 27, 2016: International Journal of Obstetric Anesthesia
https://www.readbyqxmd.com/read/27854395/prediction-of-stillbirth-from-placental-growth-factor-at-19-24-weeks
#4
J E Aupont, R Akolekar, A Illian, S Neonakis, K H Nicolaides
OBJECTIVES: To investigate whether the addition of maternal serum placental growth factor (PlGF) measured at 19-24 weeks' gestation improves the performance of screening for stillbirth that is achieved by a combination of maternal factors, fetal biometry and uterine artery pulsatility index (UtA-PI) and to evaluate the performance of screening with this model for all stillbirths and those due to impaired placentation and unexplained or other causes. METHODS: This was a prospective screening study of 70 003 singleton pregnancies including 268 stillbirths, carried out in two phases...
November 2016: Ultrasound in Obstetrics & Gynecology
https://www.readbyqxmd.com/read/27853245/mechanism-of-consistent-gyrus-formation-an-experimental-and-computational-study
#5
Tuo Zhang, Mir Jalil Razavi, Xiao Li, Hanbo Chen, Tianming Liu, Xianqiao Wang
As a significant type of cerebral cortical convolution pattern, the gyrus is widely preserved across species. Although many hypotheses have been proposed to study the underlying mechanisms of gyrus formation, it is currently still far from clear which factors contribute to the regulation of consistent gyrus formation. In this paper, we employ a joint analysis scheme of experimental data and computational modeling to investigate the fundamental mechanism of gyrus formation. Experimental data on mature human brains and fetal brains show that thicker cortices are consistently found in gyral regions and gyral cortices have higher growth rates...
November 17, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27845652/a-fixed-lag-kalman-smoother-to-filter-power-line-interference-in-electrocardiogram-recordings
#6
Guy J J Warmerdam, Rik Vullings, Lars Schmitt, Judith O E H van Laar, Jan W M Bergmans
OBJECTIVE: Filtering power line interference (PLI) from electrocardiogram (ECG) recordings can lead to significant distortions of the ECG and mask clinically relevant features in ECG waveform morphology. The objective of this study is to filter PLI from ECG recordings with minimal distortion of the ECG waveform. METHODS: In this paper, we propose a fixed-lag Kalman smoother with adaptive noise estimation. The performance of this Kalman smoother in filtering PLI is compared to that of a fixedbandwidth notch filter and several adaptive PLI filters that have been proposed in the literature...
November 8, 2016: IEEE Transactions on Bio-medical Engineering
https://www.readbyqxmd.com/read/27834868/steric-clash-in-the-set-domain-of-histone-methyltransferase-nsd1-as-a-cause-of-sotos-syndrome-and-its-genetic-heterogeneity-in-a-brazilian-cohort
#7
Kyungsoo Ha, Priya Anand, Jennifer A Lee, Julie R Jones, Chong Ae Kim, Debora Romeo Bertola, Jonathan D J Labonne, Lawrence C Layman, Wolfgang Wenzel, Hyung-Goo Kim
Most histone methyltransferases (HMTase) harbor a predicted Su(var)3-9, Enhancer-of-zeste, Trithorax (SET) domain, which transfers a methyl group to a lysine residue in their substrates. Mutations of the SET domains were reported to cause intellectual disability syndromes such as Sotos, Weaver, or Kabuki syndromes. Sotos syndrome is an overgrowth syndrome with intellectual disability caused by haploinsufficiency of the nuclear receptor binding SET domain protein 1 (NSD1) gene, an HMTase at 5q35.2-35.3. Here, we analyzed NSD1 in 34 Brazilian Sotos patients and identified three novel and eight known mutations...
November 9, 2016: Genes
https://www.readbyqxmd.com/read/27824565/visualization-of-small-diameter-vessels-by-reduction-of-incoherent-reverberation-with-coherent-flow-power-doppler
#8
You Leo Li, Dongwoon Hyun, Lotfi Abou-Elkacem, Juergen Karl Willmann, Jeremy J Dahl
Power Doppler (PD) imaging is a widely used technique for flow detection. Despite the wide use of Doppler ultrasound, limitations exist in the ability of Doppler ultrasound to assess slow flow in the small-diameter vasculature, such as the maternal spiral arteries and fetal villous arteries of the placenta and focal liver lesions. The sensitivity of PD in small vessel detection is limited by the low signal produced by slow flow and the noise associated with small vessels. The noise sources include electronic noise, stationary or slowly moving tissue clutter, reverberation clutter, and off-axis scattering from tissue, among others...
