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https://www.readbyqxmd.com/read/29036404/the-value-of-prior-knowledge-in-machine-learning-of-complex-network-systems
#1
Dana Ferranti, David Krane, David Craft
Motivation: Our overall goal is to develop machine-learning approaches based on genomics and other relevant accessible information for use in predicting how a patient will respond to a given proposed drug or treatment. Given the complexity of this problem, we begin by developing, testing and analyzing learning methods using data from simulated systems, which allows us access to a known ground truth. We examine the benefits of using prior system knowledge and investigate how learning accuracy depends on various system parameters as well as the amount of training data available...
July 7, 2017: Bioinformatics
https://www.readbyqxmd.com/read/29028898/diffloop-a-computational-framework-for-identifying-and-analyzing-differential-dna-loops-from-sequencing-data
#2
Caleb A Lareau, Martin J Aryee
Summary: The three-dimensional architecture of DNA within the nucleus is a key determinant of interactions between genes, regulatory elements, and transcriptional machinery. As a result, differences in DNA looping structure are associated with variation in gene expression and cell state. To systematically assess changes in DNA looping architecture between samples, we introduce diffloop, an R/Bioconductor package that provides a suite of functions for the quality control, statistical testing, annotation, and visualization of DNA loops...
September 29, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28986454/validation-of-polygenic-scores-for-qt-interval-in-clinical-populations
#3
Michael A Rosenberg, Steven A Lubitz, Honghuang Lin, Gulum Kosova, Victor M Castro, Paul Huang, Patrick T Ellinor, Roy H Perlis, Christopher Newton-Cheh
BACKGROUND: Polygenic risk scores (PGS) enable rapid estimation of genome-wide susceptibility for traits, which may be useful in clinical settings, such as prediction of QT interval. In this study, we sought to validate PGS for QT interval in 2 real-world cohorts of European ancestry (EA) and African ancestry (AA). METHODS AND RESULTS: Two thousand nine hundred and fifteen participants of EA and 366 of AA in the MGH CAMP study (Cardiology and Metabolic Patient) were genotyped on a genome-wide array and imputed to the 1000 Genomes reference panel...
October 2017: Circulation. Cardiovascular Genetics
https://www.readbyqxmd.com/read/28920518/the-indirect-costs-of-underfunding-foreign-partners-in-global-health-research-a-case-study
#4
Johanna T Crane, Irene Andia Biraro, Tamer M Fouad, Yap Boum, David R Bangsberg
This study of a global health research partnership assesses how U.S. fiscal administrative policies impact capacity building at foreign partner institutions. We conducted a case study of a research collaboration between Mbarara University of Science and Technology (MUST) in Mbarara, Uganda, and originally the University of California San Francisco (UCSF), but now Massachusetts General Hospital (MGH). Our case study is based on three of the authors' experiences directing and working with this partnership from its inception in 2003 through 2015...
September 16, 2017: Global Public Health
https://www.readbyqxmd.com/read/28903787/a-preliminary-investigation-of-metacognitive-therapy-and-habit-reversal-as-a-treatment-for-trichotillomania
#5
Hossein Shareh
BACKGROUND: Not all patients suffering from trichotillomania (TTM) recover completely using CBT and of those that do, only a few maintain their recovery over time. AIMS: The purpose of the present study was to investigate the effectiveness of metacognitive methods combined with habit reversal (MCT/HRT) in trichotillomania with a relatively long-term follow-up. METHOD: A case series (n = 8) and a randomized wait-list controlled trial (n = 34) design were conducted in this study...
September 14, 2017: Behavioural and Cognitive Psychotherapy
https://www.readbyqxmd.com/read/28901762/synthesis-structure-and-reactivity-of-a-terminal-magnesium-hydride-compound-with-a-carbatrane-motif-tism-pr-i-benz-mgh-a-multifunctional-catalyst-for-hydrosilylation-and-hydroboration
#6
Michael Rauch, Serge Ruccolo, Gerard Parkin
The tris[(1-isopropylbenzimidazol-2-yl)dimethylsilyl)]methyl ligand, [Tism(Pr(i)Benz)], has been employed to form the magnesium carbatrane compound, [Tism(Pr(i)Benz)]MgH, which possesses a terminal hydride ligand. Specifically, [Tism(Pr(i)Benz)]MgH is obtained via the reaction of [Tism(Pr(i)Benz)]MgMe with PhSiH3. The reactivity of [Tism(Pr(i)Benz)]MgMe and [Tism(Pr(i)Benz)]MgH allows access to a variety of other structurally characterized carbatrane derivatives, including [Tism(Pr(i)Benz)]MgX [X = F, Cl, Br, I, SH, N(H)Ph, CH(Me)Ph, O2CMe, S2CMe]...
