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Rapid naming reading

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https://www.readbyqxmd.com/read/28320326/lw-fqzip-2-a-parallelized-reference-based-compression-of-fastq-files
#1
Zhi-An Huang, Zhenkun Wen, Qingjin Deng, Ying Chu, Yiwen Sun, Zexuan Zhu
BACKGROUND: The rapid progress of high-throughput DNA sequencing techniques has dramatically reduced the costs of whole genome sequencing, which leads to revolutionary advances in gene industry. The explosively increasing volume of raw data outpaces the decreasing disk cost and the storage of huge sequencing data has become a bottleneck of downstream analyses. Data compression is considered as a solution to reduce the dependency on storage. Efficient sequencing data compression methods are highly demanded...
March 20, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/28299895/deep-sequencing-and-variant-analysis-of-an-italian-pathogenic-field-strain-of-equine-infectious-anaemia-virus
#2
K Cappelli, R F Cook, V Stefanetti, F Passamonti, G L Autorino, M T Scicluna, M Coletti, A Verini Supplizi, S Capomaccio
Equine infectious anaemia virus (EIAV) is a lentivirus with an almost worldwide distribution that causes persistent infections in equids. Technical limitations have restricted genetic analysis of EIAV field isolates predominantly to gag sequences resulting in very little published information concerning the extent of inter-strain variation in pol, env and the three ancillary open reading frames (ORFs). Here, we describe the use of long-range PCR in conjunction with next-generation sequencing (NGS) for rapid molecular characterization of all viral ORFs and known transcription factor binding motifs within the long terminal repeat of two EIAV isolates from the 2006 Italian outbreak...
March 15, 2017: Transboundary and Emerging Diseases
https://www.readbyqxmd.com/read/28287980/constructing-dna-barcode-sets-based-on-particle-swarm-optimization
#3
Bin Waang, Xuedong Zheng, Shihua Zhou, Changjun Zhou, Xiaopeng Wei, Qiang Zhang, Ziqi Wei
Following the completion of the human genome project, a large amount of high-throughput bio-data was generated. To analyze these data, massively parallel sequencing, namely next-generation sequencing, was rapidly developed. DNA barcodes are used to identify the ownership between sequences and samples when they are attached at the beginning or end of sequencing reads. Constructing DNA barcode sets provides the candidate DNA barcodes for this application. To increase the accuracy of DNA barcode sets, a particle swarm optimization (PSO) algorithm has been modified and used to construct the DNA barcode sets in this paper...
March 7, 2017: IEEE/ACM Transactions on Computational Biology and Bioinformatics
https://www.readbyqxmd.com/read/28279619/led-fluorescence-microscopy-novel-method-for-malaria-diagnosis-compared-with-routine-methods
#4
Riddhi Hathiwala, Preeti R Mehta, Gita Nataraj, Siddhi Hathiwala
Rapid and accurate diagnosis of malaria is the need of hour for effective management and controlling drug resistance. The conventional and gold-standard method, Light microscopy (LM), is time-consuming, requires trained staff and well-maintained equipments. The newly developed, rapid diagnostic tests (RDT) are fast and reliable, but give only qualitative results, are expensive and have short shelf life. Light Emission Diode fluorescence microscopy (LED FM) may provide a reliable alternative which can be used for routine diagnosis...
March 6, 2017: Journal of Infection and Public Health
https://www.readbyqxmd.com/read/28257277/the-effect-of-in-school-saccadic-training-on-reading-fluency-and-comprehension-in-first-and-second-grade-students
#5
David Dodick, Amaal J Starling, Jennifer Wethe, Yi Pang, Leonard V Messner, Craig Smith, Christina L Master, Rashmi B Halker-Singh, Bert B Vargas, Jamie M Bogle, Jay Mandrekar, Alexandra Talaber, Danielle Leong
Efficient eye movements provide a physical foundation for proficient reading skills. We investigated the effect of in-school saccadic training on reading performance. In this cross-over design, study participants (n = 327, 165 males; mean age [SD]: 7 y 6 mo [1y 1 mo]) were randomized into treatment and control groups, who then underwent eighteen 20-minute training sessions over 5 weeks using King-Devick Reading Acceleration Program Software. Pre- and posttreatment reading assessments included fluency, comprehension, and rapid number naming performance...
