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Concurrent coding

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https://www.readbyqxmd.com/read/28097223/abca7-loss-of-function-variants-expression-and-neurologic-disease-risk
#1
Mariet Allen, Sarah J Lincoln, Morgane Corda, Jens O Watzlawik, Minerva M Carrasquillo, Joseph S Reddy, Jeremy D Burgess, Thuy Nguyen, Kimberly Malphrus, Ronald C Petersen, Neill R Graff-Radford, Dennis W Dickson, Nilüfer Ertekin-Taner
OBJECTIVE: To investigate and characterize putative "loss-of-function" (LOF) adenosine triphosphate-binding cassette, subfamily A member 7 (ABCA7) mutations reported to associate with Alzheimer disease (AD) risk. METHODS: We genotyped 6 previously reported ABCA7 putative LOF variants in 1,465 participants with AD, 381 participants with other neuropathologies (non-AD), and 1,043 controls and assessed the overall mutational burden for association with different diagnosis groups...
February 2017: Neurology. Genetics
https://www.readbyqxmd.com/read/28088185/igc-an-integrated-analysis-package-of-gene-expression-and-copy-number-alteration
#2
Yi-Pin Lai, Liang-Bo Wang, Wei-An Wang, Liang-Chuan Lai, Mong-Hsun Tsai, Tzu-Pin Lu, Eric Y Chuang
BACKGROUND: With the advancement in high-throughput technologies, researchers can simultaneously investigate gene expression and copy number alteration (CNA) data from individual patients at a lower cost. Traditional analysis methods analyze each type of data individually and integrate their results using Venn diagrams. Challenges arise, however, when the results are irreproducible and inconsistent across multiple platforms. To address these issues, one possible approach is to concurrently analyze both gene expression profiling and CNAs in the same individual...
January 14, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/28077705/processing-of-intraoral-olfactory-and-gustatory-signals-in-the-gustatory-cortex-of-awake-rats
#3
Chad L Samuelsen, Alfredo Fontanini
: The integration of gustatory and olfactory information is essential to the perception of flavor. Human neuroimaging experiments have pointed to the gustatory cortex (GC) as one of the areas involved in mediating flavor perception. Although GC's involvement in encoding the chemical identity and hedonic value of taste stimuli is well studied, it is unknown how single GC neurons process olfactory stimuli emanating from the mouth. In this study, we relied on multielectrode recordings to investigate how single GC neurons respond to intraorally delivered tastants and tasteless odorants dissolved in water and whether/how these two modalities converge in the same neurons...
January 11, 2017: Journal of Neuroscience: the Official Journal of the Society for Neuroscience
https://www.readbyqxmd.com/read/28067777/a-fuzzy-based-approach-for-sensing-coding-and-transmission-configuration-of-visual-sensors-in-smart-city-applications
#4
Daniel G Costa, Mario Collotta, Giovanni Pau, Cristian Duran-Faundez
The advance of technologies in several areas has allowed the development of smart city applications, which can improve the way of life in modern cities. When employing visual sensors in that scenario, still images and video streams may be retrieved from monitored areas, potentially providing valuable data for many applications. Actually, visual sensor networks may need to be highly dynamic, reflecting the changing of parameters in smart cities. In this context, characteristics of visual sensors and conditions of the monitored environment, as well as the status of other concurrent monitoring systems, may affect how visual sensors collect, encode and transmit information...
January 5, 2017: Sensors
https://www.readbyqxmd.com/read/28066963/phenotiki-an-open-software-and-hardware-platform-for-affordable-and-easy-image-based-phenotyping-of-rosette-shaped-plants
#5
Massimo Minervini, Mario Valerio Giuffrida, Pierdomenico Perata, Sotirios A Tsaftaris
Phenotyping is important to understand plant biology but current solutions are either costly, not versatile or difficult to deploy. To solve this problem, we present Phenotiki, an affordable system for plant phenotyping which, relying on off-the-shelf parts, provides an easy to install and maintain platform, offering an out-of-box experience for a well established phenotyping need: imaging rosette-shaped plants. The accompanying software (with available source code) processes data originating from our device seamlessly and automatically...
January 9, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28062180/determination-of-cryothermal-injury-thresholds-in-tissues-impacted-by-cardiac-cryoablation
#6
Ryan P Goff, Stephen G Quallich, Robert A Buechler, John C Bischof, Paul A Iaizzo
Despite widespread clinical use of cryoablation, there remain questions regarding dosing and treatment times which may affect efficacy and collateral injury. Dosing and treatment times are directly related to the degree of cooling necessary for effective lesion formation. Human and swine atrial, ventricular, and lung tissues were ablated using two cryoablation systems with concurrent infrared thermography. Post freeze-thaw samples were cultured and stained to differentiate viable and non-viable tissue. Matlab code correlated viability staining to applied freeze-thaw thermal cycles, to determine injury thresholds...