September 13, 2017: Journal of the American Chemical Society
https://www.readbyqxmd.com/read/28862107/collateral-scoring-on-ct-angiogram-must-evaluate-phase-and-regional-pattern
#7
Colin Casault, Abdulaziz S Al Sultan, Anurag Trivedi, Sung Il Sohn, Emmad Qazi, Matthew Bokyo, Mohammed Almekhlafi, Christopher d'Esterre, Mayank Goyal, Andrew M Demchuk, Bijoy K Menon
PURPOSE: We measured anterior cerebral artery (ACA)-middle cerebral artery (MCA) and posterior cerebral artery (PCA)-MCA pial filling on single-phase computed tomography angiograms (sCTAs) in acute ischemic stroke and correlate with the CTA-based Massachusetts General Hospital (MGH) and digital subtraction angiography (DSA)-based American Society of Interventional and Therapeutic Neuroradiology (ASITN) score. METHODS: Patients with acute stroke and M1 MCA±intracranial internal carotid artery occlusion on baseline CTA were included...
September 2017: Canadian Journal of Neurological Sciences. le Journal Canadien des Sciences Neurologiques
https://www.readbyqxmd.com/read/28847013/do-less-harm-evaluating-hiv-programmatic-alternatives-in-response-to-cutbacks-in-foreign-aid
#8
Rochelle P Walensky, Ethan D Borre, Linda-Gail Bekker, Emily P Hyle, Gregg S Gonsalves, Robin Wood, Serge P Eholié, Milton C Weinstein, Xavier Anglaret, Kenneth A Freedberg, A David Paltiel
Background: Resource-limited nations must consider their response to potential contractions in international support for HIV programs. Objective: To evaluate the clinical, epidemiologic, and budgetary consequences of alternative HIV program scale-back strategies in 2 recipient nations, the Republic of South Africa (RSA) and Côte d'Ivoire (CI). Design: Model-based comparison between current standard (CD4 count at presentation of 0.260 × 109 cells/L, universal antiretroviral therapy [ART] eligibility, and 5-year retention rate of 84%) and scale-back alternatives, including reduced HIV detection, no ART or delayed initiation (when CD4 count is <0...
August 29, 2017: Annals of Internal Medicine
https://www.readbyqxmd.com/read/28816563/highlighting-the-differences-in-post-traumatic-symptoms-between-patients-with-complicated-and-uncomplicated-mild-traumatic-brain-injury-and-injured-controls
#9
J Julien, S Tinawi, K Anderson, L C Frenette, H Audrit, M C Ferland, M Feyz, E De Guise
OBJECTIVE: The goal of the current study is to explore the difference in acute post-concussive symptoms (PCS), headaches, sleep and mood complaints between groups of patients with complicated and uncomplicated mild traumatic brain injuries (mTBIs) and a comparable group of injured controls. Interactions among the following four factors were studied: presence of (1) PCS; (2) headaches; (3) sleep disorders; and (4) psychological status. METHODS: A total of 198 patients, followed at the outpatient mTBI clinic of the MUHC-MGH, completed questionnaires and a brief neurological assessment two weeks post-trauma...
August 17, 2017: Brain Injury: [BI]
https://www.readbyqxmd.com/read/28810177/use-of-atypical-antipsychotics-in-pregnancy-and-maternal-gestational-diabetes
#10
Alice Panchaud, Sonia Hernandez-Diaz, Marlene P Freeman, Adele C Viguera, Sarah C MacDonald, Alexandra Z Sosinsky, Lee S Cohen
BACKGROUND: Second generation antipsychotic medications (SGAs) are widely used by reproductive-age women to treat a number of psychiatric illnesses. Some SGAs have been associated with an increased risk of developing diabetes, although information regarding their diabetogenic effect in pregnant women is scarce. OBJECTIVE: To evaluate the risk of gestational diabetes (GDM) among women treated with SGA. METHOD: The Massachusetts General Hospital (MGH) National Pregnancy Registry for Atypical Antipsychotics (NPRAA) collects data on drug use, pregnancy outcomes, and other characteristics from pregnant women, ages 18-45 years, using 3 phone interviews conducted at (1) enrollment during pregnancy, (2) 7 months' gestation, and (3) 2-3 months postpartum...
