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Christopher Thompson

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https://www.readbyqxmd.com/read/28544882/inference-and-evolutionary-analysis-of-genome-scale-regulatory-networks-in-large-phylogenies
#1
Christopher Koch, Jay Konieczka, Toni Delorey, Ana Lyons, Amanda Socha, Kathleen Davis, Sara A Knaack, Dawn Thompson, Erin K O'Shea, Aviv Regev, Sushmita Roy
Changes in transcriptional regulatory networks can significantly contribute to species evolution and adaptation. However, identification of genome-scale regulatory networks is an open challenge, especially in non-model organisms. Here, we introduce multi-species regulatory network learning (MRTLE), a computational approach that uses phylogenetic structure, sequence-specific motifs, and transcriptomic data, to infer the regulatory networks in different species. Using simulated data from known networks and transcriptomic data from six divergent yeasts, we demonstrate that MRTLE predicts networks with greater accuracy than existing methods because it incorporates phylogenetic information...
May 24, 2017: Cell Systems
https://www.readbyqxmd.com/read/28536297/androgen-receptor-inhibitor-induced-brcaness-and-parp-inhibition-are-synthetically-lethal-for-castration-resistant-prostate-cancer
#2
Likun Li, Styliani Karanika, Guang Yang, Jiangxiang Wang, Sanghee Park, Bradley M Broom, Ganiraju C Manyam, Wenhui Wu, Yong Luo, Spyridon Basourakos, Jian H Song, Gary E Gallick, Theodoros Karantanos, Dimitrios Korentzelos, Abul Kalam Azad, Jeri Kim, Paul G Corn, Ana M Aparicio, Christopher J Logothetis, Patricia Troncoso, Timothy Heffernan, Carlo Toniatti, Hyun-Sung Lee, Ju-Seog Lee, Xuemei Zuo, Wenjun Chang, Jianhua Yin, Timothy C Thompson
Cancers with loss-of-function mutations in BRCA1 or BRCA2 are deficient in the DNA damage repair pathway called homologous recombination (HR), rendering these cancers exquisitely vulnerable to poly(ADP-ribose) polymerase (PARP) inhibitors. This functional state and therapeutic sensitivity is referred to as "BRCAness" and is most commonly associated with some breast cancer types. Pharmaceutical induction of BRCAness could expand the use of PARP inhibitors to other tumor types. For example, BRCA mutations are present in only ~20% of prostate cancer patients...
May 23, 2017: Science Signaling
https://www.readbyqxmd.com/read/28536274/mapping-22q11-2-gene-dosage-effects-on-brain-morphometry
#3
Amy Lin, Christopher R K Ching, Ariana Vajdi, Daqiang Sun, Rachel K Jonas, Maria Jalbrzikowski, Leila Kushan-Wells, Laura Pacheco Hansen, Emma Krikorian, Boris Gutman, Deepika Dokoru, Gerhard Helleman, Paul M Thompson, Carrie E Bearden
Reciprocal chromosomal rearrangements at the 22q11.2 locus are associated with elevated risk of neurodevelopmental disorders. The 22q11.2 deletion confers the highest known genetic risk for schizophrenia, but a duplication in the same region is strongly associated with autism and is less common in schizophrenia cases than in the general population. Here we conducted the first study of 22q11.2 gene dosage effects on brain structure in a sample of 143 human subjects: 66 with 22q11.2 deletions (22q-del; 32 males), 21 with 22q11...
