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https://www.readbyqxmd.com/read/28938771/comparative-estimation-of-inevitable-endogenous-ileal-flow-of-amino-acids-in-pekin-ducks-under-varying-dietary-or-physiological-conditions-and-their-significance-to-nutritional-requirements-for-amino-acids
#1
D O Akinde
In 2 experiments in Pekin ducks the inevitable endogenous ileal flow (IEIF) of AA was estimated at changing intake and source of crude fiber (CF) or soybean oil (SO) level. Also the roles of dry matter intake (DMI) and BW or age as well as the proportion of IEIF in the dietary requirement for AA were studied. In experiment 1 three basal CP (20, 60, or 100 g/kg) diets were formulated containing a low CF (LCF, 30 g/kg) or high (HCF, 80 g/kg) level; achieved with cellulose supplementation. All diets were similar in every other respect including having SO content of 40 g/kg...
October 1, 2017: Poultry Science
https://www.readbyqxmd.com/read/28938737/complex-catsper-dependent-and-independent-ca2-i-signalling-in-human-spermatozoa-induced-by-follicular-fluid
#2
Sean G Brown, Sarah Costello, Mark C Kelly, Mythili Ramalingam, Ellen Drew, Stephen J Publicover, Christopher L R Barratt, Sarah Martins Da Silva
STUDY QUESTION: Does progesterone in human follicular fluid (hFF) activate CatSper and do other components of hFF modulate this effect and/or contribute separately to hFF-induced Ca2+ signaling? SUMMARY ANSWER: hFF potently stimulates CatSper and increases [Ca2+]i, primarily due to high concentrations of progesterone, however, other components of hFF also contribute to [Ca2+]i signaling, including modulation of CatSper channel activity and inhibition of [Ca2+]i oscillations...
October 1, 2017: Human Reproduction
https://www.readbyqxmd.com/read/28938719/population-wide-sampling-of-retrotransposon-insertion-polymorphisms-using-deep-sequencing-and-efficient-detection
#3
Qichao Yu, Wei Zhang, Xiaolong Zhang, Yongli Zeng, Yeming Wang, Yanhui Wang, Liqin Xu, Xiaoyun Huang, Nannan Li, Xinlan Zhou, Jie Lu, Xiaosen Guo, Guibo Li, Yong Hou, Shiping Liu, Bo Li
Active retrotransposons play important roles during evolution and continue to shape our genomes today, especially in genetic polymorphisms underlying a diverse set of diseases. However, studies of human retrotransposon insertion polymorphisms (RIPs) based on whole-genome deep sequencing at the population level have not been sufficiently undertaken, despite the obvious need for a thorough characterization of RIPs in the general population. Herein, we present a novel and efficient computational tool called Specific Insertions Detector (SID) for the detection of non-reference RIPs...
September 1, 2017: GigaScience
https://www.readbyqxmd.com/read/28938718/looking-back-forward-looking
#4
Scott C Edmunds, Nicole A Nogoy, Hans Zauner, Peter Li, Christopher I Hunter, Xiao Si Zhe, Laurie Goodman
GigaScience is now 5 years old, having been launched at the 2012 Intelligent Systems for Molecular Biology conference. Anyone who has attended what is the largest computational biology conference since then has had the opportunity to join us for each birthday celebration-and receive 1 of our fun T-shirts as a party prize. Since launching, we have pushed our agenda of openness, transparency, reproducibility, and reusability. Here, we look back at our first 5 years and what we have done to forward our open science goals in scientific publishing...
September 1, 2017: GigaScience
https://www.readbyqxmd.com/read/28938712/invited-commentary-the-need-for-cognitive-science-in-methodology
#5
Sander Greenland
There is no complete solution for the problem of abuse of statistics, but methodological training needs to cover cognitive biases and other psychosocial factors affecting inferences. The present paper discusses 3 common cognitive distortions: 1) dichotomania, the compulsion to perceive quantities as dichotomous even when dichotomization is unnecessary and misleading, as in inferences based on whether a P value is "statistically significant"; 2) nullism, the tendency to privilege the hypothesis of no difference or no effect when there is no scientific basis for doing so, as when testing only the null hypothesis; and 3) statistical reification, treating hypothetical data distributions and statistical models as if they reflect known physical laws rather than speculative assumptions for thought experiments...
