keyword
MENU ▼
Read by QxMD icon Read
search

Rpa

keyword
https://www.readbyqxmd.com/read/28223440/idn2-interacts-with-rpa-and-facilitates-dna-double-strand-break-repair-by-homologous-recombination-in-arabidopsis
#1
Mingming Liu, Zhaoqing Ba, Pedro Costa-Nunes, Wei Wei, Lanxia Li, Fansi Kong, Yan Li, Jijie Chai, Olga Pontes, Yijun Qi
Repair of DNA double-strand breaks (DSBs) is critical for the maintenance of genome integrity. We previously showed that DSB-induced small RNAs (diRNAs) facilitate homologous recombination (HR)-mediated DSB repair in Arabidopsis thaliana. Here we show that INVOLVED IN DE NOVO 2 (IDN2), a double-stranded RNA (dsRNA) binding protein involved in small RNA-directed DNA methylation, is required for DSB repair in Arabidopsis. We find that IDN2 interacts with the heterotrimeric replication protein A (RPA) complex...
February 21, 2017: Plant Cell
https://www.readbyqxmd.com/read/28222775/modification-of-the-association-between-recreational-physical-activity-and-survival-after-breast-cancer-by-promoter-methylation-in-breast-cancer-related-genes
#2
Lauren E McCullough, Jia Chen, Yoon Hee Cho, Nikhil K Khankari, Patrick T Bradshaw, Alexandra J White, Susan L Teitelbaum, Mary Beth Terry, Alfred I Neugut, Hanina Hibshoosh, Regina M Santella, Marilie D Gammon
BACKGROUND: Mechanisms underlying the inverse association between physical activity and survival after breast cancer are unresolved, but DNA methylation may play a role. We hypothesized that promoter methylation of breast cancer-related genes, as well as global methylation, may modify the association between prediagnostic recreational physical activity (RPA) and breast cancer mortality. METHODS: Using a population-based sample of 1254 women diagnosed with first primary breast cancer, we examined modification of the RPA-mortality association by gene-specific promoter methylation and global methylation...
February 21, 2017: Breast Cancer Research: BCR
https://www.readbyqxmd.com/read/28222680/field-evaluation-of-a-recombinase-polymerase-amplification-assay-for-the-diagnosis-of-schistosoma-japonicum-infection-in-hunan-province-of-china
#3
Weiwei Xing, Xinling Yu, Jingtao Feng, Kui Sun, Wenliang Fu, Yuanyuan Wang, Minji Zou, Wenrong Xia, Zhihong Luo, Hongbin He, Yuesheng Li, Donggang Xu
BACKGROUND: Current diagnostic methods for Schistosoma japonicum infection are insensitive for low-density infections. Therefore, a new diagnostic assay based on recombinase polymerase amplification (RPA) technology was established and assessed for field applification. METHODS: The S.japonicum RPA assay was developed to target highly repetitive retrotransposon SjR2 gene of S japonicum, and its sensitivity and specificity were assessed by serial dilution of S. japonicum genomic DNA and other related worm genomic DNA respectively...
February 21, 2017: BMC Infectious Diseases
https://www.readbyqxmd.com/read/28182412/random-phase-approximation-for-periodic-systems-employing-direct-coulomb-lattice-summation
#4
Martin M J Grundei, Asbjörn Manfred Burow
A method to compute ground state correlation energies from the random phase approximation (RPA) is presented for molecular and periodic systems on an equal footing. The supermatrix representation of the Hartree kernel in canonical orbitals is translation symmetry adapted and factorized by the resolution of the identity (RI) approximation. Orbital expansion and RI factorization employ atom-centered Gaussian-type basis functions. Long ranging Coulomb lattice sums are evaluated in direct space with a revised recursive multipole method that works also for irreducible representations different from Γ...
February 9, 2017: Journal of Chemical Theory and Computation
https://www.readbyqxmd.com/read/28179103/rapid-diagnosis-of-vibrio-owensii-responsible-for-shrimp-acute-hepatopancreatic-necrosis-disease-with-isothermal-recombinase-polymerase-amplification-assay
#5
Liyuan Liu, Luzhi Jiang, Yongxin Yu, Xiaoming Xia, Yingjie Pan, Shuling Yan, Yongjie Wang
A rapid and sensitive AHPND-RPA assay was developed for the specific detection of the AHPND-causing Vibrio owensii. The AHPND-RPA detected as few as 2 copies per reaction in 9.02 ± 0.66 min at 39 °C, and showed 100% positive predictive value and negative predictive value for AHPND diagnosis.