July 29, 2017: Journal of Psychiatric Research
https://www.readbyqxmd.com/read/28725849/the-role-of-oncofertility-clinics-in-facilitating-access-to-reproductive-specialists
#11
Eduardo Hariton, Pietro Bortoletto, Eden R Cardozo, Ephraim P Hochberg, Mary E Sabatini
PURPOSE: To determine the impact of the establishment of a dedicated oncofertility clinic on the frequency of patient referrals for fertility preservation (FP) consultation and the time from patient referral to consultation. METHODS: A retrospective chart review of all women aged 21 to 44 years with an active cancer diagnosis who were referred for FP consultation from 2011 to 2015. RESULTS: A total of 6895 female patients eligible for FP were seen at the Massachusetts General Hospital (MGH) Cancer Center...
December 2016: Journal of patient experience
https://www.readbyqxmd.com/read/28716362/phosphoenolpyruvate-phosphotransferase-system-components-positively-regulate-klebsiella-biofilm-formation
#12
Yu-Tze Horng, Chi-Jen Wang, Wen-Ting Chung, Huei-Jen Chao, Yih-Yuan Chen, Po-Chi Soo
BACKGROUND/PURPOSE: Klebsiella pneumoniae is one of the leading causes of device-related infections (DRIs), which are associated with attachment of bacteria to these devices to form a biofilm. The latter is composed of not only bacteria but also extracellular polymeric substances (EPSes) consisting of extracellular DNAs, polysaccharides, and other macromolecules. The phosphoenolpyruvate (PEP):carbohydrate phosphotransferase system (PTS) regulates diverse processes of bacterial physiology...
June 29, 2017: Journal of Microbiology, Immunology, and Infection, Wei Mian Yu Gan Ran za Zhi
https://www.readbyqxmd.com/read/28680766/cerebrovascular-fibromuscular-dysplasia-the-mgh-cohort-and-literature-review
#13
Andrea M Harriott, Eli Zimmerman, Aneesh B Singhal, Michael R Jaff, Mark E Lindsay, Guy A Rordorf
BACKGROUND: Fibromuscular dysplasia (FMD) is a rare noninflammatory, nonatherosclerotic arteriopathy of medium-sized arteries affecting up to 7% of the population. The disease can affect any artery but commonly affects renal, extracranial carotid, and vertebral arteries. The epidemiology and natural course of cerebrovascular FMD is unknown and requires further investigation. METHODS: We present demographic and outcomes data on a case series of 81 patients with cerebrovascular FMD from Massachusetts General Hospital presenting between 2011 and 2015 followed by a review of the peer-reviewed literature...
June 2017: Neurology. Clinical Practice
https://www.readbyqxmd.com/read/28664031/large-scale-structural-alteration-of-brain-in-epileptic-children-with-scn1a-mutation
#14
Yun-Jeong Lee, Mi-Sun Yum, Min-Jee Kim, Woo-Hyun Shim, Hee Mang Yoon, Il Han Yoo, Jiwon Lee, Byung Chan Lim, Ki Joong Kim, Tae-Sung Ko
OBJECTIVE: Mutations in SCN1A gene encoding the alpha 1 subunit of the voltage gated sodium channel are associated with several epilepsy syndromes including genetic epilepsy with febrile seizures plus (GEFS +) and severe myoclonic epilepsy of infancy (SMEI). However, in most patients with SCN1A mutation, brain imaging has reported normal or non-specific findings including cerebral or cerebellar atrophy. The aim of this study was to investigate differences in brain morphometry in epileptic children with SCN1A mutation compared to healthy control subjects...
2017: NeuroImage: Clinical
https://www.readbyqxmd.com/read/28571513/a-pulmonary-embolism-response-team-initial-experiences-and-future-directions
#15
REVIEW
Emily K Zern, Michael N Young, Kenneth Rosenfield, Christopher Kabrhel
Acute pulmonary embolism (PE) is a common cardiovascular condition resulting in significant morbidity and mortality. Consensus recommendations suggest risk stratification of patients into three main categories: high-risk or 'massive' PE, intermediate-risk or 'submassive' PE, and low-risk PE. Given the relative dearth of prospective, randomized clinical trials delineating optimal selection of the diverse medical, interventional, and surgical treatment approaches, clinical care requires a multidisciplinary expert approach to patients with PE...