January 3, 2017: Cryobiology
https://www.readbyqxmd.com/read/28042514/quality-of-life-of-persons-injured-on-9-11-qualitative-analysis-from-the-world-trade-center-health-registry
#7
Lisa M Gargano, Robyn R Gershon, Robert M Brackbill
INTRODUCTION: A number of studies published by the World Trade Center Health Registry (Registry) document the prevalence of injuries sustained by victims of the World Trade Center Disaster (WTCD) on 9/11. Injury occurrence during or in the immediate aftermath of this event has been shown to be a risk factor for long-term adverse physical and mental health status. More recent reports of ongoing physical health and mental health problems and overall poor quality of life among survivors led us to undertake this qualitative study to explore the long-term impact of having both disaster-related injuries and peri-event traumatic exposure on quality of life in disaster survivors...
October 27, 2016: PLoS Currents
https://www.readbyqxmd.com/read/28035032/using-genotype-array-data-to-compare-multi-and-single-sample-variant-calls-and-improve-variant-call-sets-from-deep-coverage-whole-genome-sequencing-data
#8
Suyash S Shringarpure, Rasika A Mathias, Ryan D Hernandez, Timothy D O'Connor, Zachary A Szpiech, Raul Torres, Francisco M De La Vega, Carlos D Bustamante, Kathleen C Barnes, Margaret A Taub
MOTIVATION: Variant calling from next-generation sequencing (NGS) data is susceptible to false positive calls due to sequencing, mapping and other errors. To better distinguish true from false positive calls, we present a method that uses genotype array data from the sequenced samples, rather than public data such as HapMap or dbSNP, to train an accurate classifier using Random Forests. We demonstrate our method on a set of variant calls obtained from 642 African-ancestry genomes from the Consortium on Asthma among African-ancestry Populations in the Americas (CAAPA), sequenced to high depth (30X)...
December 29, 2016: Bioinformatics
https://www.readbyqxmd.com/read/28027945/next-generation-assessment-of-erbb2-human%C3%A2-epidermal-growth-factor-receptor-2-amplification-status-clinical-validation-in-the-context-of-a-hybrid-capture-based-comprehensive-solid-tumor-genomic-profiling-assay
#9
Dara S Ross, Ahmet Zehir, Donavan T Cheng, Ryma Benayed, Khedoudja Nafa, Jaclyn F Hechtman, Yelena Y Janjigian, Britta Weigelt, Pedram Razavi, David M Hyman, José Baselga, Michael F Berger, Marc Ladanyi, Maria E Arcila
Establishing ERBB2 [human epidermal growth factor receptor 2 (HER2)] amplification status in breast and gastric carcinomas is essential to patients' treatment plans. Immunohistochemistry (IHC) and fluorescence in situ hybridization (FISH) constitute the current standard for assessment. With further advancements in genomic medicine, new clinically relevant biomarkers are rapidly emerging and options for targeted therapy are increasing in patients with advanced disease, driving the need for comprehensive molecular profiling...
December 24, 2016: Journal of Molecular Diagnostics: JMD
https://www.readbyqxmd.com/read/28009791/deriving-a-gps-monitoring-time-recommendation-for-physical-activity-studies-of-adults
#10
Katelyn M Holliday, Annie Green Howard, Michael Emch, Daniel A Rodríguez, Wayne D Rosamond, Kelly R Evenson
INTRODUCTION: Determining locations of physical activity (PA) is important for surveillance and intervention development, yet recommendations for using location recording tools like Geographic Positioning System (GPS) units are lacking. Specifically, no recommendation exists for the number of days study participants should wear a GPS to reliably estimate PA time spent in locations. METHODS: This study used data from participants (N=224, age 18-85) in five states who concurrently wore an ActiGraph GT1M accelerometer and a Qstarz BT-Q1000X GPS for three consecutive weeks to construct monitoring day recommendations through variance partitioning methods...