May 23, 2017: Journal of Neuroscience: the Official Journal of the Society for Neuroscience
https://www.readbyqxmd.com/read/28512850/in-situ-handheld-3d-bioprinting-for-cartilage-regeneration
#4
Claudia Di Bella, Serena Duchi, Cathal D O'Connell, Romane Blanchard, Cheryl Augustine, Zhilian Yue, Fletcher Thompson, Christopher Richards, Stephen Beirne, Carmine Onofrillo, Sebastien H Bauquier, Stewart D Ryan, Peter Pivonka, Gordon G Wallace, Peter F Choong
Articular cartilage injuries experienced at an early age can lead to the development of osteoarthritis later in life. In situ 3D printing is an exciting and innovative bio-fabrication technology that enables the surgeon to deliver tissue- engineering techniques at the time and location of need. We have created a hand- held 3D printing device (Biopen) that allows the simultaneous co-axial extrusion of bioscaffold and cultured cells directly into the cartilage defect in vivo in a single session surgery. This pilot study assesses the ability of the Biopen to repair a full thickness chondral defect and the early outcomes in cartilage regeneration, and compares these results to other treatments in a large animal model...
May 17, 2017: Journal of Tissue Engineering and Regenerative Medicine
https://www.readbyqxmd.com/read/28508892/high-precision-hyperfine-measurements-in-bismuth-challenge-bound-state-strong-field-qed
#5
Johannes Ullmann, Zoran Andelkovic, Carsten Brandau, Andreas Dax, Wolfgang Geithner, Christopher Geppert, Christian Gorges, Michael Hammen, Volker Hannen, Simon Kaufmann, Kristian König, Yuri A Litvinov, Matthias Lochmann, Bernhard Maaß, Johann Meisner, Tobias Murböck, Rodolfo Sánchez, Matthias Schmidt, Stefan Schmidt, Markus Steck, Thomas Stöhlker, Richard C Thompson, Christian Trageser, Jonas Vollbrecht, Christian Weinheimer, Wilfried Nörtershäuser
Electrons bound in highly charged heavy ions such as hydrogen-like bismuth (209)Bi(82+) experience electromagnetic fields that are a million times stronger than in light atoms. Measuring the wavelength of light emitted and absorbed by these ions is therefore a sensitive testing ground for quantum electrodynamical (QED) effects and especially the electron-nucleus interaction under such extreme conditions. However, insufficient knowledge of the nuclear structure has prevented a rigorous test of strong-field QED...
May 16, 2017: Nature Communications
https://www.readbyqxmd.com/read/28507895/diverging-volumetric-trajectories-following-pediatric-traumatic-brain-injury
#6
Emily L Dennis, Joshua Faskowitz, Faisal Rashid, Talin Babikian, Richard Mink, Christopher Babbitt, Jeffrey Johnson, Christopher C Giza, Neda Jahanshad, Paul M Thompson, Robert F Asarnow
Traumatic brain injury (TBI) is a significant public health concern, and can be especially disruptive in children, derailing on-going neuronal maturation in periods critical for cognitive development. There is considerable heterogeneity in post-injury outcomes, only partially explained by injury severity. Understanding the time course of recovery, and what factors may delay or promote recovery, will aid clinicians in decision-making and provide avenues for future mechanism-based therapeutics. We examined regional changes in brain volume in a pediatric/adolescent moderate-severe TBI (msTBI) cohort, assessed at two time points...
2017: NeuroImage: Clinical
https://www.readbyqxmd.com/read/28499405/a-comparative-molecular-and-3-dimensional-structural-investigation-into-cross-continental-and-novel-avian-trypanosoma-spp-in-australia
#7
Crystal Cooper, R C Andrew Thompson, Adriana Botero, Amanda Kristancic, Christopher Peacock, Yaowanuj Kirilak, Peta L Clode
BACKGROUND: Molecular and structural information on avian Trypanosoma spp. throughout Australia is limited despite their intrinsic value in understanding trypanosomatid evolution, diversity, and structural biology. In Western Australia tissue samples (n = 429) extracted from 93 birds in 25 bird species were screened using generic PCR primers to investigate the diversity of Trypanosoma spp. To investigate avian trypanosome structural biology the first 3-dimensional ultrastructural models of a Trypanosoma spp...