January 2017: Journal of Child Neurology
https://www.readbyqxmd.com/read/28208281/enzyme-activated-g-quadruplex-synthesis-for-in-situ-label-free-detection-and-bioimaging-of-cell-apoptosis
#6
Zhuoliang Liu, Xingyu Luo, Zhu Li, Yan Huang, Zhou Nie, Hong-Hui Wang, Shouzhuo Yao
Fluorogenic probes targeting G-quadruplex structures have emerged as the promising toolkit for functional research of G-quadruplex and biosensor development. However, their biosensing applications are still largely limited in in-tube detection. Herein, we proposed a fluorescent bioimaging method based on enzyme-generated G-quadruplexes for detecting apoptotic cells at the cell and tissue level, namely, terminal deoxynucleotidyl transferase (TdT)-activated de novo G-quadruplex synthesis (TAGS) assay. The detection target is genomic DNA fragmentation, a biochemical hallmark of apoptosis...
February 7, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28191331/development-of-dual-taqman-based-one-step-rrt-pcr-assay-panel-for-rapid-and-accurate-diagnostic-test-of-mers-cov-a-novel-human-coronavirus-ahead-of-hajj-pilgrimage
#7
Mohammad Sadegh Hashemzadeh, Rahimeh Rasouli, Bentolhoda Zahraei, Morteza Izadi, Mahdi Tat, Seyed Hassan Saadat, Mohammad Najarasl, Behzad Khansari Nejad, Ruhollah Dorostkar
BACKGROUND: Coronaviruses (CoVs) are large ribonucleic acid (RNA) viruses causing primarily respiratory disease in humans. A novel human coronavirus, subsequently named middle east respiratory syndrome coronavirus (MERS-CoV), was first reported in Saudi Arabia in September of 2012. With increasing numbers of infections and deaths from MERS-CoV, development of a rapid and reliable kit was crucial to prevent further spread of MERS-CoV. OBJECTIVES: In this study, we present two real-time reverse-transcription polymerase chain reaction (rRT-PCR) assays for in-house rapid and sensitive diagnostic testing of MERS-CoV, detecting the regions upstream of the envelope gene (upE) and open reading frame (ORF) 1b, respectively, for initial screening and final confirmation of MERS-CoV infection, as recommended by the world health organization (WHO)...
November 2016: Iranian Red Crescent Medical Journal
https://www.readbyqxmd.com/read/28110086/different-mechanisms-in-learning-different-second-languages-evidence-from-english-speakers-learning-chinese-and-spanish
#8
Fan Cao, Bethany L Sussman, Valeria Rios, Xin Yan, Zhao Wang, Gregory J Spray, Ryan M Mack
Word reading has been found to be associated with different neural networks in different languages, with greater involvement of the lexical pathway for opaque languages and greater invovlement of the sub-lexical pathway for transparent langauges. However, we do not know whether this language divergence can be demonstrated in second langauge learners, how learner's metalinguistic ability would modulate the langauge divergence, or whether learning method would interact with the language divergence. In this study, we attempted to answer these questions by comparing brain activations of Chinese and Spanish word reading in native English-speaking adults who learned Chinese and Spanish over a 2 week period under three learning conditions: phonological, handwriting, and passive viewing...
January 19, 2017: NeuroImage
https://www.readbyqxmd.com/read/28086790/rna-sequencing-for-global-gene-expression-associated-with-muscle-growth-in-a-single-male-modern-broiler-line-compared-to-a-foundational-barred-plymouth-rock-chicken-line
#9
Byung-Whi Kong, Nicholas Hudson, Dongwon Seo, Seok Lee, Bhuwan Khatri, Kentu Lassiter, Devin Cook, Alissa Piekarski, Sami Dridi, Nicholas Anthony, Walter Bottje
BACKGROUND: Modern broiler chickens exhibit very rapid growth and high feed efficiency compared to unselected chicken breeds. The improved production efficiency in modern broiler chickens was achieved by the intensive genetic selection for meat production. This study was designed to investigate the genetic alterations accumulated in modern broiler breeder lines during selective breeding conducted over several decades. METHODS: To identify genes important in determining muscle growth and feed efficiency in broilers, RNA sequencing (RNAseq) was conducted with breast muscle in modern pedigree male (PeM) broilers (n = 6 per group), and with an unselected foundation broiler line (Barred Plymouth Rock; BPR)...
January 13, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28079738/vision-problems-and-reduced-reading-outcomes-in-queensland-schoolchildren
#10
Shelley Hopkins, Geoff P Sampson, Peter L Hendicott, Joanne M Wood
PURPOSE: To assess the relationship between vision and reading outcomes in Indigenous and non-Indigenous schoolchildren to determine whether vision problems are associated with lower reading outcomes in these populations. METHODS: Vision testing and reading assessments were performed on 508 Indigenous and non-Indigenous schoolchildren in Queensland, Australia divided into two age groups: Grades 1 and 2 (6-7 years of age) and Grades 6 and 7 (12-13 years of age). Vision parameters measured included cycloplegic refraction, near point of convergence, heterophoria, fusional vergence range, rapid automatized naming, and visual motor integration...