September 15, 2017: American Journal of Epidemiology
https://www.readbyqxmd.com/read/28938659/prognostic-value-of-the-long-noncoding-rna-hottip-in-human-cancers
#6
Wei Li, Na Li, Xinmei Kang, Ke Shi, Qiong Chen
Human Homeobox A transcript at the distal tip (HOTTIP) is a putative oncogene in solid tumors. We performed a meta-analysis to investigate the association between HOTTIP expression and clinical outcomes in cancer patients. Eligible studies were collected from a literature search of the online electronic databases of Embase, Web of Science, PubMed and the China National Knowledge Infrastructure (up to January 2, 2017). Fixed-effects models were used to compute pooled odds ratios (ORs) and hazard ratios (HRs)...
August 29, 2017: Oncotarget
https://www.readbyqxmd.com/read/28938601/mutation-profile-based-methods-for-understanding-selection-forces-in-cancer-somatic-mutations-a-comparative-analysis
#7
Zhan Zhou, Yangyun Zou, Gangbiao Liu, Jingqi Zhou, Jingcheng Wu, Shimin Zhao, Zhixi Su, Xun Gu
Human genes exhibit different effects on fitness in cancer and normal cells. Here, we present an evolutionary approach to measure the selection pressure on human genes, using the well-known ratio of the nonsynonymous to synonymous substitution rate in both cancer genomes (CN /CS ) and normal populations (pN /pS ). A new mutation-profile-based method that adopts sample-specific mutation rate profiles instead of conventional substitution models was developed. We found that cancer-specific selection pressure is quite different from the selection pressure at the species and population levels...
August 29, 2017: Oncotarget
https://www.readbyqxmd.com/read/28938576/computational-prediction-of-human-disease-related-micrornas-by-path-based-random-walk
#8
Israel Mugunga, Ying Ju, Xiangrong Liu, Xiaoyang Huang
MicroRNAs (miRNAs) are a class of small, endogenous RNAs that are 21-25 nucleotides in length. In animals and plants, miRNAs target specific genes for degradation or translation repression. Discovering disease-related miRNA is fundamental for understanding the pathogenesis of diseases. The association between miRNA and a disease is mainly determined via biological investigation, which is complicated by increased biological information due to big data from different databases. Researchers have utilized different computational methods to harmonize experimental approaches to discover miRNA that articulates restrictively in specific environmental situations...
August 29, 2017: Oncotarget
https://www.readbyqxmd.com/read/28938573/iatc-mhyb-a-hybrid-multi-label-classifier-for-predicting-the-classification-of-anatomical-therapeutic-chemicals
#9
Xiang Cheng, Shu-Guang Zhao, Xuan Xiao, Kuo-Chen Chou
Recommended by the World Health Organization (WHO), drug compounds have been classified into 14 main ATC (Anatomical Therapeutic Chemical) classes according to their therapeutic and chemical characteristics. Given an uncharacterized compound, can we develop a computational method to fast identify which ATC class or classes it belongs to? The information thus obtained will timely help adjusting our focus and selection, significantly speeding up the drug development process. But this problem is by no means an easy one since some drug compounds may belong to two or more than two ATC classes...
August 29, 2017: Oncotarget
https://www.readbyqxmd.com/read/28938540/microrna-128-3p-regulates-mitomycin-c-induced-dna-damage-response-in-lung-cancer-cells-through-repressing-sptan1
#10
Rui Zhang, Chang Liu, Yahan Niu, Ying Jing, Haiyang Zhang, Jin Wang, Jie Yang, Ke Zen, Junfeng Zhang, Chen-Yu Zhang, Donghai Li
The DNA damage response is critical for maintaining genome integrity and preventing damage to DNA due to endogenous and exogenous insults. Mitomycin C (MMC), a potent DNA cross-linker, is used as a chemotherapeutic agent because it causes DNA inter-strand cross-links (DNA ICLs) in cancer cells. While many microRNAs, which may serve as oncogenes or tumor suppressors, are grossly dysregulated in human cancers, little is known about their roles in MMC-treated lung cancer. Here, we report that miR-128-3p can attenuate repair of DNA ICLs by targeting SPTAN1 (αII Sp), resulting in cell cycle arrest and promoting chromosomal aberrations in lung cancer cells treated with MMC...