May 12, 2017: Parasites & Vectors
https://www.readbyqxmd.com/read/28490751/unexpected-efficacy-of-a-novel-sodium-channel-modulator-in-dravet-syndrome
#8
Lyndsey L Anderson, Nicole A Hawkins, Christopher H Thompson, Jennifer A Kearney, Alfred L George
Dravet syndrome, an epileptic encephalopathy affecting children, largely results from heterozygous loss-of-function mutations in the brain voltage-gated sodium channel gene SCN1A. Heterozygous Scn1a knockout (Scn1a (+/-)) mice recapitulate the severe epilepsy phenotype of Dravet syndrome and are an accepted animal model. Because clinical observations suggest conventional sodium channel blocking antiepileptic drugs may worsen the disease, we predicted the phenotype of Scn1a (+/-) mice would be exacerbated by GS967, a potent, unconventional sodium channel blocker...
May 10, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28490171/management-of-perforation-following-stricture-dilation
#9
Matthew J Skinner, Christopher C Thompson
Strictures can occur along any portions of the gastrointestinal tract for a variety of reasons and are commonly complicated by partial or complete obstruction. Endoscopic management of strictures is common, and generally safe. The most dreaded complication of stricture dilation is perforation due to high morbidity and mortality. The treatment of perforation following stricture dilation is commonly multidisciplinary and should involve gastrointestinal, surgical, and interventional radiology teams. A variety of devices and techniques are available to the endoscopist which now allow for successful endoscopic management of perforation in many cases...
May 8, 2017: Minerva Chirurgica
https://www.readbyqxmd.com/read/28487132/this-could-make-you-pull-your-hair-out
#10
Pichamol Jirapinyo, Christopher C Thompson
No abstract text is available yet for this article.
May 6, 2017: Gastroenterology
https://www.readbyqxmd.com/read/28471865/correction-of-cerebrospinal-fluid-protein-in-infants-with-traumatic-lumbar-punctures
#11
Todd W Lyons, Andrea T Cruz, Stephen B Freedman, Joseph L Arms, Paul L Aronson, Alesia H Fleming, Dina M Kulik, Prashant Mahajan, Rakesh D Mistry, Christopher M Pruitt, Amy D Thompson, Lise Nigrovic
In our multi-center cohort of infants ≤ 60 days of age, we identified 2,646 infants with a traumatic lumbar puncture of which 31 (1.2%) had bacterial meningitis. For every 1,000 cerebrospinal fluid (CSF) red blood cells per mm, cerebrospinal (CSF) protein increased 1.1 mg/dL [95% confidence interval (CI) 1.0-1.2 mg/dL].
May 3, 2017: Pediatric Infectious Disease Journal
https://www.readbyqxmd.com/read/28471515/critical-points-for-an-accurate-human-genome-analysis
#12
REVIEW
Stefan J White, Jeroen F J Laros, Egbert Bakker, Anne Cambon-Thomsen, Martin Eden, Samantha Leonard, Hanns Lochmüller, Gert Matthijs, Christopher Mattocks, Simon Patton, Katherine Payne, Hans Scheffer, Erica Souche, Ellen Thomassen, Rachel Thompson, Jan Traeger-Synodinos, Steven Van Vooren, Bart Janssen, Johan T den Dunnen
Next-generation sequencing is radically changing how DNA diagnostic laboratories operate. What started as a single-gene profession is now developing into gene panel sequencing and whole exome and genome sequencing (WES/WGS) analyses. With further advances in sequencing technology and concomitant price reductions, whole genome sequencing (WGS) will soon become the standard and be routinely offered. Here we focus on the critical steps involved in performing WGS, with a particular emphasis on points where WGS differs from WES, the important variables that should be taken into account, and the quality control measures that can be taken to monitor the process...
May 4, 2017: Human Mutation
https://www.readbyqxmd.com/read/28469218/metastatic-breast-cancer-mimicking-a-solitary-small-colonic-erosion
#13
Hiroyuki Aihara, Michael G Drage, Agoston Agoston, Christopher C Thompson
No abstract text is available yet for this article.