June 2017: Expert Review of Cardiovascular Therapy
https://www.readbyqxmd.com/read/28505632/missed-opportunities-for-measles-mumps-rubella-vaccination-among-departing-u-s-adult-travelers-receiving-pretravel-health-consultations
#16
MULTICENTER STUDY
Emily P Hyle, Sowmya R Rao, Emily S Jentes, Amy Parker Fiebelkorn, Stefan H F Hagmann, Allison Taylor Walker, Rochelle P Walensky, Edward T Ryan, Regina C LaRocque
Background: Measles outbreaks continue to occur in the United States and are mostly due to infections in returning travelers. Objective: To describe how providers assessed the measles immunity status of departing U.S. adult travelers seeking pretravel consultation and to assess reasons given for nonvaccination among those considered eligible to receive the measles, mumps, rubella (MMR) vaccine. Design: Observational study in U.S. pretravel clinics...
July 18, 2017: Annals of Internal Medicine
https://www.readbyqxmd.com/read/28448234/leveraging-clinical-imaging-archives-for-radiomics-reliability-of-automated-methods-for-brain-volume-measurement
#17
Viraj R Adduru, Andrew M Michael, Maria Helguera, Stefi A Baum, Gregory J Moore
Purpose To validate the use of thick-section clinically acquired magnetic resonance (MR) imaging data for estimating total brain volume (TBV), gray matter (GM) volume (GMV), and white matter (WM) volume (WMV) by using three widely used automated toolboxes: SPM ( www.fil.ion.ucl.ac.uk/spm/ ), FreeSurfer ( surfer.nmr.mgh.harvard.edu ), and FSL (FMRIB software library; Oxford Centre for Functional MR Imaging of the Brain, Oxford, England, https://fsl.fmrib.ox.ac.uk/fsl ). Materials and Methods MR images from a clinical archive were used and data were deidentified...
September 2017: Radiology
https://www.readbyqxmd.com/read/28436919/a-machine-learning-method-for-fast-and-accurate-characterization-of-depth-of-interaction-gamma-cameras
#18
Stefano Pedemonte, Larry Pierce, Koen Van Leemput
Measuring the depth-of-interaction (DOI) of gamma photons enables increasing the resolution of emission imaging systems. Several design variants of DOI-sensitive detectors have been recently introduced to improve the performance of scanners for Positron Emission Tomography (PET). However, the accurate characterization of the response of DOI detectors, necessary to accurately measure the DOI, remains an unsolved problem. Numerical simulations are, at the state of the art, imprecise, while measuring directly the characteristics of DOI detectors experimentally is hindered by the impossibility to impose the depth-of-interaction in an experimental set-up...
April 24, 2017: Physics in Medicine and Biology
https://www.readbyqxmd.com/read/28431236/unicystic-ameloblastoma-revisited-comparison-of-massachusetts-general-hospital-outcomes-with-original-robinson-and-martinez-report
#19
Anne-Frédérique Chouinard, Zachary S Peacock, William C Faquin, Leonard B Kaban
PURPOSE: Robinson and Martinez established unicystic ameloblastoma (UA) as a distinct pathologic entity in 1977. Using their original description, the aims of this study were to compare the clinical presentation and outcomes of UA treated at Massachusetts General Hospital (MGH) with outcomes reported in the original article. PATIENTS AND METHODS: This was a retrospective cohort study of MGH patients treated for UA during a 15-year period. Patients were included if they had a confirmed clinical and histologic diagnosis of UA...
March 27, 2017: Journal of Oral and Maxillofacial Surgery
https://www.readbyqxmd.com/read/28415608/collagen-type-iv-alpha-1-col4a1-and-collagen-type-xiii-alpha-1-col13a1-produced-in-cancer-cells-promote-tumor-budding-at-the-invasion-front-in-human-urothelial-carcinoma-of-the-bladder
#20
Makito Miyake, Shunta Hori, Yosuke Morizawa, Yoshihiro Tatsumi, Michihiro Toritsuka, Sayuri Ohnishi, Keiji Shimada, Hideki Furuya, Vedbar S Khadka, Youping Deng, Kenta Ohnishi, Kota Iida, Daisuke Gotoh, Yasushi Nakai, Takeshi Inoue, Satoshi Anai, Kazumasa Torimoto, Katsuya Aoki, Nobumichi Tanaka, Noboru Konishi, Kiyohide Fujimoto
Current knowledge of the molecular mechanism driving tumor budding is limited. Here, we focused on elucidating the detailed mechanism underlying tumor budding in urothelial cancer of the bladder. Invasive urothelial cancer was pathologically classified into three groups as follows: nodular, trabecular, and infiltrative (tumor budding). Pathohistological analysis of the orthotopic tumor model revealed that human urothelial cancer cell lines MGH-U3, UM-UC-14, and UM-UC-3 displayed typical nodular, trabecular, and infiltrative patterns, respectively...
May 30, 2017: Oncotarget
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