August 29, 2017: Oncotarget
https://www.readbyqxmd.com/read/28938536/integrating-omics-data-and-protein-interaction-networks-to-prioritize-driver-genes-in-cancer
#11
Tiejun Zhang, Di Zhang
Although numerous approaches have been proposed to discern driver from passenger, identification of driver genes remains a critical challenge in the cancer genomics field. Driver genes with low mutated frequency tend to be filtered in cancer research. In addition, the accumulation of different omics data necessitates the development of algorithmic frameworks for nominating putative driver genes. In this study, we presented a novel framework to identify driver genes through integrating multi-omics data such as somatic mutation, gene expression, and copy number alterations...
August 29, 2017: Oncotarget
https://www.readbyqxmd.com/read/28938513/increased-anterior-default-mode-network-homogeneity-in-first-episode-drug-naive-major-depressive-disorder-a-replication-study
#12
Wenbin Guo, Xilong Cui, Feng Liu, Jindong Chen, Guangrong Xie, Renrong Wu, Zhikun Zhang, Huafu Chen, Jingping Zhao
BACKGROUND: Abnormal default-mode network (DMN) homogeneity has been involved in the neurophysiology of major depressive disorder (MDD) with inconsistent findings. The inconsistency may be due to clinical and methodological variability, and the reproducibility of the findings is limited. The present study aimed to examine alterations of the DMN homogeneity in two independent samples of patients with first-episode, drug-naive MDD. METHODS: The samples included 59 patients with MDD and 31 comparison subjects from Sample 1 and 29 patients with MDD and 24 comparison subjects from Sample 2...
September 12, 2017: Journal of Affective Disorders
https://www.readbyqxmd.com/read/28938512/numerical-simulation-of-scaling-up-for-aec-mbrs-regarding-membrane-module-configurations-and-cyclic-aeration-modes
#13
Min Yang, Mengmeng Liu, Dawei Yu, Jiaxi Zheng, Zhichao Wu, Shuguang Zhao, Jiang Chang, Yuansong Wei
The airlift external circulation membrane bioreactors (AEC-MBRs) have been attracting attentions due to their capabilities of nutrient removal with lower energy demand and smaller footprint. The gap between laboratory study and full-scale AEC-MBRs regarding hydrodynamics needs to be addressed. In this study, impacts of seven design variables and cyclic aeration modes on hydrodynamics were studied for the scale-up of AEC-MBRs with computational fluid dynamics modelling. The results demonstrated that shear stress on membranes was 14...
September 6, 2017: Bioresource Technology
https://www.readbyqxmd.com/read/28938476/fetal-and-maternal-genetic-variants-influencing-neonatal-vitamin-d-status
#14
Ketil Størdal, Karl Mårild, German Tapia, Margareta Haugen, Arieh S Cohen, Benedicte A Lie, Lars C Stene
Objective: Several genetic polymorphisms determine vitamin D status. We aimed to estimate the strength of association of established 25-hydroyxvitamin D (25OHD) associated variants in the mother and in the fetus, with 25OHD concentration in newborn umbilical cord plasma. Methods: We randomly selected 578 mother and child dyads from the prospective Norwegian Mother and Child Cohort study (MoBa). 25OHD was assayed in maternal samples taken shortly after delivery and in cord samples...
August 18, 2017: Journal of Clinical Endocrinology and Metabolism
https://www.readbyqxmd.com/read/28938451/antibody-mediated-targeting-of-the-fgfr1c-isoform-increases-glucose-uptake-in-white-and-brown-adipose-tissue-in-male-mice
#15
Jo E Lewis, Ricardo J Samms, Scott Cooper, Jeni C Luckett, Alan C Perkins, James D Dunbar, Dennis P Smith, Paul J Emmerson, Andrew C Adams, Francis J P Ebling, Kostas Tsintzas
The increased prevalence of obesity and its cardiometabolic implications demonstrates the imperative to identify novel therapeutic targets able to effect meaningful metabolic changes in this population. Antibody-mediated targeting of fibroblast growth factor receptor 1c isoform (FGFR1c) has been shown to ameliorate hyperglycaemia and protect from diet- and genetically-induced obesity in rodents and non-human primates. However, it is currently unknown which tissue(s) contribute to this glucose lowering effect...