May 2017: American Journal of Gastroenterology
https://www.readbyqxmd.com/read/28461624/loss-of-cardio-protective-effects-at-the-adamts7-locus-due-to-gene-smoking-interactions
#14
Danish Saleheen, Wei Zhao, Robin Young, Christopher P Nelson, Weang Kee Ho, Jane F Ferguson, Asif Rasheed, Kristy Ou, Sylvia T Nurnberg, Robert C Bauer, Anuj Goel, Ron Do, Alexandre F R Stewart, Jaana Hartiala, Weihua Zhang, Gudmar Thorleifsson, Rona J Strawbridge, Juha Sinisalo, Stavroula Kanoni, Sanaz Sedaghat, Eirini Marouli, Kati Kristiansson, Jing Hua Zhao, Robert Scott, Dominique Gauguier, Svati H Shah, Albert Vernon Smith, Natalie Van Zuydam, Amanda J Cox, Christina Willenborg, Thorsten Kessler, Lingyao Zeng, Michael A Province, Andrea Ganna, Lars Lind, Nancy L Pedersen, Charles C White, Anni Joensuu, Marcus Edi Kleber, Alistair S Hall, Winfried März, Veikko Salomaa, Christopher O'Donnell, Erik Ingelsson, Mary F Feitosa, Jeanette Erdmann, Donald W Bowden, Colin N A Palmer, Vilmundur Gudnason, Ulf de Faire, Pierre Zalloua, Nicholas Wareham, John R Thompson, Kari Kuulasmaa, George Dedoussis, Markus Perola, Abbas Dehghan, John C Chambers, Jaspal Kooner, Hooman Allayee, Panos Deloukas, Ruth McPherson, Kari Stefansson, Heribert Schunkert, Sekar Kathiresan, Martin Farrall, Philippe M Frossard, Daniel J Rader, Nilesh Samani, Muredach P Reilly
Background -Common diseases such as coronary heart disease (CHD) are complex in etiology. The interaction of genetic susceptibility with lifestyle factors may play a prominent role. However, gene-environment interactions for CHD have been difficult to identify. Here, we investigate interaction of smoking behavior, a potent lifestyle factor, with genotypes that have been shown to associate with CHD risk. Methods -We analyzed data on 60,919 CHD cases and 80,243 controls from 29 studies for gene-smoking interactions for genetic variants at 45 loci previously reported to associate with CHD risk...
May 1, 2017: Circulation
https://www.readbyqxmd.com/read/28459575/7-substituted-2-nitro-5-6-dihydroimidazo-2-1-b-1-3-oxazines-novel-antitubercular-agents-lead-to-a-new-preclinical-candidate-for-visceral-leishmaniasis
#15
Andrew M Thompson, Patrick D O'Connor, Andrew J Marshall, Vanessa Yardley, Louis Maes, Suman Gupta, Delphine Launay, Stephanie Braillard, Eric Chatelain, Scott G Franzblau, Baojie Wan, Yuehong Wang, Zhenkun Ma, Christopher B Cooper, William A Denny
Within a backup program for the clinical investigational agent pretomanid (PA-824), scaffold hopping from delamanid inspired the discovery of a novel class of potent antitubercular agents that unexpectedly possessed notable utility against the kinetoplastid disease visceral leishmaniasis (VL). Following the identification of delamanid analogue DNDI-VL-2098 as a VL preclinical candidate, this structurally related 7-substituted 2-nitro-5,6-dihydroimidazo[2,1-b][1,3]oxazine class was further explored, seeking efficacious backup compounds with improved solubility and safety...
May 11, 2017: Journal of Medicinal Chemistry
https://www.readbyqxmd.com/read/28457132/analysis-of-photo-irradiated-water-accommodated-fractions-of-crude-oils-using-tandem-tims-and-ft-icr-ms
#16
Paolo Benigni, Kathia Sandoval, Christopher J Thompson, Mark E Ridgeway, Melvin A Park, Piero R Gardinali, Francisco Fernandez-Lima
For the first time, trapped ion mobility spectrometry (TIMS) in tandem with Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS) is applied to the analysis of the low energy water accommodated fraction (WAF) of a crude oil as a function of the exposure to light. The TIMS-FT-ICR MS analysis provided, in addition to the heteroatom series identification, new insights into the WAF isomeric complexity (e.g., [m/z; chemical formula; collision cross section] datasets) for a better evaluation of the degree of chemical and structural photo-induced transformations...