December 22, 2016: Medicine and Science in Sports and Exercise
https://www.readbyqxmd.com/read/27989460/touch-receptor-derived-sensory-information-alleviates-acute-pain-signaling-and-fine-tunes-nociceptive-reflex-coordination
#11
Alice Arcourt, Louise Gorham, Rahul Dhandapani, Vincenzo Prato, Francisco J Taberner, Hagen Wende, Vijayan Gangadharan, Carmen Birchmeier, Paul A Heppenstall, Stefan G Lechner
Painful mechanical stimuli activate multiple peripheral sensory afferent subtypes simultaneously, including nociceptors and low-threshold mechanoreceptors (LTMRs). Using an optogenetic approach, we demonstrate that LTMRs do not solely serve as touch receptors but also play an important role in acute pain signaling. We show that selective activation of neuropeptide Y receptor-2-expressing (Npy2r) myelinated A-fiber nociceptors evokes abnormally exacerbated pain, which is alleviated by concurrent activation of LTMRs in a frequency-dependent manner...
January 4, 2017: Neuron
https://www.readbyqxmd.com/read/27943604/time-trends-in-incidence-and-prognosis-of-hepatocellular-carcinoma-in-denmark-a-nationwide-register-based-cohort-study
#12
Peter Jepsen, Mette W Andersen, Gerda E Villadsen, Peter Ott, Hendrik Vilstrup
BACKGROUND & AIMS: There are no recent data on incidence or survival of hepatocellular carcinoma (HCC) in Denmark. We examined current HCC epidemiology. METHODS: We used data from nationwide registries to identify all Danish citizens diagnosed with HCC in 1994-2016. We computed annual standardized incidence rates for the entire 1994-2016 period, and we compared survival for patients diagnosed in 2004-2014; data on HCC stage were available for that period alone and coded according to the TNM classification...
December 10, 2016: Liver International: Official Journal of the International Association for the Study of the Liver
https://www.readbyqxmd.com/read/27940300/molecular-regulation-of-lhcgr-expression-by-mir-122-during-follicle-growth-in-the-rat-ovary
#13
Bindu Menon, Thippeswamy Gulappa, K M J Menon
We have previously reported that LHCGR expression in the ovary is regulated through a post-transcriptional mechanism involving an mRNA binding protein designated as LRBP, which is regulated, at least in part, by a non-coding RNA, miR-122. Our present study examined the regulatory role of miR-122 in FSH-induced LHCGR expression during follicle development. Treatment of rat granulosa cells concurrently with FSH and 17β estradiol showed, as expected, a time-dependent increase in LHCGR mRNA levels as well as hCG-induced progesterone production...
December 8, 2016: Molecular and Cellular Endocrinology
https://www.readbyqxmd.com/read/27904775/disease-evolution-and-heterogeneity-in-bilateral-breast-cancer
#14
Elena Fountzilas, Vassiliki Kotoula, Flora Zagouri, Eleni Giannoulatou, George Kouvatseas, George Pentheroudakis, Triantafyllia Koletsa, Mattheos Bobos, Kyriaki Papadopoulou, Epaminontas Samantas, Efterpi Demiri, Spyros Miliaras, Christos Christodoulou, Sofia Chrisafi, Evangelia Razis, Florentia Fostira, Dimitrios Pectasides, George Zografos, George Fountzilas
Bilateral breast cancers (BBC) are currently treated as independent tumors arising in the same patient. Herein, we investigated whether BBC indeed evolve independently at the genomic level. We examined paired targeted next generation sequencing genotypes from 155 paraffin tumors corresponding to 76 BBC patients (75 women and one man; 52 concurrent and 24 metachronous), for coding mutations (amino acid changing, minor allele frequency <0.1%) and single nucleotide polymorphism (SNP) zygosity. Germline genotypes were available for 29 patients...
2016: American Journal of Cancer Research
https://www.readbyqxmd.com/read/27893618/early-resuscitation-with-lyophilized-plasma-provides-equal-neuroprotection-compared-with-fresh-frozen-plasma-in-a-large-animal-survival-model-of-traumatic-brain-injury-and-hemorrhagic-shock
#15
Ihab Halaweish, Ted Bambakidis, Vahagn C Nikolian, Patrick Georgoff, Peter Bruhn, Patryk Piascik, Lisa Buckley, Ashok Srinivasan, Baoling Liu, Yongqing Li, Hasan B Alam
BACKGROUND: Combined traumatic brain injury (TBI) and hemorrhagic shock (HS) is highly lethal. In previous models of combined TBI + HS, we showed that early resuscitation with fresh frozen plasma (FFP) improves neurologic outcomes. Delivering FFP, however, in austere environments is difficult. Lyophilized plasma (LP) is a logistically superior alternative to FFP, but data are limited regarding its efficacy for treatment of TBI. We conducted this study to determine the safety and long-term outcomes of early treatment with LP in a large animal model of TBI + HS...