February 5, 2017: Molecular and Cellular Probes
https://www.readbyqxmd.com/read/28177605/replication-protein-a-prohibits-diffusion-of-the-pcna-sliding-clamp-along-single-stranded-dna
#6
Mark Hedglin, Stephen J Benkovic
The replicative polymerases cannot accommodate distortions to the native DNA sequence such as modifications (lesions) to the native template bases from exposure to reactive metabolites and environmental mutagens. Consequently, DNA synthesis on an afflicted template abruptly stops upon encountering these lesions but the replication fork progresses onward, exposing long stretches of the damaged template before eventually stalling. Such arrests may be overcome by translesion DNA synthesis where a specialized TLS polymerases binds to the resident PCNA and replicates the damaged DNA...
February 8, 2017: Biochemistry
https://www.readbyqxmd.com/read/28173845/development-of-real-time-and-lateral-flow-strip-reverse-transcription-recombinase-polymerase-amplification-assays-for-rapid-detection-of-peste-des-petits-ruminants-virus
#7
Yang Yang, Xiaodong Qin, Yiming Song, Wei Zhang, Gaowei Hu, Yongxi Dou, Yanmin Li, Zhidong Zhang
BACKGROUND: Peste des petits ruminants (PPR) is an economically important, Office International des Epizooties (OIE) notifiable, transboundary viral disease of small ruminants such as sheep and goat. PPR virus (PPRV), a negative-sense single-stranded RNA virus, is the causal agent of PPR. Therefore, sensitive, specific and rapid diagnostic assay for the detection of PPRV are necessary to accurately and promptly diagnose suspected case of PPR. METHODS: In this study, reverse transcription recombinase polymerase amplification assays using real-time fluorescent detection (real-time RT-RPA assay) and lateral flow strip detection (LFS RT-RPA assay) were developed targeting the N gene of PPRV...
February 7, 2017: Virology Journal
https://www.readbyqxmd.com/read/28168125/role-of-gamma-knife%C3%A2-radiosurgery-for-the-treatment-of-brain-metastases-from-gynecological-cancers
#8
Andrew Keller, Rahim Ismail, Peter S Potrebko, Julie Pepe, Meiling Wu, Kunal Saigal, Matthew Biagioli, Ravi Shridhar, Robert Holloway, Melvin Field, Nikhil G Rao
OBJECTIVE: Gamma Knife(®) (GK) (Elekta Instruments, Stockholm, Sweden) radiosurgery is well established for treatment of brain metastases. There are limited data on patients treated with GK from gynecological cancers. The authors sought to determine the effectiveness of the GK in patients with brain metastases from gynecological cancers. METHODS: An IRB-approved database was queried for patients with gynecologic cancers treated with GK between June 1996 and May 2016...
December 31, 2016: Curēus
https://www.readbyqxmd.com/read/28164495/isothermal-method-of-a-recombinase-polymerase-amplification-assay-for-the-detection-of-most-common-high-risk-human-papillomavirus-type-16-and-type-18-dna
#9
Biao Ma, Jiehong Fang, Ye Wang, Haizhen He, Mingyan Dai, Wei Lin, Wei Su, Mingzhou Zhang
BACKGROUND: Cervical cancer is a common gynecologic malignant tumor and has a great impact on women's health. Human papillomavirus (HPV) is implicated in cervical cancer and precancerous lesions and the two are possibly two stages of disease progression. With the technological development of molecular biology and epidemiology, detection and treatment of HPV has become an important means to prevent cervical cancer. METHODS: Here we present a novel, rapid, sensitive and specific isothermal method of recombinase polymerase amplification (RPA), which is established to detect the two most common high-risk human papillomavirus type 16 and type 18 DNA...
January 1, 2017: Clinical Laboratory
https://www.readbyqxmd.com/read/28161498/survival-impact-of-waiting-time-for-radical-radiotherapy-in-nasopharyngeal-carcinoma-a-large-institution-based-cohort-study-from-an-endemic-area
#10
Hu Liang, Yan-Qun Xiang, Xing Lv, Chang-Qing Xie, Su-Mei Cao, Lin Wang, Chao-Nan Qian, Jing Yang, Yan-Fang Ye, Feng Gan, Liang-Ru Ke, Ya-Hui Yu, Guo-Ying Liu, Wen-Ze Qiu, Xin-Jun Huang, Can-Hong Wen, Na You, Xue-Qin Wang, Xiang Guo, Wei-Xiong Xia
BACKGROUND: Whether the waiting time for radical radiotherapy (WRT) detrimentally impacts nasopharyngeal carcinoma (NPC) prognosis is unclear. We estimated the influence of WRT on overall survival (OS) and disease-specific survival (DSS) of NPC. PATIENTS AND METHODS: Patients were identified from prospectively maintained database. WRT was calculated from histological diagnosis to initiation of radiotherapy (RT). Survival analysis was estimated using Weibull parametric model and propensity score analysis (PSA)...