August 16, 2017: Endocrinology
https://www.readbyqxmd.com/read/28938420/bone-structural-characteristics-and-response-to-bisphosphonate-treatment-in-children-with-hajdu-cheney-syndrome
#16
Sophia Sakka, Rachel I Gafni, Justin H Davies, Bart Clarke, Peter Tebben, Mark Samuels, Vrinda Saraff, Klaus Klaushofer, Nadja Fratzl-Zelman, Paul Roschger, Frank Rauch, Wolfgang Högler
Context: Hajdu-Cheney syndrome (HJCYS) is a rare, multisystem, bone disease caused by heterozygous mutations in the NOTCH2 gene. Histomorphometric and bone ultrastructural analyses in children have not been reported and sparse evidence exists on response to bisphosphonate (BP) therapy. Objective: To investigate clinical and bone histomorphometric characteristics, bone matrix mineralization and the response of bone geometry and density to BP therapy. Patients: Five children with HJCYS (3 males) aged between 6...
September 8, 2017: Journal of Clinical Endocrinology and Metabolism
https://www.readbyqxmd.com/read/28938406/ct-derived-body-fat-distribution-and-incident-cardiovascular-disease-the-multi-ethnic-study-of-atherosclerosis
#17
Morgana L Mongraw-Chaffin, Matthew A Allison, Gregory L Burke, Michael H Criqui, Kunihiro Matsushita, Pamela Ouyang, Ravi V Shah, Christina M Shay, Cheryl A M Anderson
Background: Visceral fat has been shown to be associated with increased cardiometabolic risk, but the role of subcutaneous fat remains unclear, and evidence from diverse populations is lacking. We hypothesized that visceral, but not subcutaneous fat, would be independently associated with incident cardiovascular disease and all-cause mortality. Methods: Among 1,910 participants from the Multi-Ethnic Study of Atherosclerosis with abdominal fat measurements from computed tomography (CT) scans and followed for an average of 9...
August 16, 2017: Journal of Clinical Endocrinology and Metabolism
https://www.readbyqxmd.com/read/28938330/temporal-scalp-thickness-body-mass-index-and-suprafascial-placement-of-receiver-coil-of-the-cochlear-implant
#18
Orhan Ozturan, Alper Yenigun, Erol Senturk, Omer Faruk Calim, Fadlullah Aksoy, Sabri Baki Eren
OBJECTIVE: The objectives of this study are to demonstrate the relationship between the thickness of the temporal scalp and body mass index (BMI), age, and sex, and to present the surgical technique which we perform in patients with a thick scalp. MATERIALS AND METHODS: This is a retrospective, cross-sectional study. This study was performed in a tertiary referral center. Cranial computed tomography images of 469 subjects were included in the study. These subjects were evaluated according to BMI, age, and sex...
September 21, 2017: Journal of Craniofacial Surgery
https://www.readbyqxmd.com/read/28938327/adipose-tissue-derived-stromal-vascular-fraction-increases-osteogenesis-in-an-experimental-design-zygomatic-bone-defect-model
#19
Gaye Toplu, Derya Ozcelik, Merdan Serin, Havva Erdem, Arzu Turkseven Topacoglu
INTRODUCTION: Facial bone defects are frequently encountered problems in clinical practice. Bone grafts, flaps, and alloplastic materials are often used in their treatment. This leads to donor site morbidity and prolongation of the operation. The authors have planned this study to examine whether adipose tissue derived stromal vascular fraction (SVF) has an osteogenic effect in the critical sized membranous bone defect of the zygomatic bone. MATERIALS AND METHODS: Twenty male Wistar Albino rats were used...
September 21, 2017: Journal of Craniofacial Surgery
https://www.readbyqxmd.com/read/28938321/the-pierre-robin-mandible-is-hypoplastic-and-morphologically-abnormal
#20
Elizabeth G Zellner, Russell R Reid, Derek M Steinbacher
BACKGROUND: For Pierre Robin sequence (PRS) patients, there is incomplete characterization of 3D differences and effects of mandibular distraction osteogenesis (MDO) on the mandible compared to normal controls. METHODS: PRS infants who underwent MDO at 2 craniofacial referral centerals with pre- and postoperative computed tomography (CT) scans were identified. A group of age-matched control patients with CTs were identified in the PACS database. Demographic and perioperative data were recorded...
September 21, 2017: Journal of Craniofacial Surgery
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