December 2016: Journal of Trauma and Acute Care Surgery
https://www.readbyqxmd.com/read/27889470/delayed-administration-of-dopaminergic-drugs-is-not-associated-with-prolonged-length-of-stay-of-hospitalized-patients-with-parkinson-s-disease
#16
Rob Skelly, Lisa Brown, Andrew Fogarty
BACKGROUND: Punctual delivery of dopaminergic medication to Parkinson's disease (PD) patients may be important in optimizing disease control. We tested the hypothesis that prompt delivery of l-dopa medications to emergency hospital inpatients was associated with a decreased length of stay in hospital. METHODS: The study population consisted of all urgent hospitalizations for patients with a diagnosis of PD to the Royal Derby Hospital over a two-year period. Data were extracted on timing of delivery of drugs, number of co-morbidities and length of stay...
November 14, 2016: Parkinsonism & related Disorders
https://www.readbyqxmd.com/read/27869105/an-open-access-database-for-the-evaluation-of-heart-sound-algorithms
#17
Chengyu Liu, David Springer, Qiao Li, Benjamin Moody, Ricardo Abad Juan, Francisco J Chorro, Francisco Castells, José Millet Roig, Ikaro Silva, Alistair E W Johnson, Zeeshan Syed, Samuel E Schmidt, Chrysa D Papadaniil, Leontios Hadjileontiadis, Hosein Naseri, Ali Moukadem, Alain Dieterlen, Christian Brandt, Hong Tang, Maryam Samieinasab, Mohammad Reza Samieinasab, Reza Sameni, Roger G Mark, Gari D Clifford
In the past few decades, analysis of heart sound signals (i.e. the phonocardiogram or PCG), especially for automated heart sound segmentation and classification, has been widely studied and has been reported to have the potential value to detect pathology accurately in clinical applications. However, comparative analyses of algorithms in the literature have been hindered by the lack of high-quality, rigorously validated, and standardized open databases of heart sound recordings. This paper describes a public heart sound database, assembled for an international competition, the PhysioNet/Computing in Cardiology (CinC) Challenge 2016...
December 2016: Physiological Measurement
https://www.readbyqxmd.com/read/27865922/low-frequency-cortical-oscillations-are-modulated-by-temporal-prediction-and-temporal-error-coding
#18
Louise Catheryne Barne, Peter Maurice Erna Claessens, Marcelo Bussotti Reyes, Marcelo Salvador Caetano, André Mascioli Cravo
Monitoring and updating temporal predictions are critical abilities for adaptive behavior. Here, we investigated whether neural oscillations are related to violation and updating of temporal predictions. Human participants performed an experiment in which they had to generate a target at an expected time point, by pressing a button while taking into account a variable delay between the act and the stimulus occurrence. Our behavioral results showed that participants quickly adapted their temporal predictions in face of an error...
November 16, 2016: NeuroImage
https://www.readbyqxmd.com/read/27862571/avoidant-conversations-about-death-by-clinicians-cause-delays-in-reporting-of-neutropenic-sepsis-grounded-theory-study
#19
Catherine Oakley, Cath Taylor, Emma Ream, Alison Metcalfe
BACKGROUND: Evidence suggests that patients delay reporting symptoms of neutropenic sepsis (NS) despite the risk to their life. This study aimed to elicit factors that contribute to delayed patient reporting of NS symptoms. METHODS: A constructivist grounded theory study used observations of chemotherapy consultations (13 h) and 31 in-depth interviews to explore beliefs, experiences, and behaviors related to NS. Participants included women with breast cancer, their carers (partners, family, or friends), and clinicians...
November 18, 2016: Psycho-oncology
https://www.readbyqxmd.com/read/27852677/processing-of-intraoral-olfactory-and-gustatory-signals-in-the-gustatory-cortex-of-awake-rats
#20
Chad L Samuelsen, Alfredo Fontanini
: The integration of gustatory and olfactory information is essential to the perception of flavor. Human neuroimaging experiments have pointed to the gustatory cortex (GC) as one of the areas involved in mediating flavor perception. While GC's involvement in encoding the chemical identity and hedonic value of taste stimuli is well studied, it is unknown how single GC neurons process olfactory stimuli emanating from the mouth. In this study, we relied on multi-electrode recordings to investigate how single GC neurons respond to intraorally delivered tastants and tasteless odorants dissolved in water and whether/how these two modalities converge in the same neurons...
November 16, 2016: Journal of Neuroscience: the Official Journal of the Society for Neuroscience
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