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https://www.readbyqxmd.com/read/29448473/enhanced-diffusion-with-abnormal-temperature-dependence-in-underdamped-space-periodic-systems-subject-to-time-periodic-driving
#1
I G Marchenko, I I Marchenko, A V Zhiglo
We present a study of the diffusion enhancement of underdamped Brownian particles in a one-dimensional symmetric space-periodic potential due to external symmetric time-periodic driving with zero mean. We show that the diffusivity can be enhanced by many orders of magnitude at an appropriate choice of the driving amplitude and frequency. The diffusivity demonstrates abnormal (decreasing) temperature dependence at the driving amplitudes exceeding a certain value. At any fixed driving frequency Ω normal temperature dependence of the diffusivity is restored at low enough temperatures, T<T_{TAD}(Ω)-in contrast with the problem with constant external driving...
January 2018: Physical Review. E
https://www.readbyqxmd.com/read/29440643/dissection-and-function-of-autoimmunity-associated-tnfaip3-a20-gene-enhancers-in-humanized-mouse-models
#2
Upneet K Sokhi, Mark P Liber, Laura Frye, Sungho Park, Kyuho Kang, Tania Pannellini, Baohong Zhao, Rada Norinsky, Lionel B Ivashkiv, Shiaoching Gong
Enhancers regulate gene expression and have been linked with disease pathogenesis. Little is known about enhancers that regulate human disease-associated genes in primary cells relevant for pathogenesis. Here we use BAC transgenics and genome editing to dissect, in vivo and in primary immune cells, enhancers that regulate human TNFAIP3, which encodes A20 and is linked with autoimmune diseases. A20 expression is dependent on a topologically associating subdomain (sub-TAD) that harbors four enhancers, while another >20 enhancers in the A20 locus are redundant...
February 13, 2018: Nature Communications
https://www.readbyqxmd.com/read/29431717/inter-stage-thermophilic-aerobic-digestion-may-increase-organic-matter-removal-from-wastewater-sludge-without-decreasing-biogas-production
#3
Sasha D Hafner, Johan T Madsen, Johanna M Pedersen, Charlotte Rennuit
Combining aerobic and anaerobic digestion in a two-stage system can improve the degradation of wastewater sludge over the use of either technology alone. But use of aerobic digestion as a pre-treatment before anaerobic digestion generally reduces methane production due to loss of substrate through oxidation. An inter-stage configuration may avoid this reduction in methane production. Here, we evaluated the use of thermophilic aerobic digestion (TAD) as an inter-stage treatment for wastewater sludge using laboratory-scale semi-continuous reactors...
February 2018: Water Science and Technology: a Journal of the International Association on Water Pollution Research
https://www.readbyqxmd.com/read/29431468/nipple-invasive-primary-carcinomas-clinical-imaging-and-pathologic-features-of-breast-carcinomas-originating-in-the-nipple
#4
Mary Ann Sanders, Jane E Brock, Beth T Harrison, Tad J Wieczorek, Xuefei Hong, Anthony J Guidi, Deborah A Dillon, Leslie Max, Susan C Lester
CONTEXT: - Patients choosing to retain the nipple when undergoing therapeutic or prophylactic mastectomy are at risk for cancers arising at that site. OBJECTIVE: - To identify cases of invasive carcinoma arising within the nipple and to investigate their clinical, imaging, biologic, and staging features. DESIGN: - Carcinomas were identified by prospective review of surgical and consult cases at 4 hospitals. RESULTS: - The 24 patients identified presented with symptoms related to the nipple...
February 12, 2018: Archives of Pathology & Laboratory Medicine
https://www.readbyqxmd.com/read/29429976/thrombopoietin-signaling-to-chromatin-elicits-rapid-and-pervasive-epigenome-remodeling-within-poised-chromatin-architectures
#5
Federico Comoglio, Hyun Jung Park, Stefan Schoenfelder, Iros Barozzi, Daniel Bode, Peter Fraser, Anthony R Green
Thrombopoietin (TPO) is a critical cytokine regulating hematopoietic stem cell maintenance and differentiation into the megakaryocytic lineage. However, the transcriptional and chromatin dynamics elicited by TPO signaling are poorly understood. Here, we study the immediate early transcriptional and cis-regulatory responses to TPO in hematopoietic stem/progenitor cells (HSPCs) and use this paradigm of cytokine signaling to chromatin to dissect the relation between cis- regulatory activity and chromatin architecture...