November 2016: IEEE Transactions on Ultrasonics, Ferroelectrics, and Frequency Control
https://www.readbyqxmd.com/read/27788214/image-based-modeling-of-blood-flow-and-oxygen-transfer-in-feto-placental-capillaries
#9
Philip Pearce, Paul Brownbill, Jiří Janáček, Marie Jirkovská, Lucie Kubínová, Igor L Chernyavsky, Oliver E Jensen
During pregnancy, oxygen diffuses from maternal to fetal blood through villous trees in the placenta. In this paper, we simulate blood flow and oxygen transfer in feto-placental capillaries by converting three-dimensional representations of villous and capillary surfaces, reconstructed from confocal laser scanning microscopy, to finite-element meshes, and calculating values of vascular flow resistance and total oxygen transfer. The relationship between the total oxygen transfer rate and the pressure drop through the capillary is shown to be captured across a wide range of pressure drops by physical scaling laws and an upper bound on the oxygen transfer rate...
2016: PloS One
https://www.readbyqxmd.com/read/27769989/statistical-methods-for-unusual-count-data-examples-from-studies-of-microchimerism
#10
Katherine A Guthrie, Hilary S Gammill, Mads Kamper-Jørgensen, Anne Tjønneland, Vijayakrishna K Gadi, J Lee Nelson, Wendy Leisenring
Natural acquisition of small amounts of foreign cells or DNA, referred to as microchimerism, occurs primarily through maternal-fetal exchange during pregnancy. Microchimerism can persist long-term and has been associated with both beneficial and adverse human health outcomes. Quantitative microchimerism data present challenges for statistical analysis, including a skewed distribution, excess zero values, and occasional large values. Methods for comparing microchimerism levels across groups while controlling for covariates are not well established...
October 21, 2016: American Journal of Epidemiology
https://www.readbyqxmd.com/read/27765090/-effects-of-severe-hypoxia-and-low-concentration-of-serum-protein-on-the-function-of-human-hypertrophic-scar-fibroblasts
#11
J Y Dong, F Song, Y K Liu, X Q Wang
Objective: To simulate the environmental factors during the process of formation and evolution of hypertrophic scar, so as to explore the effects of moderate and severe hypoxia and low concentration of serum protein on the function of human hypertrophic scar fibroblasts (HSFs). Methods: Human HSFs were routinely cultured. Cells of the 3rd to the 6th passage were divided into 10.0% oxygen+ 10.0% fetal calf serum (FCS), 5.0% oxygen+ 5.0% FCS, and 0.5% oxygen+ 0.5% FCS groups according to the random number table...
October 20, 2016: Zhonghua Shao Shang za Zhi, Zhonghua Shaoshang Zazhi, Chinese Journal of Burns
https://www.readbyqxmd.com/read/27755062/amniotic-fluid-embolism
#12
Courtney Stanley Sundin, Lauren Bradham Mazac
Amniotic fluid embolism (AFE) is a rare but serious and potentially deadly complication of pregnancy that is unpreventable and unpredictable. Most AFE events occur during labor; however, approximately one third happen during the immediate postpartum period. Presentation is abrupt and thought to be an abnormal response to fetal materials entering maternal circulation through the placental insertion site. Care providers must recognize the signs and symptoms of AFE and react quickly in effort to treat potential complications...
October 13, 2016: MCN. the American Journal of Maternal Child Nursing
https://www.readbyqxmd.com/read/27740478/visualization-of-small-diameter-vessels-by-reduction-of-incoherent-reverberation-with-coherent-flow-power-doppler
#13
You Li, Dongwoon Hyun, Lotfi Abou-Elkacem, Juergen Willmann, Jeremy Dahl
Power Doppler (PD) imaging is a widely used technique for flow detection. Despite the wide use of Doppler ultrasound, limitations exist in the ability of Doppler ultrasound to assess slow flow in small-diameter vasculature, such as the maternal spiral arteries and fetal villous arteries of the placenta and focal liver lesions. The sensitivity of PD in small vessel detection is limited by the low signal produced by slow flow and the noise associated with small vessels. The noise sources include electronic noise, stationary or slowly moving tissue clutter, reverberation clutter, and off-axis scattering from tissue, among others...
October 10, 2016: IEEE Transactions on Ultrasonics, Ferroelectrics, and Frequency Control
https://www.readbyqxmd.com/read/27703492/a-fetal-electrocardiogram-signal-extraction-algorithm-based-on-fast-one-unit-independent-component-analysis-with-reference
#14
Yanfei Jia, Xiaodong Yang
Fetal electrocardiogram (FECG) extraction is very important procedure for fetal health assessment. In this article, we propose a fast one-unit independent component analysis with reference (ICA-R) that is suitable to extract the FECG. Most previous ICA-R algorithms only focused on how to optimize the cost function of the ICA-R and payed little attention to the improvement of cost function. They did not fully take advantage of the prior information about the desired signal to improve the ICA-R. In this paper, we first use the kurtosis information of the desired FECG signal to simplify the non-Gaussian measurement function and then construct a new cost function by directly using a nonquadratic function of the extracted signal to measure its non-Gaussianity...