May 1, 2017: Environmental Science & Technology
https://www.readbyqxmd.com/read/28456829/the-evolution-of-a-pediatric-ventricular-assist-device-program-the-boston-children-s-hospital-experience
#17
Beth Hawkins, Francis Fynn-Thompson, Kevin P Daly, Michelle Corf, Elizabeth Blume, Jean Connor, Courtney Porter, Christopher Almond, Christina VanderPluym
Mechanical circulatory support in the form of ventricular assist devices (VADs) in children has undergone rapid growth in the last decade. With expansion of device options available for larger children and adolescents, the field of outpatient VAD support has flourished, with many programs unprepared for the clinical, programmatic, and administrative responsibilities. From preimplantation VAD evaluation and patient education to postimplant VAD management, the VAD program, staffed with an interdisciplinary team, is essential to providing safe, effective, and sustainable care for a new technology in an exceedingly complex patient population...
April 29, 2017: Pediatric Cardiology
https://www.readbyqxmd.com/read/28454349/low-serum-testosterone-is-associated-with-tumor-aggressiveness-and-poor-prognosis-in-prostate-cancer
#18
Huakang Tu, Jian Gu, Qing H Meng, Jeri Kim, Sara Strom, John W Davis, Yonggang He, Elizabeth A Wagar, Timothy C Thompson, Christopher J Logothetis, Xifeng Wu
Serum testosterone is a potential marker to distinguish between indolent and aggressive prostate cancer (PCa). The present study aimed to investigate whether low levels of total serum testosterone at diagnosis were associated with aggressive PCa and poor clinical outcomes. In total, 762 non-Hispanic Caucasian men with previously untreated PCa were recruited from The University of Texas MD Anderson Cancer Center (Houston, TX, USA). Patients were categorized into three groups based on their total serum testosterone levels according to clinical guidelines [low (<230 ng/dl), intermediate (230-350 ng/dl) and normal (>350 ng/dl)]...
March 2017: Oncology Letters
https://www.readbyqxmd.com/read/28452365/pluronic-based-%C3%AE-cyclodextrin-polyrotaxanes-for-treatment-of-niemann-pick-type-c-disease
#19
Christopher J Collins, Bradley P Loren, Md Suhail Alam, Yawo Mondjinou, Joseph L Skulsky, Cheyenne R Chaplain, Kasturi Haldar, David H Thompson
Niemann-Pick Type C disease (NPC) is a rare metabolic disorder characterized by disruption of normal cholesterol trafficking within the cells of the body. There are no FDA approved treatments available for NPC patients. Recently, the cycloheptaglucoside 2-hydroxypropyl-β-cyclodextrin (HP-β-CD) has shown efficacy as a potential NPC therapeutic by extending lifetime in NPC mice, delaying neurodegeneration, and decreasing visceral and neurological cholesterol burden. Although promising, systemic HP-β-CD treatment is limited by a pharmacokinetic profile characterized by rapid loss through renal filtration...
April 28, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28451598/epidemiology-and-impact-of-abdominal-oblique-injuries-in-major-and-minor-league-baseball
#20
Christopher L Camp, Stan Conte, Steven B Cohen, Matthew Thompson, John D' Angelo, Joseph T Nguyen, Joshua S Dines
BACKGROUND: Oblique injuries are known to be a common cause of time out of play for professional baseball players, and prior work has suggested that injury rates may be on the rise in Major League Baseball (MLB). PURPOSE: To better understand the current incidence of oblique injuries, determine their impact based on time out of play, and to identify common injury patterns that may guide future injury prevention programs. STUDY DESIGN: Descriptive epidemiological study...
March 2017: Orthopaedic Journal of Sports Medicine
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