February 2, 2018: Genome Research
https://www.readbyqxmd.com/read/29427093/comparison-between-locked-and-unlocked-intramedullary-nails-in-intertrochanteric-fractures
#6
Riccardo Maria Lanzetti, Auro Caraffa, Domenico Lupariello, Paolo Ceccarini, Giulio Gambaracci, Luigi Meccariello, Francesco Manfreda, Daniele Maiettini, Cristina Ibáñez Vicente, Michele Scialpi, Olga Bisaccia, Giuseppe Rinonapoli, Michele Bisaccia
BACKGROUND: Intertrochanteric fractures are of great interest worldwide and are the most frequently operated fractures. Intramedullary nailing is commonly used in the treatment of intertrochanteric fractures. The purpose of this study is to assess the necessity of using the distal blocking screw in 31-A1 and 31-A2 fractures, classified according to the Orthopaedic Trauma Association classification system (AO/OTA). METHODS: This is a prospective study of 143 consecutive patients (mean age 85...
February 9, 2018: European Journal of Orthopaedic Surgery & Traumatology: Orthopédie Traumatologie
https://www.readbyqxmd.com/read/29422670/alterations-of-specific-chromatin-conformation-affect-atra-induced-leukemia-cell-differentiation
#7
Yanjian Li, Yi He, Zhengyu Liang, Yang Wang, Fengling Chen, Mohamed Nadhir Djekidel, Guipeng Li, Xu Zhang, Shuqin Xiang, Zejun Wang, Juntao Gao, Michael Q Zhang, Yang Chen
Chromatin conformation plays a key role in regulating gene expression and controlling cell differentiation. However, the whole-genome chromatin conformation changes that occur during leukemia cell differentiation are poorly understood. Here, we characterized the changes in chromatin conformation, histone states, chromatin accessibility, and gene expression using an all-trans retinoic acid (ATRA)-induced HL-60 cell differentiation model. The results showed that the boundaries of topological associated domains (TADs) were stable during differentiation; however, the chromatin conformations within several specific TADs were obviously changed...
February 8, 2018: Cell Death & Disease
https://www.readbyqxmd.com/read/29419817/investigation-of-the-spatial-structure-and-interactions-of-the-genome-at-sub-kilobase-pair-resolution-using-t2c
#8
Petros Kolovos, Rutger W W Brouwer, Christel E M Kockx, Michael Lesnussa, Nick Kepper, Jessica Zuin, A M Ali Imam, Harmen J G van de Werken, Kerstin S Wendt, Tobias A Knoch, Wilfred F J van IJcken, Frank Grosveld
Chromosome conformation capture (3C) and its derivatives (e.g., 4C, 5C and Hi-C) are used to analyze the 3D organization of genomes. We recently developed targeted chromatin capture (T2C), an inexpensive method for studying the 3D organization of genomes, interactomes and structural changes associated with gene regulation, the cell cycle, and cell survival and development. Here, we present the protocol for T2C based on capture, describing all experimental steps and bio-informatic tools in full detail. T2C offers high resolution, a large dynamic interaction frequency range and a high signal-to-noise ratio...
March 2018: Nature Protocols
https://www.readbyqxmd.com/read/29416042/stratification-of-tad-boundaries-reveals-preferential-insulation-of-super-enhancers-by-strong-boundaries
#9
Yixiao Gong, Charalampos Lazaris, Theodore Sakellaropoulos, Aurelie Lozano, Prabhanjan Kambadur, Panagiotis Ntziachristos, Iannis Aifantis, Aristotelis Tsirigos
The metazoan genome is compartmentalized in areas of highly interacting chromatin known as topologically associating domains (TADs). TADs are demarcated by boundaries mostly conserved across cell types and even across species. However, a genome-wide characterization of TAD boundary strength in mammals is still lacking. In this study, we first use fused two-dimensional lasso as a machine learning method to improve Hi-C contact matrix reproducibility, and, subsequently, we categorize TAD boundaries based on their insulation score...
February 7, 2018: Nature Communications
https://www.readbyqxmd.com/read/29410876/experimental-evidence-of-a-pathogen-invasion-threshold
#10
Tad A Dallas, Martin Krkošek, John M Drake
Host density thresholds to pathogen invasion separate regions of parameter space corresponding to endemic and disease-free states. The host density threshold is a central concept in theoretical epidemiology and a common target of human and wildlife disease control programmes, but there is mixed evidence supporting the existence of thresholds, especially in wildlife populations or for pathogens with complex transmission modes (e.g. environmental transmission). Here, we demonstrate the existence of a host density threshold for an environmentally transmitted pathogen by combining an epidemiological model with a microcosm experiment...