2016: Computational and Mathematical Methods in Medicine
https://www.readbyqxmd.com/read/27698766/establishment-of-apoe-knockout-mouse-model-of-preeclampsia-and-relevant-mechanisms
#15
Wenjuan Sun, Baoxia Cui, Fanzhen Hong, Yongping Xu
In the present study, we established an ApoE-knockout mouse model of preeclampsia to examine the role of vascular endothelial injury associated with abnormal lipid metabolism in the pathogenesis of preeclampsia. To establish the ApoE-knockout homozygous (ApoE(-/-)) and heterozygous (ApoE(+/-)) mouse model, mice were mated with the same genotype and orbital blood on day 19 of conception was collected. The progeny mice were assigned into 3 groups: ApoE(-/), ApoE(+/-) and wild-type (WT) groups. Total cholesterol, triglyceride, low-density and high-density lipoprotein were measured in the serum at the end of conception...
October 2016: Experimental and Therapeutic Medicine
https://www.readbyqxmd.com/read/27685136/spot-scanning-proton-therapy-minimizes-neutron-dose-in-the-setting-of-radiation-therapy-administered-during-pregnancy
#16
Xin Wang, Falk Poenisch, Narayan Sahoo, Ronald X Zhu, MingFwu Lii, Michael T Gillin, Jing Li, David Grosshans
This is a real case study to minimize the neutron dose equivalent (H) to a fetus using spot scanning proton beams with favorable beam energies and angles. Minimum neutron dose exposure to the fetus was achieved with iterative planning under the guidance of neutron H measurement. Two highly conformal treatment plans, each with three spot scanning beams, were planned to treat a 25-year-old pregnant female with aggressive recurrent chordoma of the base of skull who elected not to proceed with termination. Each plan was scheduled for delivery every other day for robust target coverage...
2016: Journal of Applied Clinical Medical Physics
https://www.readbyqxmd.com/read/27663769/fluid-mechanics-of-human-fetal-right-ventricles-from-image-based-computational-fluid-dynamics-using-4d-clinical-ultrasound-scans
#17
Hadi Wiputra, Chang Quan Lai, Guat Ling Lim, Joel Jia Wei Heng, Lan Guo, Sanah Merchant Soomar, Hwa Liang Leo, Arijit Biwas, Citra Nurfarah Zaini Mattar, Choon Hwai Yap
There are 0.6-1.9% of US children who were born with congenital heart malformations. Clinical and animal studies suggest that abnormal blood flow forces might play a role in causing these malformation, highlighting the importance of understanding the fetal cardiovascular fluid mechanics. We performed computational fluid dynamics simulations of the right ventricles, based on four-dimensional ultrasound scans of three 20-wk-old normal human fetuses, to characterize their flow and energy dynamics. Peak intraventricular pressure gradients were found to be 0...
December 1, 2016: American Journal of Physiology. Heart and Circulatory Physiology
https://www.readbyqxmd.com/read/27662469/an-advanced-model-to-precisely-estimate-the-cell-free-fetal-dna-concentration-in-maternal-plasma
#18
Xiongbin Kang, Jun Xia, Yicong Wang, Huixin Xu, Haojun Jiang, Weiwei Xie, Fang Chen, Peng Zeng, Xuchao Li, Yifan Xie, Hongtai Liu, Guodong Huang, Dayang Chen, Ping Liu, Hui Jiang, Xiuqing Zhang
BACKGROUND: With the speedy development of sequencing technologies, noninvasive prenatal testing (NIPT) has been widely applied in clinical practice for testing for fetal aneuploidy. The cell-free fetal DNA (cffDNA) concentration in maternal plasma is the most critical parameter for this technology because it affects the accuracy of NIPT-based sequencing for fetal trisomies 21, 18 and 13. Several approaches have been developed to calculate the cffDNA fraction of the total cell-free DNA in the maternal plasma...
2016: PloS One
https://www.readbyqxmd.com/read/27662001/the-labor-games
#19
Laurice Bou Nemer, Dawn Kalin, Desiree Fiorentino, Jorge J Garcia, Christopher M Estes
OBJECTIVE: To develop and evaluate a simulation laboratory designed to stimulate learning and increase medical students' preparedness for an obstetrics and gynecology clinical clerkship. METHODS: Ninety-seven medical students participated in the games during their obstetrics and gynecology clerkship in 1 year. Using the resident-as-teacher model, students rotated through seven stations, each with a simulated obstetric task. Points were awarded at each station, and the student with the highest score won...
October 2016: Obstetrics and Gynecology
https://www.readbyqxmd.com/read/27660929/simulation-and-shoulder-dystocia
#20
Angela K Shaddeau, Shad Deering
Shoulder dystocia is an unpredictable obstetric emergency that requires prompt interventions to ensure optimal outcomes. Proper technique is important but difficult to train given the urgent and critical clinical situation. Simulation training for shoulder dystocia allows providers at all levels to practice technical and teamwork skills in a no-risk environment. Programs utilizing simulation training for this emergency have consistently demonstrated improved performance both during practice drills and in actual patients with significantly decreased risks of fetal injury...
December 2016: Clinical Obstetrics and Gynecology
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