January 12, 2017: Optometry and Vision Science: Official Publication of the American Academy of Optometry
https://www.readbyqxmd.com/read/28074887/association-analysis-of-dyslexia-candidate-genes-in-a-dutch-longitudinal-sample
#11
Amaia Carrion-Castillo, Ben Maassen, Barbara Franke, Angelien Heister, Marlies Naber, Aryan van der Leij, Clyde Francks, Simon E Fisher
Dyslexia is a common specific learning disability with a substantive genetic component. Several candidate genes have been proposed to be implicated in dyslexia susceptibility, such as DYX1C1, ROBO1, KIAA0319, and DCDC2. Associations with variants in these genes have also been reported with a variety of psychometric measures tapping into the underlying processes that might be impaired in dyslexic people. In this study, we first conducted a literature review to select single nucleotide polymorphisms (SNPs) in dyslexia candidate genes that had been repeatedly implicated across studies...
January 11, 2017: European Journal of Human Genetics: EJHG
https://www.readbyqxmd.com/read/28070657/-how-to-incorporate-dual-energy-imaging-into-a-high-volume-abdominal-imaging-practice
#12
Eric P Tamm, Ott Le, Xinming Liu, Rick R Layman, Dianna D Cody, Priya R Bhosale
Dual-energy CT imaging has many potential uses in abdominal imaging. It also has unique requirements for protocol creation depending on the dual-energy scanning technique that is being utilized. It also generates several new types of images which can increase the complexity of image creation and image interpretation. The purpose of this article is to review, for rapid switching and dual-source dual-energy platforms, methods for creating dual-energy protocols, different approaches for efficiently creating dual-energy images, and an approach to navigating and using dual-energy images at the reading station all using the example of a pancreatic multiphasic protocol...
January 9, 2017: Abdominal Radiology
https://www.readbyqxmd.com/read/28004253/a-novel-single-stranded-rna-virus-in-nesidiocoris-tenuis
#13
Pengjun Xu, Xueru Song, Xianming Yang, Zhaoqi Tang, Guangwei Ren, Yanhui Lu
The complete genome sequence of a novel single-stranded RNA virus in Nesidiocoris tenuis was determined by RNA-seq and rapid amplification of cDNA ends (RACE) methodologies and was named N. tenuis virus 1. The genomic RNA was 3970 nucleotides (nt) in length and contained two putative open reading frames (ORFs). ORF1 encoded a polypeptide with 283 amino acids containing a viral (superfamily 1) RNA helicase (Hel) domain, and ORF2 encoded a polypeptide with 294 amino acids containing an RNA-dependent RNA polymerase (RdRP) domain...
April 2017: Archives of Virology
https://www.readbyqxmd.com/read/27942706/the-role-of-categorical-speech-perception-and-phonological-processing-in-familial-risk-children-with-and-without-dyslexia
#14
Britt Hakvoort, Elise de Bree, Aryan van der Leij, Ben Maassen, Ellie van Setten, Natasha Maurits, Titia L van Zuijen
Purpose: This study assessed whether a categorical speech perception (CP) deficit is associated with dyslexia or familial risk for dyslexia, by exploring a possible cascading relation from speech perception to phonology to reading and by identifying whether speech perception distinguishes familial risk (FR) children with dyslexia (FRD) from those without dyslexia (FRND). Method: Data were collected from 9-year-old FRD (n = 37) and FRND (n = 41) children and age-matched controls (n = 49) on CP identification and discrimination and on the phonological processing measures rapid automatized naming, phoneme awareness, and nonword repetition...
December 1, 2016: Journal of Speech, Language, and Hearing Research: JSLHR
https://www.readbyqxmd.com/read/27921175/molecular-characterization-of-a-new-soybean-infecting-member-of-the-genus-nepovirus-identified-by-high-throughput-sequencing
#15
Tuba Yasmin, Berlin D Nelson, Houston A Hobbs, Nancy K McCoppin, Kris N Lambert, Leslie L Domier
The complete nucleotide sequence of a new soybean-infecting member of the genus Nepovirus (provisionally named "soybean latent spherical virus" [SLSV]) was identified by high-throughput sequencing of RNAs from soybean leaf samples from North Dakota, USA. The sequences of RNAs 1 (8,190 nt) and 2 (5,788 nt) were completed by rapid amplification of cDNA ends. Each contained a single long open reading frame and a 3' nontranslated region of greater than 1,500 nt. The predicted amino acid sequences of the two ORFs were most closely related to nepoviruses in subgroup C...