January 2018: Royal Society Open Science
https://www.readbyqxmd.com/read/29408904/sequence-based-multiscale-modeling-for-high-throughput-chromosome-conformation-capture-hi-c-data-analysis
#11
Kelin Xia
In this paper, we introduce sequence-based multiscale modeling for biomolecular data analysis. We employ spectral clustering method in our modeling and reveal the difference between sequence-based global scale clustering and local scale clustering. Essentially, two types of distances, i.e., Euclidean (or spatial) distance and genomic (or sequential) distance, can be used in data clustering. Clusters from sequence-based global scale models optimize spatial distances, meaning spatially adjacent loci are more likely to be assigned into the same cluster...
2018: PloS One
https://www.readbyqxmd.com/read/29406353/opioids-after-orthopaedic-surgery-there-is-a-need-for-universal-prescribing-recommendations-commentary-on-an-article-by-matthew-j-sabatino-md-ms-et-al-excess-opioid-medication-and-variation-in-prescribing-patterns-following-common-orthopaedic-procedures
#12
https://www.readbyqxmd.com/read/29402712/patients-at-risk-preoperative-opioid-use-affects-opioid-prescribing-refills-and-outcomes-after-total-knee-arthroplasty
#13
Nicholas M Hernandez, Joshua A Parry, Tad M Mabry, Michael J Taunton
BACKGROUND: The purpose of this study was to evaluate the effect of preoperative opioid use on opioid prescriptions, refills, and clinical outcomes after total knee arthroplasty (TKA). METHODS: A retrospective review identified 53 patients on preoperative opioids who were matched 1:2 to 106 opioid-naive patients undergoing primary TKA with at least 2-year follow-up. Opioid refills, Knee Society Score (preoperative and follow-up), morphine equivalent dose (MED) prescribed, and persistent opioid use were compared between groups...
January 16, 2018: Journal of Arthroplasty
https://www.readbyqxmd.com/read/29399864/in-house-monitoring-of-steroid-hormone-metabolites-in-urine-informs-breeding-management-of-a-giant-anteater-myrmechophaga-tridactyla
#14
Laura Amendolagine, Tad Schoffner, Lynn Koscielny, Mandi Schook, Debra Copeland, James Casteel, Brianna Duff, Diana Koester
Although numbers of giant anteaters within North American facilities have been steadily increasing for the last 15 years, the population now exhibits an unstable age distribution with genetically valuable individuals nearing reproductive senescence. Contributing to this issue is the Association of Zoos and Aquariums (AZA) described lack of standardization of breeding introduction practices and high risk of female injury occurring during such pairings. This report describes the development of a successful breeding protocol at Cleveland Metroparks Zoo based on hormone monitoring and efficient communication between science and animal management teams that minimizes risk of female injury...
February 5, 2018: Zoo Biology
https://www.readbyqxmd.com/read/29396809/molecular-testing-of-nodules-with-a-suspicious-or-malignant-cytologic-diagnosis-in-the-setting-of-non-invasive-follicular-thyroid-neoplasm-with-papillary-like-nuclear-features-niftp
#15
Kyle C Strickland, Markus Eszlinger, Ralf Paschke, Trevor E Angell, Erik K Alexander, Ellen Marqusee, Matthew A Nehs, Vickie Y Jo, Alarice Lowe, Marina Vivero, Monica Hollowell, Xiaohua Qian, Tad Wieczorek, Christopher A French, Lisa A Teot, Edmund S Cibas, Neal I Lindeman, Jeffrey F Krane, Justine A Barletta
Non-invasive follicular thyroid neoplasm with papillary-like nuclear features (NIFTP) is an indolent thyroid tumor characterized by frequent RAS mutations and an absence of the BRAF V600E mutation commonly seen in classical papillary thyroid carcinoma (cPTC). The ability to differentiate potential NIFTP/follicular variant of papillary thyroid carcinoma (FVPTC) from cPTC at the time of fine-needle aspiration (FNA) can facilitate conservative management of NIFTP. The aim of the current study was to investigate how molecular testing may add to cytologic assessment in the pre-operative differentiation of potential NIFTP/FVPTC and cPTC...
February 2, 2018: Endocrine Pathology
https://www.readbyqxmd.com/read/29379149/evolutionary-dynamics-of-3d-genome-architecture-following-polyploidization-in-cotton
#16
Maojun Wang, Pengcheng Wang, Min Lin, Zhengxiu Ye, Guoliang Li, Lili Tu, Chao Shen, Jianying Li, Qingyong Yang, Xianlong Zhang
The formation of polyploids significantly increases the complexity of transcriptional regulation, which is expected to be reflected in sophisticated higher-order chromatin structures. However, knowledge of three-dimensional (3D) genome structure and its dynamics during polyploidization remains poor. Here, we characterize 3D genome architectures for diploid and tetraploid cotton, and find the existence of A/B compartments and topologically associated domains (TADs). By comparing each subgenome in tetraploids with its extant diploid progenitor, we find that genome allopolyploidization has contributed to the switching of A/B compartments and the reorganization of TADs in both subgenomes...