March 2017: European Journal of Cancer
https://www.readbyqxmd.com/read/28159666/development-of-a-recombinase-polymerase-amplification-lateral-flow-dipstick-rpa-lfd-for-the-field-diagnosis-of-caprine-arthritis-encephalitis-virus-caev-infection
#11
Po-An Tu, Jia-Shian Shiu, Shu-Hwae Lee, Victor Fei Pang, De-Chi Wang, Pei-Hwa Wang
Caprine arthritis-encephalitis (CAE) in goats is a complex disease syndrome caused by a lentivirus. This persistent viral infection results in arthritis in adult goats and encephalitis in lambs. The prognosis for the encephalitic form is normally poor, and this form of the disease has caused substantial economic losses for goat farmers. Hence, a more efficient detection platform based on recombinase polymerase amplification (RPA) and a lateral flow dipstick (LFD) was developed in the present study for detecting the proviral DNA of caprine arthritis-encephalitis virus (CAEV)...
January 31, 2017: Journal of Virological Methods
https://www.readbyqxmd.com/read/28156671/a-novel-risk-stratification-model-for-patients-with-brain-metastasis-incorporating-with-physiological-signals
#12
Tsung-Ying Ho, Eng-Yen Huang, Chong-Jong Wang
: 38 Background: Brain metastasis (BM) develops in 10%-40% of patients with malignancies. Survival expectancy is critical for choosing an optimal treatment for BM patients. Previous reports have proposed different risk stratification systems based on clinical and image-related factors. Heart rate variability (HRV), a physiological factor, has also been reported as a novel prognosticator for BM patients. In this study, we proposed a novel risk stratification model for BM patients by incorporating HRV signals...
October 9, 2016: Journal of Clinical Oncology: Official Journal of the American Society of Clinical Oncology
https://www.readbyqxmd.com/read/28139455/vascular-anatomy-in-children-with-univentricular-hearts-regarding-transcatheter-bidirectional-glenn-anastomosis
#13
Aleksander Sizarov, Francesca Raimondi, Damien Bonnet, Younes Boudjemline
BACKGROUND: Transcatheter stent-secured Glenn anastomosis, aiming to reduce the invasiveness of palliation in patients with univentricular heart defects, has been reported in large experimental animals. The advent of biodegradable stents and tissue-engineered vascular grafts will make this procedure a reality in human patients. However, the relationship between the superior vena cava (SVC) and the right pulmonary artery (RPA) is different in humans. AIM: To characterise vascular anatomy in children with univentricular hearts, regarding technical aspects and device design for this procedure...
January 27, 2017: Archives of Cardiovascular Diseases
https://www.readbyqxmd.com/read/28130344/putting-phds-to-work-phf11-clears-the-way-for-exo1-in-double-strand-break-repair
#14
REVIEW
Karl E Zahn, Roger A Greenberg
In this issue of Genes & Development, Gong and colleagues (pp. 46-58) bring to light a functional role for plant homeodomain finger 11 (PHF11) in 5' end resection at DNA double-strand breaks (DSBs). Using the proteomics of isolated chromatin segments (PICh) technique to purify deprotected telomeres, PHF11 was enriched as cells mounted a DNA damage response (DDR) against exposed chromosome ends. The study reveals interactions between PHF11 and multiple DNA repair proteins and suggests that PHF11 mediates 5' end resection by negotiating RPA-coated DNA repair intermediates...
January 1, 2017: Genes & Development
https://www.readbyqxmd.com/read/28126821/rpa-binds-histone-h3-h4-and-functions-in-dna-replication-coupled-nucleosome-assembly
#15
Shaofeng Liu, Zhiyun Xu, He Leng, Pu Zheng, Jiayi Yang, Kaifu Chen, Jianxun Feng, Qing Li
DNA replication-coupled nucleosome assembly is essential to maintain genome integrity and retain epigenetic information. Multiple involved histone chaperones have been identified, but how nucleosome assembly is coupled to DNA replication remains elusive. Here we show that replication protein A (RPA), an essential replisome component that binds single-stranded DNA, has a role in replication-coupled nucleosome assembly. RPA directly binds free H3-H4. Assays using a synthetic sequence that mimics freshly unwound single-stranded DNA at replication fork showed that RPA promotes DNA-(H3-H4) complex formation immediately adjacent to double-stranded DNA...