April 2017: Archives of Virology
https://www.readbyqxmd.com/read/27883911/examining-the-relationship-between-rapid-automatized-naming-and-arithmetic-fluency-in-chinese-kindergarten-children
#16
Jiaxin Cui, George K Georgiou, Yiyun Zhang, Yixun Li, Hua Shu, Xinlin Zhou
Rapid automatized naming (RAN) has been found to predict mathematics. However, the nature of their relationship remains unclear. Thus, the purpose of this study was twofold: (a) to examine how RAN (numeric and non-numeric) predicts a subdomain of mathematics (arithmetic fluency) and (b) to examine what processing skills may account for the RAN-arithmetic fluency relationship. A total of 160 third-year kindergarten Chinese children (83 boys and 77 girls, mean age=5.11years) were assessed on RAN (colors, objects, digits, and dice), nonverbal IQ, visual-verbal paired associate learning, phonological awareness, short-term memory, speed of processing, approximate number system acuity, and arithmetic fluency (addition and subtraction)...
February 2017: Journal of Experimental Child Psychology
https://www.readbyqxmd.com/read/27858291/molecular-characterization-of-a-novel-ssrna-ourmia-like-virus-from-the-rice-blast-fungus-magnaporthe-oryzae
#17
Adriana Illana, Marco Marconi, Julio Rodríguez-Romero, Ping Xu, Tamas Dalmay, Mark D Wilkinson, Maria Ángeles Ayllón, Ane Sesma
In this study we characterize a novel positive and single stranded RNA (ssRNA) mycovirus isolated from the rice field isolate of Magnaporthe oryzae Guy11. The ssRNA contains a single open reading frame (ORF) of 2,373 nucleotides in length and encodes an RNA-dependent RNA polymerase (RdRp) closely related to ourmiaviruses (plant viruses) and ourmia-like mycoviruses. Accordingly, we name this virus Magnaporthe oryzae ourmia-like virus 1 (MOLV1). Although phylogenetic analysis suggests that MOLV1 is closely related to ourmia and ourmia-like viruses, it has some features never reported before within the Ourmiavirus genus...
March 2017: Archives of Virology
https://www.readbyqxmd.com/read/27856108/foundations-of-reading-comprehension-in-children-with-intellectual-disabilities
#18
Evelien van Wingerden, Eliane Segers, Hans van Balkom, Ludo Verhoeven
BACKGROUND: Knowledge about predictors for reading comprehension in children with intellectual disabilities (ID) is still fragmented. AIMS: This study compared reading comprehension, word decoding, listening comprehension, and reading related linguistic and cognitive precursor measures in children with mild ID and typically developing controls. Moreover, it was explored how the precursors related to reading achievement. METHOD AND PROCEDURES: Children with mild ID and typical controls were assessed on reading comprehension, decoding, language comprehension, and linguistic (early literacy skills, vocabulary, grammar) and cognitive (rapid naming, phonological short-term memory, working memory, temporal processing, nonverbal reasoning) precursor measures...
January 2017: Research in Developmental Disabilities
https://www.readbyqxmd.com/read/27853553/the-role-of-three-heat-shock-protein-genes-in-the-immune-response-to-aeromonas-hydrophila-challenge-in-marbled-eel-anguilla-marmorata
#19
Fenfei Liang, Guosong Zhang, Shaowu Yin, Li Wang
Heat shock proteins (HSPs) are highly conserved molecular chaperones that play critical roles in both innate and adaptive immunity. However, little information about HSPs from marbled eel Anguilla marmorata is known. In this study, the full-length Amhsp90 (2527 bp), Amhsp70 (2443 bp) and Amhsc70 (2247 bp) were first cloned from A. marmorata, using rapid amplification of cDNA ends, containing open reading frames of 2181, 1932 and 1950 bp in length, and encoding proteins with 726, 643 and 649 amino acids, respectively...
October 2016: Royal Society Open Science
https://www.readbyqxmd.com/read/27818586/human-bocavirus-current-knowledge-and-future-challenges
#20
REVIEW
Marcello Guido, Maria Rosaria Tumolo, Tiziano Verri, Alessandro Romano, Francesca Serio, Mattia De Giorgi, Antonella De Donno, Francesco Bagordo, Antonella Zizza
Human bocavirus (HBoV) is a parvovirus isolated about a decade ago and found worldwide in both respiratory samples, mainly from early life and children of 6-24 mo of age with acute respiratory infection, and in stool samples, from patients with gastroenteritis. Since then, other viruses related to the first HBoV isolate (HBoV1), namely HBoV2, HBoV3 and HBoV4, have been detected principally in human faeces. HBoVs are small non-enveloped single-stranded DNA viruses of about 5300 nucleotides, consisting of three open reading frames encoding the first two the non-structural protein 1 (NS1) and nuclear phosphoprotein (NP1) and the third the viral capsid proteins 1 and 2 (VP1 and VP2)...
October 21, 2016: World Journal of Gastroenterology: WJG
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