January 29, 2018: Nature Plants
https://www.readbyqxmd.com/read/29373683/aortic-elongation-in-aortic-aneurysm-and-dissection-the-t%C3%A3-bingen-aortic-pathoanatomy-taipan-project
#17
Tobias Krüger, Rodrigo Sandoval Boburg, Mario Lescan, Alexandre Oikonomou, Wilke Schneider, Luise Vöhringer, Henning Lausberg, Fabian Bamberg, Gunnar Blumenstock, Christian Schlensak
OBJECTIVES: To study the lengths and diameters of aortic segments in healthy and diseased aortas and to assess the role of aortic elongation in Type A aortic dissection (TAD) prediction. METHODS: Ectasia and aneurysm were defined by ascending aorta diameters of 45-54 mm and ≥55 mm, respectively. Computed tomography angiography studies of 256 healthy, 102 ectasia, 38 aneurysm, 17 pre-TAD and 166 TAD aortas were analysed using curved multiplanar reformats. RESULTS: The study groups were structurally equal...
January 24, 2018: European Journal of Cardio-thoracic Surgery
https://www.readbyqxmd.com/read/29367209/the-complement-c3a-c3ar-axis-promotes-development-of-thoracic-aortic-dissection-via-regulation-of-mmp2-expression
#18
Weihong Ren, Yan Liu, Xuerui Wang, Chunmei Piao, Youcai Ma, Shulan Qiu, Lixin Jia, Boya Chen, Yuan Wang, Wenjian Jiang, Shuai Zheng, Chang Liu, Nan Dai, Feng Lan, Hongjia Zhang, Wen-Chao Song, Jie Du
Thoracic aortic dissection (TAD), once ruptured, is devastating to patients, and no effective pharmaceutical therapy is available. Anaphylatoxins released by complement activation are involved in a variety of diseases. However, the role of the complement system in TAD is unknown. We found that plasma levels of C3a, C4a, and C5a were significantly increased in patients with TAD. Elevated circulating C3a levels were also detected in the developmental process of mouse TAD, which was induced by β-aminopropionitrile monofumarate (BAPN) treatment, with enhanced expression of C1q and properdin in mouse dissected aortas...
January 24, 2018: Journal of Immunology: Official Journal of the American Association of Immunologists
https://www.readbyqxmd.com/read/29356542/ultrafast-tailoring-of-carbon-surfaces-via-electrochemically-attached-triazolinediones
#19
William Laure, Kevin De Bruycker, Pieter Espeel, David Fournier, Patrice Woisel, Filip E Du Prez, Joël Lyskawa
The straightforward coupling between a triazolinedione (TAD) unit and citronellyl derivatives via an Alder-ene reaction has been exploited to tailor the physicochemical surface properties of glassy carbon surfaces (GC) in an ultrafast and additive-free manner. For this purpose, we first covalently grafted a TAD precursor onto GC via the electrochemical reduction of an in situ generated diazonium salt, which was then electrochemically oxidized into the desired GC-bonded TAD unit. A kinetic study of the modification of this reactive layer with an electroactive ferrocene probe proved that a complete functionalization was obtained in merely one minute...
January 22, 2018: Langmuir: the ACS Journal of Surfaces and Colloids
https://www.readbyqxmd.com/read/29353179/features-of-borderline-personality-disorder-as-a-mediator-of-the-relation-between-childhood-traumatic-experiences-and-psychosis-like-experiences-in-patients-with-mood-disorder
#20
Ilya Baryshnikov, Kari Aaltonen, Jaana Suvisaari, Maaria Koivisto, Martti Heikkinen, Grigori Joffe, Erkki Isometsä
BACKGROUND: Psychosis-like experiences (PEs) are common in patients with non-psychotic disorders. Several factors predict reporting of PEs in mood disorders, including mood-associated cognitive biases, anxiety and features of borderline personality disorder (BPD). Childhood traumatic experiences (CEs), often reported by patients with BPD, are an important risk factor for mental disorders. We hypothesized that features of BPD may mediate the relationship between CEs and PEs. In this study, we investigated the relationships between self-reported PEs, CEs and features of BPD in patients with mood disorders...
January 17, 2018: European Psychiatry: the Journal of the Association of European Psychiatrists
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