January 27, 2017: Science
https://www.readbyqxmd.com/read/28122203/reverse-transcription-recombinase-polymerase-amplification-assay-for-the-rapid-detection-of-type-2-porcine-reproductive-and-respiratory-syndrome-virus
#16
Jian-Chang Wang, Wan-Zhe Yuan, Qing-An Han, Jin-Feng Wang, Li-Bing Liu
Porcine reproductive and respiratory syndrome virus (PRRSV) is one of the most important pathogens in pigs, and has tremendous negative economic impact on the swine industry worldwide. PRRSV is classified into the two distinct genotypes: type 1 and type 2, and most of the described PRRSV isolates in China are type 2. Rapid and sensitive detection of PRRSV is of great importance for the disease control and regional eradication programs. Recombinase polymerase amplification (RPA) has emerged as a novel isothermal amplification technology for the molecular diagnosis of infectious diseases...
January 22, 2017: Journal of Virological Methods
https://www.readbyqxmd.com/read/28121443/reaction-path-averaging-characterizing-the-structural-response-of-the-dna-double-helix-to-electron-transfer
#17
Michal H Kolář, Tomáš Kubař
A polarizable environment, prominently the solvent, responds to electronic changes in biomolecules rapidly. The knowledge of conformational relaxation of the biomolecule itself, however, may be scarce or missing. In this work, we describe in detail the structural changes in DNA undergoing electron transfer between two adjacent nucleobases. We employ an approach based on averaging of tens to hundreds of thousands of nonequilibrium trajectories generated with molecular dynamics simulation, and a reduction of dimensionality suitable for DNA...
February 9, 2017: Journal of Physical Chemistry. B
https://www.readbyqxmd.com/read/28121016/regression-equations-for-calculation-of-z-scores-for-echocardiographic-measurements-of-right-heart-structures-in-healthy-han-chinese-children
#18
Shan-Shan Wang, Yu-Qi Zhang, Shu-Bao Chen, Guo-Ying Huang, Hong-Yan Zhang, Zhi-Fang Zhang, Lan-Ping Wu, Wen-Jing Hong, Rong Shen, Yi-Qing Liu, Jun-Xue Zhu
OBJECTIVE: Clinical decision making in children with congenital and acquired heart disease relies on measurements of cardiac structures using two-dimensional echocardiography. We aimed to establish z-score regression equations for right heart structures in healthy Chinese Han children. METHODS: Two-dimensional and M-mode echocardiography was performed in 515 patients. We measured the dimensions of the pulmonary valve annulus (PVA), main pulmonary artery (MPA), left pulmonary artery (LPA), right pulmonary artery (RPA), right ventricular outflow tract at end-diastole (RVOTd) and at end-systole (RVOTs), tricuspid valve annulus (TVA), right ventricular inflow tract at end-diastole (RVIDd) and at end-systole (RVIDs), and right atrium (RA)...
January 25, 2017: Journal of Clinical Ultrasound: JCU
https://www.readbyqxmd.com/read/28117174/stability-and-pre-formulation-development-of-a-plant-produced-anthrax-vaccine-candidate
#19
R Mark Jones, Michael Burke, Devon Dubose, Jessica A Chichester, Slobodanka Manceva, April Horsey, Stephen J Streatfield, Jeff Breit, Vidadi Yusibov
Second generation anthrax vaccines focus on the use of recombinant protective antigen (rPA) to elicit a strong, toxin neutralizing antibody responses in immunized subjects. The main difference between the rPA vaccines compared to the current licensed vaccine, anthrax vaccine absorbed (AVA), is the rPA vaccines are highly purified preparations of only rPA. These second generation rPA vaccines strive to elicit strong immune responses with substantially fewer doses than AVA while provoking less side effects. Many of the rPA candidates have shown to be effective in pre-clinical studies, but most of the second generation molecules have stability issues which reduce their efficacy over time...
January 20, 2017: Vaccine
https://www.readbyqxmd.com/read/28115467/phf11-promotes-dsb-resection-atr-signaling-and-hr
#20
Yi Gong, Naofumi Handa, Stephen C Kowalczykowski, Titia de Lange
Resection of double-strand breaks (DSBs) plays a critical role in their detection and appropriate repair. The 3' ssDNA protrusion formed through resection activates the ATR-dependent DNA damage response (DDR) and is required for DSB repair by homologous recombination (HR). Here we report that PHF11 (plant homeodomain finger 11) encodes a previously unknown DDR factor involved in 5' end resection, ATR signaling, and HR. PHF11 was identified based on its association with deprotected telomeres and localized to sites of DNA damage in S phase...
January 1, 2017: Genes & Development
keyword
keyword
53316
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"